{
 "cells": [
  {
   "cell_type": "code",
   "execution_count": 121,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "gpu3\n"
     ]
    }
   ],
   "source": [
    "import os\n",
    "os.environ[\"THEANO_FLAGS\"] = 'cuda.root=/usr/local/cuda,floatX=float32,device=gpu3,force_device=False'\n",
    "\n",
    "import theano\n",
    "print(theano.config.device)\n",
    "\n",
    "import mhcflurry, seaborn, numpy, pandas, pickle, sklearn, collections, scipy, time, logging, sys\n",
    "import mhcflurry.dataset\n",
    "import fancyimpute\n",
    "\n",
    "import sklearn.metrics\n",
    "import sklearn.cross_validation\n",
    "from collections import defaultdict\n",
    "import numpy as np\n",
    "import pepdata\n",
    "\n",
    "def print_full(x):\n",
    "    pandas.set_option('display.max_rows', len(x))\n",
    "    print(x)\n",
    "    pandas.reset_option('display.max_rows')\n",
    "\n",
    "from matplotlib import pyplot\n",
    "%matplotlib inline\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 2,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": [
    "min_peptides_to_consider_allele = 10\n",
    "max_ic50 = 50000\n",
    "data_dir = \"../data/\""
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 3,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "all_train_data = mhcflurry.dataset.Dataset.from_csv(data_dir + \"bdata.2009.mhci.public.1.txt\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 4,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "data": {
      "text/html": [
       "<div>\n",
       "<table border=\"1\" class=\"dataframe\">\n",
       "  <thead>\n",
       "    <tr style=\"text-align: right;\">\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th>species</th>\n",
       "      <th>allele</th>\n",
       "      <th>peptide_length</th>\n",
       "      <th>cv</th>\n",
       "      <th>peptide</th>\n",
       "      <th>inequality</th>\n",
       "      <th>affinity</th>\n",
       "      <th>sample_weight</th>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>allele</th>\n",
       "      <th>peptide</th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "      <th></th>\n",
       "    </tr>\n",
       "  </thead>\n",
       "  <tbody>\n",
       "    <tr>\n",
       "      <th rowspan=\"14\" valign=\"top\">ELA-A1</th>\n",
       "      <th>GSQKLTTGNCNW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>GSQKLTTGNCNW</td>\n",
       "      <td>=</td>\n",
       "      <td>605.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>HVKDETNTTEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>HVKDETNTTEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>880.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>LVEDVTNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>LVEDVTNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>170.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDKTNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDKTNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>70.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVKNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVKNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>65.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTLTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTLTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>150.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNKAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNKAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>80.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNTAELW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNTAELW</td>\n",
       "      <td>=</td>\n",
       "      <td>25.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNTAEYL</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNTAEYL</td>\n",
       "      <td>=</td>\n",
       "      <td>97.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>39.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNTALYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNTALYW</td>\n",
       "      <td>=</td>\n",
       "      <td>78.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEDVTNTKEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEDVTNTKEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>36.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVEKVTNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVEKVTNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>110.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RVLDVTNTAEYW</th>\n",
       "      <td>None</td>\n",
       "      <td>ELA-A1</td>\n",
       "      <td>12</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RVLDVTNTAEYW</td>\n",
       "      <td>=</td>\n",
       "      <td>520.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th rowspan=\"15\" valign=\"top\">Gogo-B0101</th>\n",
       "      <th>RRFVNVVPTF</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>10</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RRFVNVVPTF</td>\n",
       "      <td>=</td>\n",
       "      <td>196.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>ERYLKDQQL</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>ERYLKDQQL</td>\n",
       "      <td>=</td>\n",
       "      <td>14579.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>GRFKLIVLY</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>GRFKLIVLY</td>\n",
       "      <td>=</td>\n",
       "      <td>3091.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>IDFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>IDFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>107383.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>IFFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>IFFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>3174.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>IKFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>IKFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>3274.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>ILFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>ILFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>998.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>INFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>INFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>23443.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>IRFPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>IRFPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>30.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>IRYPKTFGW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>IRYPKTFGW</td>\n",
       "      <td>=</td>\n",
       "      <td>54.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>KRGILTLKY</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>KRGILTLKY</td>\n",
       "      <td>=</td>\n",
       "      <td>668.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>KRKKAYADF</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>KRKKAYADF</td>\n",
       "      <td>=</td>\n",
       "      <td>6115.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>KRYKSIVKY</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>KRYKSIVKY</td>\n",
       "      <td>=</td>\n",
       "      <td>100.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>RRYQKSTEL</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>RRYQKSTEL</td>\n",
       "      <td>=</td>\n",
       "      <td>53.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SRDKTIIMW</th>\n",
       "      <td>gorilla</td>\n",
       "      <td>Gogo-B0101</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SRDKTIIMW</td>\n",
       "      <td>=</td>\n",
       "      <td>128.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>H-2-DB</th>\n",
       "      <th>AAAAAAYAAM</th>\n",
       "      <td>mouse</td>\n",
       "      <td>H-2-DB</td>\n",
       "      <td>10</td>\n",
       "      <td>TBD</td>\n",
       "      <td>AAAAAAYAAM</td>\n",
       "      <td>=</td>\n",
       "      <td>7333.333333</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>...</th>\n",
       "      <th>...</th>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "      <td>...</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th rowspan=\"30\" valign=\"top\">Patr-B2401</th>\n",
       "      <th>SLYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SLYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>22409.304697</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SNYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SNYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>4803.932379</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SPYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SPYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>8210.634469</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SQYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SQYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>3841.245189</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SRYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SRYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>18216.870451</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SSYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SSYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>12389.030549</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>STYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>STYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>22995.859278</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SVYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SVYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>1504.790451</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>SYYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>SYYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>21620.468423</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TDATSILGI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TDATSILGI</td>\n",
       "      <td>=</td>\n",
       "      <td>9.565772</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TDNSSPPAV</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TDNSSPPAV</td>\n",
       "      <td>=</td>\n",
       "      <td>69.913924</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TDYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TDYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>12.150058</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TEAMTRYSA</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TEAMTRYSA</td>\n",
       "      <td>=</td>\n",
       "      <td>36866.750907</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TESTLSTAL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TESTLSTAL</td>\n",
       "      <td>=</td>\n",
       "      <td>52196.730666</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>TILGIGTVL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>TILGIGTVL</td>\n",
       "      <td>&gt;</td>\n",
       "      <td>78125.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDFIPVENL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDFIPVENL</td>\n",
       "      <td>=</td>\n",
       "      <td>1304.671425</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDILAGYGA</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDILAGYGA</td>\n",
       "      <td>=</td>\n",
       "      <td>1529.550065</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDKNPHNTA</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDKNPHNTA</td>\n",
       "      <td>&gt;</td>\n",
       "      <td>78125.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDPNIRTGV</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDPNIRTGV</td>\n",
       "      <td>&gt;</td>\n",
       "      <td>78125.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDVQYLYGV</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDVQYLYGV</td>\n",
       "      <td>=</td>\n",
       "      <td>26.168385</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VDYLELDTI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VDYLELDTI</td>\n",
       "      <td>=</td>\n",
       "      <td>8.751466</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VEAQLHVWV</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VEAQLHVWV</td>\n",
       "      <td>=</td>\n",
       "      <td>11679.657915</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>VESENKVVI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>VESENKVVI</td>\n",
       "      <td>=</td>\n",
       "      <td>12912.904034</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>WDQMWKCLI</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>WDQMWKCLI</td>\n",
       "      <td>=</td>\n",
       "      <td>45.677950</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>WEQDLQHGA</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>WEQDLQHGA</td>\n",
       "      <td>=</td>\n",
       "      <td>58495.538057</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>WETARHTPV</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>WETARHTPV</td>\n",
       "      <td>=</td>\n",
       "      <td>21366.204458</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>WEYVVLLFL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>WEYVVLLFL</td>\n",
       "      <td>=</td>\n",
       "      <td>3422.601957</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>YAAQGYKVL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>YAAQGYKVL</td>\n",
       "      <td>&gt;</td>\n",
       "      <td>78125.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>YDVVSKLPL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>YDVVSKLPL</td>\n",
       "      <td>=</td>\n",
       "      <td>281.737403</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "    <tr>\n",
       "      <th>YVQMALMKL</th>\n",
       "      <td>chimpanzee</td>\n",
       "      <td>Patr-B2401</td>\n",
       "      <td>9</td>\n",
       "      <td>TBD</td>\n",
       "      <td>YVQMALMKL</td>\n",
       "      <td>&gt;</td>\n",
       "      <td>78125.000000</td>\n",
       "      <td>1.0</td>\n",
       "    </tr>\n",
       "  </tbody>\n",
       "</table>\n",
       "<p>137654 rows × 8 columns</p>\n",
       "</div>"
      ],
      "text/plain": [
       "                            species      allele  peptide_length   cv  \\\n",
       "allele     peptide                                                     \n",
       "ELA-A1     GSQKLTTGNCNW        None      ELA-A1              12  TBD   \n",
       "           HVKDETNTTEYW        None      ELA-A1              12  TBD   \n",
       "           LVEDVTNTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDKTNTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVKNTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTLTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNKAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNTAELW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNTAEYL        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNTALYW        None      ELA-A1              12  TBD   \n",
       "           RVEDVTNTKEYW        None      ELA-A1              12  TBD   \n",
       "           RVEKVTNTAEYW        None      ELA-A1              12  TBD   \n",
       "           RVLDVTNTAEYW        None      ELA-A1              12  TBD   \n",
       "Gogo-B0101 RRFVNVVPTF       gorilla  Gogo-B0101              10  TBD   \n",
       "           ERYLKDQQL        gorilla  Gogo-B0101               9  TBD   \n",
       "           GRFKLIVLY        gorilla  Gogo-B0101               9  TBD   \n",
       "           IDFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           IFFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           IKFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           ILFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           INFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           IRFPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           IRYPKTFGW        gorilla  Gogo-B0101               9  TBD   \n",
       "           KRGILTLKY        gorilla  Gogo-B0101               9  TBD   \n",
       "           KRKKAYADF        gorilla  Gogo-B0101               9  TBD   \n",
       "           KRYKSIVKY        gorilla  Gogo-B0101               9  TBD   \n",
       "           RRYQKSTEL        gorilla  Gogo-B0101               9  TBD   \n",
       "           SRDKTIIMW        gorilla  Gogo-B0101               9  TBD   \n",
       "H-2-DB     AAAAAAYAAM         mouse      H-2-DB              10  TBD   \n",
       "...                             ...         ...             ...  ...   \n",
       "Patr-B2401 SLYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SNYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SPYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SQYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SRYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SSYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           STYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SVYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           SYYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TDATSILGI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TDNSSPPAV     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TDYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TEAMTRYSA     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TESTLSTAL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           TILGIGTVL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDFIPVENL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDILAGYGA     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDKNPHNTA     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDPNIRTGV     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDVQYLYGV     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VDYLELDTI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VEAQLHVWV     chimpanzee  Patr-B2401               9  TBD   \n",
       "           VESENKVVI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           WDQMWKCLI     chimpanzee  Patr-B2401               9  TBD   \n",
       "           WEQDLQHGA     chimpanzee  Patr-B2401               9  TBD   \n",
       "           WETARHTPV     chimpanzee  Patr-B2401               9  TBD   \n",
       "           WEYVVLLFL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           YAAQGYKVL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           YDVVSKLPL     chimpanzee  Patr-B2401               9  TBD   \n",
       "           YVQMALMKL     chimpanzee  Patr-B2401               9  TBD   \n",
       "\n",
       "                              peptide inequality       affinity  sample_weight  \n",
       "allele     peptide                                                              \n",
       "ELA-A1     GSQKLTTGNCNW  GSQKLTTGNCNW          =     605.000000            1.0  \n",
       "           HVKDETNTTEYW  HVKDETNTTEYW          =     880.000000            1.0  \n",
       "           LVEDVTNTAEYW  LVEDVTNTAEYW          =     170.000000            1.0  \n",
       "           RVEDKTNTAEYW  RVEDKTNTAEYW          =      70.000000            1.0  \n",
       "           RVEDVKNTAEYW  RVEDVKNTAEYW          =      65.000000            1.0  \n",
       "           RVEDVTLTAEYW  RVEDVTLTAEYW          =     150.000000            1.0  \n",
       "           RVEDVTNKAEYW  RVEDVTNKAEYW          =      80.000000            1.0  \n",
       "           RVEDVTNTAELW  RVEDVTNTAELW          =      25.000000            1.0  \n",
       "           RVEDVTNTAEYL  RVEDVTNTAEYL          =      97.000000            1.0  \n",
       "           RVEDVTNTAEYW  RVEDVTNTAEYW          =      39.000000            1.0  \n",
       "           RVEDVTNTALYW  RVEDVTNTALYW          =      78.000000            1.0  \n",
       "           RVEDVTNTKEYW  RVEDVTNTKEYW          =      36.000000            1.0  \n",
       "           RVEKVTNTAEYW  RVEKVTNTAEYW          =     110.000000            1.0  \n",
       "           RVLDVTNTAEYW  RVLDVTNTAEYW          =     520.000000            1.0  \n",
       "Gogo-B0101 RRFVNVVPTF      RRFVNVVPTF          =     196.000000            1.0  \n",
       "           ERYLKDQQL        ERYLKDQQL          =   14579.000000            1.0  \n",
       "           GRFKLIVLY        GRFKLIVLY          =    3091.000000            1.0  \n",
       "           IDFPKTFGW        IDFPKTFGW          =  107383.000000            1.0  \n",
       "           IFFPKTFGW        IFFPKTFGW          =    3174.000000            1.0  \n",
       "           IKFPKTFGW        IKFPKTFGW          =    3274.000000            1.0  \n",
       "           ILFPKTFGW        ILFPKTFGW          =     998.000000            1.0  \n",
       "           INFPKTFGW        INFPKTFGW          =   23443.000000            1.0  \n",
       "           IRFPKTFGW        IRFPKTFGW          =      30.000000            1.0  \n",
       "           IRYPKTFGW        IRYPKTFGW          =      54.000000            1.0  \n",
       "           KRGILTLKY        KRGILTLKY          =     668.000000            1.0  \n",
       "           KRKKAYADF        KRKKAYADF          =    6115.000000            1.0  \n",
       "           KRYKSIVKY        KRYKSIVKY          =     100.000000            1.0  \n",
       "           RRYQKSTEL        RRYQKSTEL          =      53.000000            1.0  \n",
       "           SRDKTIIMW        SRDKTIIMW          =     128.000000            1.0  \n",
       "H-2-DB     AAAAAAYAAM      AAAAAAYAAM          =    7333.333333            1.0  \n",
       "...                               ...        ...            ...            ...  \n",
       "Patr-B2401 SLYLELDTI        SLYLELDTI          =   22409.304697            1.0  \n",
       "           SNYLELDTI        SNYLELDTI          =    4803.932379            1.0  \n",
       "           SPYLELDTI        SPYLELDTI          =    8210.634469            1.0  \n",
       "           SQYLELDTI        SQYLELDTI          =    3841.245189            1.0  \n",
       "           SRYLELDTI        SRYLELDTI          =   18216.870451            1.0  \n",
       "           SSYLELDTI        SSYLELDTI          =   12389.030549            1.0  \n",
       "           STYLELDTI        STYLELDTI          =   22995.859278            1.0  \n",
       "           SVYLELDTI        SVYLELDTI          =    1504.790451            1.0  \n",
       "           SYYLELDTI        SYYLELDTI          =   21620.468423            1.0  \n",
       "           TDATSILGI        TDATSILGI          =       9.565772            1.0  \n",
       "           TDNSSPPAV        TDNSSPPAV          =      69.913924            1.0  \n",
       "           TDYLELDTI        TDYLELDTI          =      12.150058            1.0  \n",
       "           TEAMTRYSA        TEAMTRYSA          =   36866.750907            1.0  \n",
       "           TESTLSTAL        TESTLSTAL          =   52196.730666            1.0  \n",
       "           TILGIGTVL        TILGIGTVL          >   78125.000000            1.0  \n",
       "           VDFIPVENL        VDFIPVENL          =    1304.671425            1.0  \n",
       "           VDILAGYGA        VDILAGYGA          =    1529.550065            1.0  \n",
       "           VDKNPHNTA        VDKNPHNTA          >   78125.000000            1.0  \n",
       "           VDPNIRTGV        VDPNIRTGV          >   78125.000000            1.0  \n",
       "           VDVQYLYGV        VDVQYLYGV          =      26.168385            1.0  \n",
       "           VDYLELDTI        VDYLELDTI          =       8.751466            1.0  \n",
       "           VEAQLHVWV        VEAQLHVWV          =   11679.657915            1.0  \n",
       "           VESENKVVI        VESENKVVI          =   12912.904034            1.0  \n",
       "           WDQMWKCLI        WDQMWKCLI          =      45.677950            1.0  \n",
       "           WEQDLQHGA        WEQDLQHGA          =   58495.538057            1.0  \n",
       "           WETARHTPV        WETARHTPV          =   21366.204458            1.0  \n",
       "           WEYVVLLFL        WEYVVLLFL          =    3422.601957            1.0  \n",
       "           YAAQGYKVL        YAAQGYKVL          >   78125.000000            1.0  \n",
       "           YDVVSKLPL        YDVVSKLPL          =     281.737403            1.0  \n",
       "           YVQMALMKL        YVQMALMKL          >   78125.000000            1.0  \n",
       "\n",
       "[137654 rows x 8 columns]"
      ]
     },
     "execution_count": 4,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "all_train_data._df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 5,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "data": {
      "text/plain": [
       "HLA-A2602    202\n",
       "HLA-A2603    205\n",
       "Name: allele, dtype: int64"
      ]
     },
     "execution_count": 5,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "alleles = [\n",
    "    #\"HLA-A0201\",\n",
    "    # \"HLA-A0301\",\n",
    "    # \"HLA-A0203\",\n",
    "    \"HLA-A2602\",\n",
    "    \"HLA-A2603\",\n",
    "    # 'HLA-B7301',\n",
    "]\n",
    "all_train_data._df.allele.value_counts()[alleles]\n",
    "#alleles = alleles[:1] + alleles[-1:]\n",
    "#alleles = [allele for allele in all_train_data if len(all_train_data[allele].Y) >= min_peptides_to_consider_allele]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 6,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "def log_to_ic50(log_value):\n",
    "        \"\"\"\n",
    "        Convert neural network output to IC50 values between 0.0 and\n",
    "        self.max_ic50 (typically 5000, 20000 or 50000)\n",
    "        \"\"\"\n",
    "        return max_ic50 ** (1.0 - log_value)\n",
    "\n",
    "def make_scores(ic50_y, ic50_y_pred, sample_weight=None, threshold_nm=500):     \n",
    "    y_pred = mhcflurry.regression_target.ic50_to_regression_target(ic50_y_pred, max_ic50)\n",
    "    try:\n",
    "        auc = sklearn.metrics.roc_auc_score(ic50_y <= threshold_nm, y_pred, sample_weight=sample_weight)\n",
    "    except ValueError:\n",
    "        auc = numpy.nan\n",
    "    try:\n",
    "        f1 = sklearn.metrics.f1_score(ic50_y <= threshold_nm, ic50_y_pred <= threshold_nm, sample_weight=sample_weight)\n",
    "    except ValueError:\n",
    "        f1 = numpy.nan\n",
    "    try:\n",
    "        tau = scipy.stats.kendalltau(ic50_y_pred, ic50_y)[0]\n",
    "    except ValueError:\n",
    "        tau = numpy.nan\n",
    "    \n",
    "    return dict(\n",
    "        auc=auc,\n",
    "        f1=f1,\n",
    "        tau=tau,\n",
    "    )    \n",
    "\n",
    "    \n",
    "def Xmake_scores(y, y_pred, weights=None, sample_weight=None, threshold_nm=500):\n",
    "    ic50_y = log_to_ic50(y)\n",
    "    ic50_y_pred = log_to_ic50(y_pred) \n",
    "    return dict(\n",
    "        auc=sklearn.metrics.roc_auc_score(ic50_y <= threshold_nm, y_pred, sample_weight=sample_weight),\n",
    "        f1=sklearn.metrics.f1_score(ic50_y <= threshold_nm, ic50_y_pred <= threshold_nm, sample_weight=sample_weight),\n",
    "        tau=scipy.stats.kendalltau(y_pred, y)[0],\n",
    "    )    \n",
    "\n",
    "def mean_with_std(grouped_column, decimals=3):\n",
    "    pattern = \"%%0.%df\" % decimals\n",
    "    return pandas.Series([\n",
    "        (pattern + \" +/ \" + pattern) % (m, s) if not pandas.isnull(s) else pattern % m\n",
    "        for (m, s) in zip(grouped_column.mean(), grouped_column.std())\n",
    "    ], index = grouped_column.mean().index)\n",
    "\n",
    "\n",
    "\n",
    "def Xcollapse_9mer_affinities(Y_9mer_true, Y_9mer_pred, original_peptides):\n",
    "    \"\"\"\n",
    "    Parameters\n",
    "    ----------\n",
    "    Y_9mer_true : np.array of float\n",
    "        True regression target values for 9mers extracted from longer/shorter peptides\n",
    "    \n",
    "    Y_9mer_pred : np.array of float\n",
    "        Predicted values for 9mers\n",
    "    \n",
    "    original_peptides : np.array of str\n",
    "        Original peptides of varying length that 9mers were extracted from.\n",
    "    \"\"\"\n",
    "    # collapse multiple 9mer predictions and measured values into \n",
    "    # smaller set of predictions for peptides of varying lengths\n",
    "    peptide_to_true_affinity_dict = defaultdict(list)\n",
    "    peptide_to_predicted_affinity_dict = defaultdict(list)\n",
    "    for i, p in enumerate(original_peptides):\n",
    "        peptide_to_true_affinity_dict[p].append(Y_9mer_true[i])\n",
    "        peptide_to_predicted_affinity_dict[p].append(Y_9mer_pred[i])\n",
    "\n",
    "    unique_peptides = list(sorted(set(peptide_to_predicted_affinity_dict.keys())))\n",
    "    print(\"-- # unique peptides = %d\" % (len(unique_peptides),))\n",
    "    Y_true = np.array([\n",
    "            np.mean(peptide_to_true_affinity_dict[p]) for p in unique_peptides ])\n",
    "    Y_pred = np.array([\n",
    "            np.mean(peptide_to_predicted_affinity_dict[p]) for p in unique_peptides])\n",
    "    return Y_true, Y_pred"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": 164,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "2 models\n"
     ]
    },
    {
     "data": {
      "text/plain": [
       "{'activation',\n",
       " 'dropout_probability',\n",
       " 'embedding_output_dim',\n",
       " 'fraction_negative',\n",
       " 'impute',\n",
       " 'layer_sizes',\n",
       " 'n_training_epochs',\n",
       " 'pretrain_decay'}"
      ]
     },
     "execution_count": 164,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "dropout_probabilities = [0.5]\n",
    "\n",
    "embedding_output_dims = [32]\n",
    "\n",
    "layer_sizes_list = [[64]]\n",
    "\n",
    "activations = [\"tanh\"]\n",
    "\n",
    "models_params_list = []\n",
    "for model_num in range(1):\n",
    "    for n_training_epochs in [250]:\n",
    "        for impute in [False, True]:\n",
    "            for pretrain_decay in [\"1 / (1+epoch)**2\"]: #\"numpy.exp(-epoch)\"]:\n",
    "                for fraction_negative in [.2]:\n",
    "                    for dropout_probability in dropout_probabilities:\n",
    "                        for embedding_output_dim in embedding_output_dims:\n",
    "                            for layer_sizes in layer_sizes_list:\n",
    "                                for activation in activations:\n",
    "                                    models_params_list.append(dict(\n",
    "                                        n_training_epochs=n_training_epochs,\n",
    "                                        impute=impute,\n",
    "                                        pretrain_decay=pretrain_decay,\n",
    "                                        fraction_negative=fraction_negative,\n",
    "                                        dropout_probability=dropout_probability,  \n",
    "                                        embedding_output_dim=embedding_output_dim,\n",
    "                                        layer_sizes=layer_sizes,\n",
    "                                        activation=activation))\n",
    "\n",
    "print(\"%d models\" % len(models_params_list))\n",
    "models_params_explored = set.union(*[set(x) for x in models_params_list])\n",
    "models_params_explored\n",
    "\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 8,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "data": {
      "text/plain": [
       "<module 'mhcflurry' from '/home/tim/sinai/git/mhcflurry/mhcflurry/__init__.pyc'>"
      ]
     },
     "execution_count": 8,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "reload(mhcflurry.class1_binding_predictor)\n",
    "reload(mhcflurry)\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 15,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": [
    "gbmr4_transformer = pepdata.reduced_alphabet.make_alphabet_transformer(\"gbmr4\")\n",
    "def default_projector(peptide):\n",
    "    \"\"\"\n",
    "    Given a peptide, return a list of projections for it. The projections are:\n",
    "        - the gbmr4 reduced representation\n",
    "        - for all positions in the peptide, the peptide with a \".\" replacing the residue at that position\n",
    "    \n",
    "    Parameters\n",
    "    ----------\n",
    "    peptide : string\n",
    "    \n",
    "    Returns\n",
    "    ----------\n",
    "    string list\n",
    "    \"\"\"\n",
    "    def projections(peptide, edit_distance=1):\n",
    "        if edit_distance == 0:\n",
    "            return set([peptide])\n",
    "        return set.union(*[\n",
    "                projections(p, edit_distance - 1)\n",
    "                for p in (peptide[0:i] + \".\" + peptide[(i+1):] for i in range(len(peptide)))\n",
    "        ])\n",
    "    return sorted(projections(peptide)) + [gbmr4_transformer(peptide)]\n",
    "\n",
    "def similar_peptides(set1, set2, projector=default_projector):\n",
    "    \"\"\"\n",
    "    Given two sets of peptides, return a list of the peptides whose reduced representations\n",
    "    are found in both sets.\n",
    "    \n",
    "    Parameters\n",
    "    ----------\n",
    "    projector : (string -> string) or (string -> string list)\n",
    "        Function giving projection(s) of a peptide\n",
    "        \n",
    "    Returns\n",
    "    ----------\n",
    "    string list\n",
    "        \n",
    "    \"\"\"\n",
    "    result = collections.defaultdict(lambda: ([], []))\n",
    "    for (index, peptides) in enumerate([set1, set2]):\n",
    "        for peptide in peptides:\n",
    "            projections = projector(peptide)\n",
    "            if not isinstance(projections, list):\n",
    "                projections = [projections]\n",
    "            for projection in projections:\n",
    "                result[projection][index].append(peptide)\n",
    "    \n",
    "    common = set()\n",
    "    for (peptides1, peptides2) in result.values():\n",
    "        if peptides1 and peptides2:\n",
    "            common.update(peptides1 + peptides2)\n",
    "\n",
    "    return sorted(common)\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 27,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": [
    "imputer = fancyimpute.MICE(n_imputations=50, n_burn_in=5, n_nearest_columns=25)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 16,
   "metadata": {
    "collapsed": false,
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Allele: HLA-A2602\n",
      "Peptides to remove: 10: ['DILASIIDY', 'DTTTDISKY', 'EVIEQWHSL', 'KQWGWFALL', 'QVGIFLICK', 'REMGIVDLL', 'RRMATTFTF', 'RRYTRRISL', 'TTAKAMEQM', 'TVGYMYIMK']\n",
      "After dropping similar peptides, test size 68 -> 63\n",
      "Dropping 12246 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19292, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.569\n",
      "[MICE] Starting imputation round 3/110, elapsed time 3.111\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.665\n",
      "[MICE] Starting imputation round 5/110, elapsed time 6.208\n",
      "[MICE] Starting imputation round 6/110, elapsed time 7.737\n",
      "[MICE] Starting imputation round 7/110, elapsed time 9.265\n",
      "[MICE] Starting imputation round 8/110, elapsed time 10.791\n",
      "[MICE] Starting imputation round 9/110, elapsed time 12.317\n",
      "[MICE] Starting imputation round 10/110, elapsed time 13.843\n",
      "[MICE] Starting imputation round 11/110, elapsed time 15.252\n",
      "[MICE] Starting imputation round 12/110, elapsed time 16.644\n",
      "[MICE] Starting imputation round 13/110, elapsed time 18.050\n",
      "[MICE] Starting imputation round 14/110, elapsed time 19.488\n",
      "[MICE] Starting imputation round 15/110, elapsed time 20.925\n",
      "[MICE] Starting imputation round 16/110, elapsed time 22.360\n",
      "[MICE] Starting imputation round 17/110, elapsed time 23.760\n",
      "[MICE] Starting imputation round 18/110, elapsed time 25.169\n",
      "[MICE] Starting imputation round 19/110, elapsed time 26.581\n",
      "[MICE] Starting imputation round 20/110, elapsed time 28.087\n",
      "[MICE] Starting imputation round 21/110, elapsed time 29.626\n",
      "[MICE] Starting imputation round 22/110, elapsed time 31.160\n",
      "[MICE] Starting imputation round 23/110, elapsed time 32.700\n",
      "[MICE] Starting imputation round 24/110, elapsed time 34.274\n",
      "[MICE] Starting imputation round 25/110, elapsed time 35.836\n",
      "[MICE] Starting imputation round 26/110, elapsed time 37.390\n",
      "[MICE] Starting imputation round 27/110, elapsed time 38.946\n",
      "[MICE] Starting imputation round 28/110, elapsed time 40.448\n",
      "[MICE] Starting imputation round 29/110, elapsed time 41.820\n",
      "[MICE] Starting imputation round 30/110, elapsed time 43.348\n",
      "[MICE] Starting imputation round 31/110, elapsed time 44.899\n",
      "[MICE] Starting imputation round 32/110, elapsed time 46.454\n",
      "[MICE] Starting imputation round 33/110, elapsed time 48.042\n",
      "[MICE] Starting imputation round 34/110, elapsed time 49.600\n",
      "[MICE] Starting imputation round 35/110, elapsed time 51.143\n",
      "[MICE] Starting imputation round 36/110, elapsed time 52.683\n",
      "[MICE] Starting imputation round 37/110, elapsed time 54.228\n",
      "[MICE] Starting imputation round 38/110, elapsed time 55.784\n",
      "[MICE] Starting imputation round 39/110, elapsed time 57.333\n",
      "[MICE] Starting imputation round 40/110, elapsed time 58.878\n",
      "[MICE] Starting imputation round 41/110, elapsed time 60.430\n",
      "[MICE] Starting imputation round 42/110, elapsed time 61.982\n",
      "[MICE] Starting imputation round 43/110, elapsed time 63.539\n",
      "[MICE] Starting imputation round 44/110, elapsed time 65.008\n",
      "[MICE] Starting imputation round 45/110, elapsed time 66.472\n",
      "[MICE] Starting imputation round 46/110, elapsed time 68.019\n",
      "[MICE] Starting imputation round 47/110, elapsed time 69.465\n",
      "[MICE] Starting imputation round 48/110, elapsed time 71.006\n",
      "[MICE] Starting imputation round 49/110, elapsed time 72.561\n",
      "[MICE] Starting imputation round 50/110, elapsed time 74.114\n",
      "[MICE] Starting imputation round 51/110, elapsed time 75.692\n",
      "[MICE] Starting imputation round 52/110, elapsed time 77.242\n",
      "[MICE] Starting imputation round 53/110, elapsed time 78.812\n",
      "[MICE] Starting imputation round 54/110, elapsed time 80.361\n",
      "[MICE] Starting imputation round 55/110, elapsed time 81.914\n",
      "[MICE] Starting imputation round 56/110, elapsed time 83.456\n",
      "[MICE] Starting imputation round 57/110, elapsed time 85.003\n",
      "[MICE] Starting imputation round 58/110, elapsed time 86.564\n",
      "[MICE] Starting imputation round 59/110, elapsed time 88.157\n",
      "[MICE] Starting imputation round 60/110, elapsed time 89.718\n",
      "[MICE] Starting imputation round 61/110, elapsed time 91.280\n",
      "[MICE] Starting imputation round 62/110, elapsed time 92.858\n",
      "[MICE] Starting imputation round 63/110, elapsed time 94.432\n",
      "[MICE] Starting imputation round 64/110, elapsed time 95.910\n",
      "[MICE] Starting imputation round 65/110, elapsed time 97.370\n",
      "[MICE] Starting imputation round 66/110, elapsed time 98.819\n",
      "[MICE] Starting imputation round 67/110, elapsed time 100.261\n",
      "[MICE] Starting imputation round 68/110, elapsed time 101.679\n",
      "[MICE] Starting imputation round 69/110, elapsed time 103.194\n",
      "[MICE] Starting imputation round 70/110, elapsed time 104.675\n",
      "[MICE] Starting imputation round 71/110, elapsed time 106.137\n",
      "[MICE] Starting imputation round 72/110, elapsed time 107.682\n",
      "[MICE] Starting imputation round 73/110, elapsed time 109.154\n",
      "[MICE] Starting imputation round 74/110, elapsed time 110.623\n",
      "[MICE] Starting imputation round 75/110, elapsed time 112.068\n",
      "[MICE] Starting imputation round 76/110, elapsed time 113.518\n",
      "[MICE] Starting imputation round 77/110, elapsed time 114.983\n",
      "[MICE] Starting imputation round 78/110, elapsed time 116.484\n",
      "[MICE] Starting imputation round 79/110, elapsed time 117.948\n",
      "[MICE] Starting imputation round 80/110, elapsed time 119.487\n",
      "[MICE] Starting imputation round 81/110, elapsed time 121.059\n",
      "[MICE] Starting imputation round 82/110, elapsed time 122.632\n",
      "[MICE] Starting imputation round 83/110, elapsed time 124.111\n",
      "[MICE] Starting imputation round 84/110, elapsed time 125.590\n",
      "[MICE] Starting imputation round 85/110, elapsed time 127.040\n",
      "[MICE] Starting imputation round 86/110, elapsed time 128.590\n",
      "[MICE] Starting imputation round 87/110, elapsed time 130.077\n",
      "[MICE] Starting imputation round 88/110, elapsed time 131.660\n",
      "[MICE] Starting imputation round 89/110, elapsed time 133.218\n",
      "[MICE] Starting imputation round 90/110, elapsed time 134.761\n",
      "[MICE] Starting imputation round 91/110, elapsed time 136.337\n",
      "[MICE] Starting imputation round 92/110, elapsed time 137.901\n",
      "[MICE] Starting imputation round 93/110, elapsed time 139.448\n",
      "[MICE] Starting imputation round 94/110, elapsed time 141.018\n",
      "[MICE] Starting imputation round 95/110, elapsed time 142.568\n",
      "[MICE] Starting imputation round 96/110, elapsed time 144.117\n",
      "[MICE] Starting imputation round 97/110, elapsed time 145.661\n",
      "[MICE] Starting imputation round 98/110, elapsed time 147.164\n",
      "[MICE] Starting imputation round 99/110, elapsed time 148.618\n",
      "[MICE] Starting imputation round 100/110, elapsed time 150.091\n",
      "[MICE] Starting imputation round 101/110, elapsed time 151.538\n",
      "[MICE] Starting imputation round 102/110, elapsed time 153.009\n",
      "[MICE] Starting imputation round 103/110, elapsed time 154.480\n",
      "[MICE] Starting imputation round 104/110, elapsed time 155.879\n",
      "[MICE] Starting imputation round 105/110, elapsed time 157.324\n",
      "[MICE] Starting imputation round 106/110, elapsed time 158.763\n",
      "[MICE] Starting imputation round 107/110, elapsed time 160.274\n",
      "[MICE] Starting imputation round 108/110, elapsed time 161.796\n",
      "[MICE] Starting imputation round 109/110, elapsed time 163.313\n",
      "[MICE] Starting imputation round 110/110, elapsed time 164.863\n",
      "Peptides to remove: 10: ['DILASIIDY', 'DTTTDISKY', 'EVADRVIFM', 'EVAESVMFM', 'EVIEQWHSL', 'QVGIFLICK', 'RRMATTFTF', 'RRYTRRISL', 'TTAKAMEQM', 'TVGYMYIMK']\n",
      "After dropping similar peptides, test size 67 -> 62\n",
      "Dropping 12240 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19298, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.649\n",
      "[MICE] Starting imputation round 3/110, elapsed time 3.280\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.918\n",
      "[MICE] Starting imputation round 5/110, elapsed time 6.547\n",
      "[MICE] Starting imputation round 6/110, elapsed time 8.398\n",
      "[MICE] Starting imputation round 7/110, elapsed time 10.967\n",
      "[MICE] Starting imputation round 8/110, elapsed time 13.556\n",
      "[MICE] Starting imputation round 9/110, elapsed time 16.025\n",
      "[MICE] Starting imputation round 10/110, elapsed time 17.582\n",
      "[MICE] Starting imputation round 11/110, elapsed time 19.025\n",
      "[MICE] Starting imputation round 12/110, elapsed time 20.477\n",
      "[MICE] Starting imputation round 13/110, elapsed time 21.930\n",
      "[MICE] Starting imputation round 14/110, elapsed time 23.382\n",
      "[MICE] Starting imputation round 15/110, elapsed time 24.829\n",
      "[MICE] Starting imputation round 16/110, elapsed time 26.279\n",
      "[MICE] Starting imputation round 17/110, elapsed time 27.732\n",
      "[MICE] Starting imputation round 18/110, elapsed time 29.180\n",
      "[MICE] Starting imputation round 19/110, elapsed time 30.627\n",
      "[MICE] Starting imputation round 20/110, elapsed time 32.091\n",
      "[MICE] Starting imputation round 21/110, elapsed time 33.548\n",
      "[MICE] Starting imputation round 22/110, elapsed time 35.001\n",
      "[MICE] Starting imputation round 23/110, elapsed time 36.459\n",
      "[MICE] Starting imputation round 24/110, elapsed time 37.918\n",
      "[MICE] Starting imputation round 25/110, elapsed time 39.372\n",
      "[MICE] Starting imputation round 26/110, elapsed time 40.831\n",
      "[MICE] Starting imputation round 27/110, elapsed time 42.290\n",
      "[MICE] Starting imputation round 28/110, elapsed time 43.744\n",
      "[MICE] Starting imputation round 29/110, elapsed time 45.205\n",
      "[MICE] Starting imputation round 30/110, elapsed time 46.660\n",
      "[MICE] Starting imputation round 31/110, elapsed time 48.117\n",
      "[MICE] Starting imputation round 32/110, elapsed time 49.574\n",
      "[MICE] Starting imputation round 33/110, elapsed time 51.033\n",
      "[MICE] Starting imputation round 34/110, elapsed time 52.497\n",
      "[MICE] Starting imputation round 35/110, elapsed time 53.962\n",
      "[MICE] Starting imputation round 36/110, elapsed time 55.416\n",
      "[MICE] Starting imputation round 37/110, elapsed time 56.871\n",
      "[MICE] Starting imputation round 38/110, elapsed time 58.332\n",
      "[MICE] Starting imputation round 39/110, elapsed time 59.789\n",
      "[MICE] Starting imputation round 40/110, elapsed time 61.244\n",
      "[MICE] Starting imputation round 41/110, elapsed time 62.714\n",
      "[MICE] Starting imputation round 42/110, elapsed time 64.184\n",
      "[MICE] Starting imputation round 43/110, elapsed time 65.652\n",
      "[MICE] Starting imputation round 44/110, elapsed time 67.114\n",
      "[MICE] Starting imputation round 45/110, elapsed time 68.578\n",
      "[MICE] Starting imputation round 46/110, elapsed time 70.044\n",
      "[MICE] Starting imputation round 47/110, elapsed time 71.505\n",
      "[MICE] Starting imputation round 48/110, elapsed time 72.960\n",
      "[MICE] Starting imputation round 49/110, elapsed time 74.417\n",
      "[MICE] Starting imputation round 50/110, elapsed time 75.879\n",
      "[MICE] Starting imputation round 51/110, elapsed time 77.338\n",
      "[MICE] Starting imputation round 52/110, elapsed time 78.791\n",
      "[MICE] Starting imputation round 53/110, elapsed time 80.243\n",
      "[MICE] Starting imputation round 54/110, elapsed time 81.707\n",
      "[MICE] Starting imputation round 55/110, elapsed time 83.163\n",
      "[MICE] Starting imputation round 56/110, elapsed time 84.623\n",
      "[MICE] Starting imputation round 57/110, elapsed time 86.072\n",
      "[MICE] Starting imputation round 58/110, elapsed time 87.529\n",
      "[MICE] Starting imputation round 59/110, elapsed time 88.981\n",
      "[MICE] Starting imputation round 60/110, elapsed time 90.437\n",
      "[MICE] Starting imputation round 61/110, elapsed time 91.889\n",
      "[MICE] Starting imputation round 62/110, elapsed time 93.354\n",
      "[MICE] Starting imputation round 63/110, elapsed time 94.806\n",
      "[MICE] Starting imputation round 64/110, elapsed time 96.261\n",
      "[MICE] Starting imputation round 65/110, elapsed time 97.715\n",
      "[MICE] Starting imputation round 66/110, elapsed time 99.176\n",
      "[MICE] Starting imputation round 67/110, elapsed time 100.632\n",
      "[MICE] Starting imputation round 68/110, elapsed time 102.085\n",
      "[MICE] Starting imputation round 69/110, elapsed time 103.534\n",
      "[MICE] Starting imputation round 70/110, elapsed time 104.989\n",
      "[MICE] Starting imputation round 71/110, elapsed time 106.443\n",
      "[MICE] Starting imputation round 72/110, elapsed time 107.899\n",
      "[MICE] Starting imputation round 73/110, elapsed time 109.365\n",
      "[MICE] Starting imputation round 74/110, elapsed time 110.830\n",
      "[MICE] Starting imputation round 75/110, elapsed time 112.275\n",
      "[MICE] Starting imputation round 76/110, elapsed time 113.735\n",
      "[MICE] Starting imputation round 77/110, elapsed time 115.187\n",
      "[MICE] Starting imputation round 78/110, elapsed time 116.638\n",
      "[MICE] Starting imputation round 79/110, elapsed time 118.088\n",
      "[MICE] Starting imputation round 80/110, elapsed time 119.545\n",
      "[MICE] Starting imputation round 81/110, elapsed time 121.016\n",
      "[MICE] Starting imputation round 82/110, elapsed time 122.486\n",
      "[MICE] Starting imputation round 83/110, elapsed time 123.947\n",
      "[MICE] Starting imputation round 84/110, elapsed time 125.591\n",
      "[MICE] Starting imputation round 85/110, elapsed time 127.058\n",
      "[MICE] Starting imputation round 86/110, elapsed time 128.512\n",
      "[MICE] Starting imputation round 87/110, elapsed time 130.032\n",
      "[MICE] Starting imputation round 88/110, elapsed time 131.661\n",
      "[MICE] Starting imputation round 89/110, elapsed time 133.295\n",
      "[MICE] Starting imputation round 90/110, elapsed time 134.920\n",
      "[MICE] Starting imputation round 91/110, elapsed time 136.412\n",
      "[MICE] Starting imputation round 92/110, elapsed time 137.919\n",
      "[MICE] Starting imputation round 93/110, elapsed time 139.547\n",
      "[MICE] Starting imputation round 94/110, elapsed time 141.180\n",
      "[MICE] Starting imputation round 95/110, elapsed time 142.791\n",
      "[MICE] Starting imputation round 96/110, elapsed time 144.342\n",
      "[MICE] Starting imputation round 97/110, elapsed time 145.954\n",
      "[MICE] Starting imputation round 98/110, elapsed time 147.371\n",
      "[MICE] Starting imputation round 99/110, elapsed time 148.903\n",
      "[MICE] Starting imputation round 100/110, elapsed time 150.508\n",
      "[MICE] Starting imputation round 101/110, elapsed time 152.134\n",
      "[MICE] Starting imputation round 102/110, elapsed time 153.761\n",
      "[MICE] Starting imputation round 103/110, elapsed time 155.254\n",
      "[MICE] Starting imputation round 104/110, elapsed time 156.708\n",
      "[MICE] Starting imputation round 105/110, elapsed time 158.159\n",
      "[MICE] Starting imputation round 106/110, elapsed time 159.613\n",
      "[MICE] Starting imputation round 107/110, elapsed time 161.165\n",
      "[MICE] Starting imputation round 108/110, elapsed time 162.772\n",
      "[MICE] Starting imputation round 109/110, elapsed time 164.227\n",
      "[MICE] Starting imputation round 110/110, elapsed time 165.676\n",
      "Peptides to remove: 4: ['EVADRVIFM', 'EVAESVMFM', 'KQWGWFALL', 'REMGIVDLL']\n",
      "After dropping similar peptides, test size 67 -> 65\n",
      "Dropping 12238 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19301, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.550\n",
      "[MICE] Starting imputation round 3/110, elapsed time 3.027\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.541\n",
      "[MICE] Starting imputation round 5/110, elapsed time 6.047\n",
      "[MICE] Starting imputation round 6/110, elapsed time 7.557\n",
      "[MICE] Starting imputation round 7/110, elapsed time 9.053\n",
      "[MICE] Starting imputation round 8/110, elapsed time 10.551\n",
      "[MICE] Starting imputation round 9/110, elapsed time 12.048\n",
      "[MICE] Starting imputation round 10/110, elapsed time 13.542\n",
      "[MICE] Starting imputation round 11/110, elapsed time 15.009\n",
      "[MICE] Starting imputation round 12/110, elapsed time 16.513\n",
      "[MICE] Starting imputation round 13/110, elapsed time 18.025\n",
      "[MICE] Starting imputation round 14/110, elapsed time 19.529\n",
      "[MICE] Starting imputation round 15/110, elapsed time 21.225\n",
      "[MICE] Starting imputation round 16/110, elapsed time 23.046\n",
      "[MICE] Starting imputation round 17/110, elapsed time 24.872\n",
      "[MICE] Starting imputation round 18/110, elapsed time 26.704\n",
      "[MICE] Starting imputation round 19/110, elapsed time 28.525\n",
      "[MICE] Starting imputation round 20/110, elapsed time 30.359\n",
      "[MICE] Starting imputation round 21/110, elapsed time 32.186\n",
      "[MICE] Starting imputation round 22/110, elapsed time 34.006\n",
      "[MICE] Starting imputation round 23/110, elapsed time 35.836\n",
      "[MICE] Starting imputation round 24/110, elapsed time 37.666\n",
      "[MICE] Starting imputation round 25/110, elapsed time 39.494\n",
      "[MICE] Starting imputation round 26/110, elapsed time 41.329\n",
      "[MICE] Starting imputation round 27/110, elapsed time 43.157\n",
      "[MICE] Starting imputation round 28/110, elapsed time 44.989\n",
      "[MICE] Starting imputation round 29/110, elapsed time 46.815\n",
      "[MICE] Starting imputation round 30/110, elapsed time 48.640\n",
      "[MICE] Starting imputation round 31/110, elapsed time 50.484\n",
      "[MICE] Starting imputation round 32/110, elapsed time 52.330\n",
      "[MICE] Starting imputation round 33/110, elapsed time 54.173\n",
      "[MICE] Starting imputation round 34/110, elapsed time 56.004\n",
      "[MICE] Starting imputation round 35/110, elapsed time 57.838\n",
      "[MICE] Starting imputation round 36/110, elapsed time 59.660\n",
      "[MICE] Starting imputation round 37/110, elapsed time 61.487\n",
      "[MICE] Starting imputation round 38/110, elapsed time 63.320\n",
      "[MICE] Starting imputation round 39/110, elapsed time 65.152\n",
      "[MICE] Starting imputation round 40/110, elapsed time 66.987\n",
      "[MICE] Starting imputation round 41/110, elapsed time 68.818\n",
      "[MICE] Starting imputation round 42/110, elapsed time 70.647\n",
      "[MICE] Starting imputation round 43/110, elapsed time 72.480\n",
      "[MICE] Starting imputation round 44/110, elapsed time 74.326\n",
      "[MICE] Starting imputation round 45/110, elapsed time 76.154\n",
      "[MICE] Starting imputation round 46/110, elapsed time 77.994\n",
      "[MICE] Starting imputation round 47/110, elapsed time 79.830\n",
      "[MICE] Starting imputation round 48/110, elapsed time 81.664\n",
      "[MICE] Starting imputation round 49/110, elapsed time 83.498\n",
      "[MICE] Starting imputation round 50/110, elapsed time 85.337\n",
      "[MICE] Starting imputation round 51/110, elapsed time 87.161\n",
      "[MICE] Starting imputation round 52/110, elapsed time 89.003\n",
      "[MICE] Starting imputation round 53/110, elapsed time 90.837\n",
      "[MICE] Starting imputation round 54/110, elapsed time 92.679\n",
      "[MICE] Starting imputation round 55/110, elapsed time 94.511\n",
      "[MICE] Starting imputation round 56/110, elapsed time 96.346\n",
      "[MICE] Starting imputation round 57/110, elapsed time 98.175\n",
      "[MICE] Starting imputation round 58/110, elapsed time 100.039\n",
      "[MICE] Starting imputation round 59/110, elapsed time 101.889\n",
      "[MICE] Starting imputation round 60/110, elapsed time 103.726\n",
      "[MICE] Starting imputation round 61/110, elapsed time 105.548\n",
      "[MICE] Starting imputation round 62/110, elapsed time 107.384\n",
      "[MICE] Starting imputation round 63/110, elapsed time 109.213\n",
      "[MICE] Starting imputation round 64/110, elapsed time 111.054\n",
      "[MICE] Starting imputation round 65/110, elapsed time 112.884\n",
      "[MICE] Starting imputation round 66/110, elapsed time 114.721\n",
      "[MICE] Starting imputation round 67/110, elapsed time 116.551\n",
      "[MICE] Starting imputation round 68/110, elapsed time 118.389\n",
      "[MICE] Starting imputation round 69/110, elapsed time 120.219\n",
      "[MICE] Starting imputation round 70/110, elapsed time 122.055\n",
      "[MICE] Starting imputation round 71/110, elapsed time 123.880\n",
      "[MICE] Starting imputation round 72/110, elapsed time 125.719\n",
      "[MICE] Starting imputation round 73/110, elapsed time 127.548\n",
      "[MICE] Starting imputation round 74/110, elapsed time 129.385\n",
      "[MICE] Starting imputation round 75/110, elapsed time 131.213\n",
      "[MICE] Starting imputation round 76/110, elapsed time 133.047\n",
      "[MICE] Starting imputation round 77/110, elapsed time 134.879\n",
      "[MICE] Starting imputation round 78/110, elapsed time 136.714\n",
      "[MICE] Starting imputation round 79/110, elapsed time 138.542\n",
      "[MICE] Starting imputation round 80/110, elapsed time 140.377\n",
      "[MICE] Starting imputation round 81/110, elapsed time 142.208\n",
      "[MICE] Starting imputation round 82/110, elapsed time 144.035\n",
      "[MICE] Starting imputation round 83/110, elapsed time 145.861\n",
      "[MICE] Starting imputation round 84/110, elapsed time 147.697\n",
      "[MICE] Starting imputation round 85/110, elapsed time 149.550\n",
      "[MICE] Starting imputation round 86/110, elapsed time 151.399\n",
      "[MICE] Starting imputation round 87/110, elapsed time 153.239\n",
      "[MICE] Starting imputation round 88/110, elapsed time 155.071\n",
      "[MICE] Starting imputation round 89/110, elapsed time 156.897\n",
      "[MICE] Starting imputation round 90/110, elapsed time 158.730\n",
      "[MICE] Starting imputation round 91/110, elapsed time 160.556\n",
      "[MICE] Starting imputation round 92/110, elapsed time 162.388\n",
      "[MICE] Starting imputation round 93/110, elapsed time 164.215\n",
      "[MICE] Starting imputation round 94/110, elapsed time 166.047\n",
      "[MICE] Starting imputation round 95/110, elapsed time 167.872\n",
      "[MICE] Starting imputation round 96/110, elapsed time 169.700\n",
      "[MICE] Starting imputation round 97/110, elapsed time 171.534\n",
      "[MICE] Starting imputation round 98/110, elapsed time 173.364\n",
      "[MICE] Starting imputation round 99/110, elapsed time 175.191\n",
      "[MICE] Starting imputation round 100/110, elapsed time 177.030\n",
      "[MICE] Starting imputation round 101/110, elapsed time 178.866\n",
      "[MICE] Starting imputation round 102/110, elapsed time 180.702\n",
      "[MICE] Starting imputation round 103/110, elapsed time 182.535\n",
      "[MICE] Starting imputation round 104/110, elapsed time 184.361\n",
      "[MICE] Starting imputation round 105/110, elapsed time 186.193\n",
      "[MICE] Starting imputation round 106/110, elapsed time 188.022\n",
      "[MICE] Starting imputation round 107/110, elapsed time 189.853\n",
      "[MICE] Starting imputation round 108/110, elapsed time 191.682\n",
      "[MICE] Starting imputation round 109/110, elapsed time 193.520\n",
      "[MICE] Starting imputation round 110/110, elapsed time 195.354\n",
      "Allele: HLA-A2603\n",
      "Peptides to remove: 10: ['AQNAISTTF', 'EFKQILTDF', 'EYKKFIATF', 'KRMMIRYCL', 'KRMMVRHCL', 'RQAELSKAY', 'RRMATTFTF', 'RRYTRRISL', 'WESGAVLCV', 'YERGNIIIF']\n",
      "After dropping similar peptides, test size 69 -> 64\n",
      "Dropping 12229 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19304, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.506\n",
      "[MICE] Starting imputation round 3/110, elapsed time 2.945\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.438\n",
      "[MICE] Starting imputation round 5/110, elapsed time 5.967\n",
      "[MICE] Starting imputation round 6/110, elapsed time 7.488\n",
      "[MICE] Starting imputation round 7/110, elapsed time 8.993\n",
      "[MICE] Starting imputation round 8/110, elapsed time 10.433\n",
      "[MICE] Starting imputation round 9/110, elapsed time 11.885\n",
      "[MICE] Starting imputation round 10/110, elapsed time 13.341\n",
      "[MICE] Starting imputation round 11/110, elapsed time 14.781\n",
      "[MICE] Starting imputation round 12/110, elapsed time 16.252\n",
      "[MICE] Starting imputation round 13/110, elapsed time 17.756\n",
      "[MICE] Starting imputation round 14/110, elapsed time 19.284\n",
      "[MICE] Starting imputation round 15/110, elapsed time 20.726\n",
      "[MICE] Starting imputation round 16/110, elapsed time 22.272\n",
      "[MICE] Starting imputation round 17/110, elapsed time 23.793\n",
      "[MICE] Starting imputation round 18/110, elapsed time 25.305\n",
      "[MICE] Starting imputation round 19/110, elapsed time 26.845\n",
      "[MICE] Starting imputation round 20/110, elapsed time 28.285\n",
      "[MICE] Starting imputation round 21/110, elapsed time 29.723\n",
      "[MICE] Starting imputation round 22/110, elapsed time 31.159\n",
      "[MICE] Starting imputation round 23/110, elapsed time 32.596\n",
      "[MICE] Starting imputation round 24/110, elapsed time 34.123\n",
      "[MICE] Starting imputation round 25/110, elapsed time 35.573\n",
      "[MICE] Starting imputation round 26/110, elapsed time 37.027\n",
      "[MICE] Starting imputation round 27/110, elapsed time 38.548\n",
      "[MICE] Starting imputation round 28/110, elapsed time 40.075\n",
      "[MICE] Starting imputation round 29/110, elapsed time 41.542\n",
      "[MICE] Starting imputation round 30/110, elapsed time 42.974\n",
      "[MICE] Starting imputation round 31/110, elapsed time 44.425\n",
      "[MICE] Starting imputation round 32/110, elapsed time 45.854\n",
      "[MICE] Starting imputation round 33/110, elapsed time 47.284\n",
      "[MICE] Starting imputation round 34/110, elapsed time 48.780\n",
      "[MICE] Starting imputation round 35/110, elapsed time 50.214\n",
      "[MICE] Starting imputation round 36/110, elapsed time 51.681\n",
      "[MICE] Starting imputation round 37/110, elapsed time 53.115\n",
      "[MICE] Starting imputation round 38/110, elapsed time 54.576\n",
      "[MICE] Starting imputation round 39/110, elapsed time 56.007\n",
      "[MICE] Starting imputation round 40/110, elapsed time 57.454\n",
      "[MICE] Starting imputation round 41/110, elapsed time 58.882\n",
      "[MICE] Starting imputation round 42/110, elapsed time 60.328\n",
      "[MICE] Starting imputation round 43/110, elapsed time 61.767\n",
      "[MICE] Starting imputation round 44/110, elapsed time 63.202\n",
      "[MICE] Starting imputation round 45/110, elapsed time 64.696\n",
      "[MICE] Starting imputation round 46/110, elapsed time 66.223\n",
      "[MICE] Starting imputation round 47/110, elapsed time 67.749\n",
      "[MICE] Starting imputation round 48/110, elapsed time 69.252\n",
      "[MICE] Starting imputation round 49/110, elapsed time 70.692\n",
      "[MICE] Starting imputation round 50/110, elapsed time 72.129\n",
      "[MICE] Starting imputation round 51/110, elapsed time 73.561\n",
      "[MICE] Starting imputation round 52/110, elapsed time 75.000\n",
      "[MICE] Starting imputation round 53/110, elapsed time 76.435\n",
      "[MICE] Starting imputation round 54/110, elapsed time 77.869\n",
      "[MICE] Starting imputation round 55/110, elapsed time 79.300\n",
      "[MICE] Starting imputation round 56/110, elapsed time 80.737\n",
      "[MICE] Starting imputation round 57/110, elapsed time 82.173\n",
      "[MICE] Starting imputation round 58/110, elapsed time 83.612\n",
      "[MICE] Starting imputation round 59/110, elapsed time 85.048\n",
      "[MICE] Starting imputation round 60/110, elapsed time 86.486\n",
      "[MICE] Starting imputation round 61/110, elapsed time 87.926\n",
      "[MICE] Starting imputation round 62/110, elapsed time 89.356\n",
      "[MICE] Starting imputation round 63/110, elapsed time 90.787\n",
      "[MICE] Starting imputation round 64/110, elapsed time 92.220\n",
      "[MICE] Starting imputation round 65/110, elapsed time 93.651\n",
      "[MICE] Starting imputation round 66/110, elapsed time 95.082\n",
      "[MICE] Starting imputation round 67/110, elapsed time 96.516\n",
      "[MICE] Starting imputation round 68/110, elapsed time 97.946\n",
      "[MICE] Starting imputation round 69/110, elapsed time 99.379\n",
      "[MICE] Starting imputation round 70/110, elapsed time 100.814\n",
      "[MICE] Starting imputation round 71/110, elapsed time 102.246\n",
      "[MICE] Starting imputation round 72/110, elapsed time 103.681\n",
      "[MICE] Starting imputation round 73/110, elapsed time 105.115\n",
      "[MICE] Starting imputation round 74/110, elapsed time 106.548\n",
      "[MICE] Starting imputation round 75/110, elapsed time 107.982\n",
      "[MICE] Starting imputation round 76/110, elapsed time 109.414\n",
      "[MICE] Starting imputation round 77/110, elapsed time 110.845\n",
      "[MICE] Starting imputation round 78/110, elapsed time 112.278\n",
      "[MICE] Starting imputation round 79/110, elapsed time 113.714\n",
      "[MICE] Starting imputation round 80/110, elapsed time 115.163\n",
      "[MICE] Starting imputation round 81/110, elapsed time 116.613\n",
      "[MICE] Starting imputation round 82/110, elapsed time 118.064\n",
      "[MICE] Starting imputation round 83/110, elapsed time 119.497\n",
      "[MICE] Starting imputation round 84/110, elapsed time 120.932\n",
      "[MICE] Starting imputation round 85/110, elapsed time 122.370\n",
      "[MICE] Starting imputation round 86/110, elapsed time 123.803\n",
      "[MICE] Starting imputation round 87/110, elapsed time 125.236\n",
      "[MICE] Starting imputation round 88/110, elapsed time 126.669\n",
      "[MICE] Starting imputation round 89/110, elapsed time 128.099\n",
      "[MICE] Starting imputation round 90/110, elapsed time 129.528\n",
      "[MICE] Starting imputation round 91/110, elapsed time 130.961\n",
      "[MICE] Starting imputation round 92/110, elapsed time 132.394\n",
      "[MICE] Starting imputation round 93/110, elapsed time 133.826\n",
      "[MICE] Starting imputation round 94/110, elapsed time 135.260\n",
      "[MICE] Starting imputation round 95/110, elapsed time 136.693\n",
      "[MICE] Starting imputation round 96/110, elapsed time 138.128\n",
      "[MICE] Starting imputation round 97/110, elapsed time 139.561\n",
      "[MICE] Starting imputation round 98/110, elapsed time 140.990\n",
      "[MICE] Starting imputation round 99/110, elapsed time 142.420\n",
      "[MICE] Starting imputation round 100/110, elapsed time 143.860\n",
      "[MICE] Starting imputation round 101/110, elapsed time 145.296\n",
      "[MICE] Starting imputation round 102/110, elapsed time 146.733\n",
      "[MICE] Starting imputation round 103/110, elapsed time 148.173\n",
      "[MICE] Starting imputation round 104/110, elapsed time 149.610\n",
      "[MICE] Starting imputation round 105/110, elapsed time 151.045\n",
      "[MICE] Starting imputation round 106/110, elapsed time 152.486\n",
      "[MICE] Starting imputation round 107/110, elapsed time 153.927\n",
      "[MICE] Starting imputation round 108/110, elapsed time 155.363\n",
      "[MICE] Starting imputation round 109/110, elapsed time 156.802\n",
      "[MICE] Starting imputation round 110/110, elapsed time 158.236\n",
      "Peptides to remove: 14: ['DIRQDVIAM', 'EFKQILTDF', 'EYKKFIATF', 'FLMRNAIQY', 'FYLFTFTIY', 'IHSDQLSKF', 'IIYERDFSY', 'IVHVDHECF', 'KRMMIRYCL', 'KRMMVRHCL', 'RIKTRLFTI', 'RRMATTFTF', 'RRYTRRISL', 'WHQARFEEL']\n",
      "After dropping similar peptides, test size 68 -> 61\n",
      "Dropping 12229 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19304, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.498\n",
      "[MICE] Starting imputation round 3/110, elapsed time 2.920\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.338\n",
      "[MICE] Starting imputation round 5/110, elapsed time 5.760\n",
      "[MICE] Starting imputation round 6/110, elapsed time 7.177\n",
      "[MICE] Starting imputation round 7/110, elapsed time 8.524\n",
      "[MICE] Starting imputation round 8/110, elapsed time 9.946\n",
      "[MICE] Starting imputation round 9/110, elapsed time 11.368\n",
      "[MICE] Starting imputation round 10/110, elapsed time 12.791\n",
      "[MICE] Starting imputation round 11/110, elapsed time 14.213\n",
      "[MICE] Starting imputation round 12/110, elapsed time 15.642\n",
      "[MICE] Starting imputation round 13/110, elapsed time 17.072\n",
      "[MICE] Starting imputation round 14/110, elapsed time 18.499\n",
      "[MICE] Starting imputation round 15/110, elapsed time 19.925\n",
      "[MICE] Starting imputation round 16/110, elapsed time 21.349\n",
      "[MICE] Starting imputation round 17/110, elapsed time 22.776\n",
      "[MICE] Starting imputation round 18/110, elapsed time 24.206\n",
      "[MICE] Starting imputation round 19/110, elapsed time 25.642\n",
      "[MICE] Starting imputation round 20/110, elapsed time 27.073\n",
      "[MICE] Starting imputation round 21/110, elapsed time 28.499\n",
      "[MICE] Starting imputation round 22/110, elapsed time 29.926\n",
      "[MICE] Starting imputation round 23/110, elapsed time 31.354\n",
      "[MICE] Starting imputation round 24/110, elapsed time 32.785\n",
      "[MICE] Starting imputation round 25/110, elapsed time 34.205\n",
      "[MICE] Starting imputation round 26/110, elapsed time 35.630\n",
      "[MICE] Starting imputation round 27/110, elapsed time 37.054\n",
      "[MICE] Starting imputation round 28/110, elapsed time 38.481\n",
      "[MICE] Starting imputation round 29/110, elapsed time 39.917\n",
      "[MICE] Starting imputation round 30/110, elapsed time 41.351\n",
      "[MICE] Starting imputation round 31/110, elapsed time 42.779\n",
      "[MICE] Starting imputation round 32/110, elapsed time 44.209\n",
      "[MICE] Starting imputation round 33/110, elapsed time 45.648\n",
      "[MICE] Starting imputation round 34/110, elapsed time 47.076\n",
      "[MICE] Starting imputation round 35/110, elapsed time 48.516\n",
      "[MICE] Starting imputation round 36/110, elapsed time 49.948\n",
      "[MICE] Starting imputation round 37/110, elapsed time 51.380\n",
      "[MICE] Starting imputation round 38/110, elapsed time 52.816\n",
      "[MICE] Starting imputation round 39/110, elapsed time 54.254\n",
      "[MICE] Starting imputation round 40/110, elapsed time 55.686\n",
      "[MICE] Starting imputation round 41/110, elapsed time 57.120\n",
      "[MICE] Starting imputation round 42/110, elapsed time 58.549\n",
      "[MICE] Starting imputation round 43/110, elapsed time 59.980\n",
      "[MICE] Starting imputation round 44/110, elapsed time 61.407\n",
      "[MICE] Starting imputation round 45/110, elapsed time 62.842\n",
      "[MICE] Starting imputation round 46/110, elapsed time 64.288\n",
      "[MICE] Starting imputation round 47/110, elapsed time 65.731\n",
      "[MICE] Starting imputation round 48/110, elapsed time 67.174\n",
      "[MICE] Starting imputation round 49/110, elapsed time 68.611\n",
      "[MICE] Starting imputation round 50/110, elapsed time 70.038\n",
      "[MICE] Starting imputation round 51/110, elapsed time 71.470\n",
      "[MICE] Starting imputation round 52/110, elapsed time 72.902\n",
      "[MICE] Starting imputation round 53/110, elapsed time 74.335\n",
      "[MICE] Starting imputation round 54/110, elapsed time 75.766\n",
      "[MICE] Starting imputation round 55/110, elapsed time 77.197\n",
      "[MICE] Starting imputation round 56/110, elapsed time 78.630\n",
      "[MICE] Starting imputation round 57/110, elapsed time 80.069\n",
      "[MICE] Starting imputation round 58/110, elapsed time 81.503\n",
      "[MICE] Starting imputation round 59/110, elapsed time 82.936\n",
      "[MICE] Starting imputation round 60/110, elapsed time 84.375\n",
      "[MICE] Starting imputation round 61/110, elapsed time 85.813\n",
      "[MICE] Starting imputation round 62/110, elapsed time 87.249\n",
      "[MICE] Starting imputation round 63/110, elapsed time 88.680\n",
      "[MICE] Starting imputation round 64/110, elapsed time 90.117\n",
      "[MICE] Starting imputation round 65/110, elapsed time 91.561\n",
      "[MICE] Starting imputation round 66/110, elapsed time 93.001\n",
      "[MICE] Starting imputation round 67/110, elapsed time 94.433\n",
      "[MICE] Starting imputation round 68/110, elapsed time 95.862\n",
      "[MICE] Starting imputation round 69/110, elapsed time 97.290\n",
      "[MICE] Starting imputation round 70/110, elapsed time 98.721\n",
      "[MICE] Starting imputation round 71/110, elapsed time 100.153\n",
      "[MICE] Starting imputation round 72/110, elapsed time 101.586\n",
      "[MICE] Starting imputation round 73/110, elapsed time 103.016\n",
      "[MICE] Starting imputation round 74/110, elapsed time 104.449\n",
      "[MICE] Starting imputation round 75/110, elapsed time 105.887\n",
      "[MICE] Starting imputation round 76/110, elapsed time 107.317\n",
      "[MICE] Starting imputation round 77/110, elapsed time 108.753\n",
      "[MICE] Starting imputation round 78/110, elapsed time 110.190\n",
      "[MICE] Starting imputation round 79/110, elapsed time 111.630\n",
      "[MICE] Starting imputation round 80/110, elapsed time 113.060\n",
      "[MICE] Starting imputation round 81/110, elapsed time 114.497\n",
      "[MICE] Starting imputation round 82/110, elapsed time 115.938\n",
      "[MICE] Starting imputation round 83/110, elapsed time 117.375\n",
      "[MICE] Starting imputation round 84/110, elapsed time 118.814\n",
      "[MICE] Starting imputation round 85/110, elapsed time 120.245\n",
      "[MICE] Starting imputation round 86/110, elapsed time 121.675\n",
      "[MICE] Starting imputation round 87/110, elapsed time 123.112\n",
      "[MICE] Starting imputation round 88/110, elapsed time 124.545\n",
      "[MICE] Starting imputation round 89/110, elapsed time 125.979\n",
      "[MICE] Starting imputation round 90/110, elapsed time 127.411\n",
      "[MICE] Starting imputation round 91/110, elapsed time 128.844\n",
      "[MICE] Starting imputation round 92/110, elapsed time 130.275\n",
      "[MICE] Starting imputation round 93/110, elapsed time 131.716\n",
      "[MICE] Starting imputation round 94/110, elapsed time 133.147\n",
      "[MICE] Starting imputation round 95/110, elapsed time 134.588\n",
      "[MICE] Starting imputation round 96/110, elapsed time 136.020\n",
      "[MICE] Starting imputation round 97/110, elapsed time 137.454\n",
      "[MICE] Starting imputation round 98/110, elapsed time 138.887\n",
      "[MICE] Starting imputation round 99/110, elapsed time 140.318\n",
      "[MICE] Starting imputation round 100/110, elapsed time 141.747\n",
      "[MICE] Starting imputation round 101/110, elapsed time 143.180\n",
      "[MICE] Starting imputation round 102/110, elapsed time 144.610\n",
      "[MICE] Starting imputation round 103/110, elapsed time 146.041\n",
      "[MICE] Starting imputation round 104/110, elapsed time 147.472\n",
      "[MICE] Starting imputation round 105/110, elapsed time 148.905\n",
      "[MICE] Starting imputation round 106/110, elapsed time 150.335\n",
      "[MICE] Starting imputation round 107/110, elapsed time 151.770\n",
      "[MICE] Starting imputation round 108/110, elapsed time 153.200\n",
      "[MICE] Starting imputation round 109/110, elapsed time 154.638\n",
      "[MICE] Starting imputation round 110/110, elapsed time 156.071\n",
      "Peptides to remove: 12: ['AQNAISTTF', 'DIRQDVIAM', 'FLMRNAIQY', 'FYLFTFTIY', 'IHSDQLSKF', 'IIYERDFSY', 'IVHVDHECF', 'RIKTRLFTI', 'RQAELSKAY', 'WESGAVLCV', 'WHQARFEEL', 'YERGNIIIF']\n",
      "After dropping similar peptides, test size 68 -> 62\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19304, 97)\n",
      "[MICE] Starting imputation round 1/110, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/110, elapsed time 1.493\n",
      "[MICE] Starting imputation round 3/110, elapsed time 2.912\n",
      "[MICE] Starting imputation round 4/110, elapsed time 4.331\n",
      "[MICE] Starting imputation round 5/110, elapsed time 5.750\n",
      "[MICE] Starting imputation round 6/110, elapsed time 7.169\n",
      "[MICE] Starting imputation round 7/110, elapsed time 8.587\n",
      "[MICE] Starting imputation round 8/110, elapsed time 10.006\n",
      "[MICE] Starting imputation round 9/110, elapsed time 11.424\n",
      "[MICE] Starting imputation round 10/110, elapsed time 12.843\n",
      "[MICE] Starting imputation round 11/110, elapsed time 14.263\n",
      "[MICE] Starting imputation round 12/110, elapsed time 15.691\n",
      "[MICE] Starting imputation round 13/110, elapsed time 17.137\n",
      "[MICE] Starting imputation round 14/110, elapsed time 18.583\n",
      "[MICE] Starting imputation round 15/110, elapsed time 20.005\n",
      "[MICE] Starting imputation round 16/110, elapsed time 21.423\n",
      "[MICE] Starting imputation round 17/110, elapsed time 22.841\n",
      "[MICE] Starting imputation round 18/110, elapsed time 24.267\n",
      "[MICE] Starting imputation round 19/110, elapsed time 25.701\n",
      "[MICE] Starting imputation round 20/110, elapsed time 27.128\n",
      "[MICE] Starting imputation round 21/110, elapsed time 28.554\n",
      "[MICE] Starting imputation round 22/110, elapsed time 29.983\n",
      "[MICE] Starting imputation round 23/110, elapsed time 31.407\n",
      "[MICE] Starting imputation round 24/110, elapsed time 32.826\n",
      "[MICE] Starting imputation round 25/110, elapsed time 34.248\n",
      "[MICE] Starting imputation round 26/110, elapsed time 35.674\n",
      "[MICE] Starting imputation round 27/110, elapsed time 37.103\n",
      "[MICE] Starting imputation round 28/110, elapsed time 38.548\n",
      "[MICE] Starting imputation round 29/110, elapsed time 39.987\n",
      "[MICE] Starting imputation round 30/110, elapsed time 41.422\n",
      "[MICE] Starting imputation round 31/110, elapsed time 42.870\n",
      "[MICE] Starting imputation round 32/110, elapsed time 44.316\n",
      "[MICE] Starting imputation round 33/110, elapsed time 45.750\n",
      "[MICE] Starting imputation round 34/110, elapsed time 47.188\n",
      "[MICE] Starting imputation round 35/110, elapsed time 48.624\n",
      "[MICE] Starting imputation round 36/110, elapsed time 50.059\n",
      "[MICE] Starting imputation round 37/110, elapsed time 51.496\n",
      "[MICE] Starting imputation round 38/110, elapsed time 52.932\n",
      "[MICE] Starting imputation round 39/110, elapsed time 54.367\n",
      "[MICE] Starting imputation round 40/110, elapsed time 55.802\n",
      "[MICE] Starting imputation round 41/110, elapsed time 57.246\n",
      "[MICE] Starting imputation round 42/110, elapsed time 58.683\n",
      "[MICE] Starting imputation round 43/110, elapsed time 60.124\n",
      "[MICE] Starting imputation round 44/110, elapsed time 61.561\n",
      "[MICE] Starting imputation round 45/110, elapsed time 63.005\n",
      "[MICE] Starting imputation round 46/110, elapsed time 64.446\n",
      "[MICE] Starting imputation round 47/110, elapsed time 65.881\n",
      "[MICE] Starting imputation round 48/110, elapsed time 67.316\n",
      "[MICE] Starting imputation round 49/110, elapsed time 68.751\n",
      "[MICE] Starting imputation round 50/110, elapsed time 70.190\n",
      "[MICE] Starting imputation round 51/110, elapsed time 71.632\n",
      "[MICE] Starting imputation round 52/110, elapsed time 73.071\n",
      "[MICE] Starting imputation round 53/110, elapsed time 74.506\n",
      "[MICE] Starting imputation round 54/110, elapsed time 75.942\n",
      "[MICE] Starting imputation round 55/110, elapsed time 77.378\n",
      "[MICE] Starting imputation round 56/110, elapsed time 78.815\n",
      "[MICE] Starting imputation round 57/110, elapsed time 80.249\n",
      "[MICE] Starting imputation round 58/110, elapsed time 81.679\n",
      "[MICE] Starting imputation round 59/110, elapsed time 83.115\n",
      "[MICE] Starting imputation round 60/110, elapsed time 84.555\n",
      "[MICE] Starting imputation round 61/110, elapsed time 85.996\n",
      "[MICE] Starting imputation round 62/110, elapsed time 87.435\n",
      "[MICE] Starting imputation round 63/110, elapsed time 88.872\n",
      "[MICE] Starting imputation round 64/110, elapsed time 90.312\n",
      "[MICE] Starting imputation round 65/110, elapsed time 91.748\n",
      "[MICE] Starting imputation round 66/110, elapsed time 93.188\n",
      "[MICE] Starting imputation round 67/110, elapsed time 94.623\n",
      "[MICE] Starting imputation round 68/110, elapsed time 96.061\n",
      "[MICE] Starting imputation round 69/110, elapsed time 97.495\n",
      "[MICE] Starting imputation round 70/110, elapsed time 98.927\n",
      "[MICE] Starting imputation round 71/110, elapsed time 100.362\n",
      "[MICE] Starting imputation round 72/110, elapsed time 101.798\n",
      "[MICE] Starting imputation round 73/110, elapsed time 103.232\n",
      "[MICE] Starting imputation round 74/110, elapsed time 104.668\n",
      "[MICE] Starting imputation round 75/110, elapsed time 106.105\n",
      "[MICE] Starting imputation round 76/110, elapsed time 107.536\n",
      "[MICE] Starting imputation round 77/110, elapsed time 108.967\n",
      "[MICE] Starting imputation round 78/110, elapsed time 110.400\n",
      "[MICE] Starting imputation round 79/110, elapsed time 111.826\n",
      "[MICE] Starting imputation round 80/110, elapsed time 113.254\n",
      "[MICE] Starting imputation round 81/110, elapsed time 114.686\n",
      "[MICE] Starting imputation round 82/110, elapsed time 116.117\n",
      "[MICE] Starting imputation round 83/110, elapsed time 117.546\n",
      "[MICE] Starting imputation round 84/110, elapsed time 118.978\n",
      "[MICE] Starting imputation round 85/110, elapsed time 120.407\n",
      "[MICE] Starting imputation round 86/110, elapsed time 121.843\n",
      "[MICE] Starting imputation round 87/110, elapsed time 123.275\n",
      "[MICE] Starting imputation round 88/110, elapsed time 124.712\n",
      "[MICE] Starting imputation round 89/110, elapsed time 126.148\n",
      "[MICE] Starting imputation round 90/110, elapsed time 127.582\n",
      "[MICE] Starting imputation round 91/110, elapsed time 129.015\n",
      "[MICE] Starting imputation round 92/110, elapsed time 130.448\n",
      "[MICE] Starting imputation round 93/110, elapsed time 131.880\n",
      "[MICE] Starting imputation round 94/110, elapsed time 133.315\n",
      "[MICE] Starting imputation round 95/110, elapsed time 134.748\n",
      "[MICE] Starting imputation round 96/110, elapsed time 136.177\n",
      "[MICE] Starting imputation round 97/110, elapsed time 137.609\n",
      "[MICE] Starting imputation round 98/110, elapsed time 139.046\n",
      "[MICE] Starting imputation round 99/110, elapsed time 140.480\n",
      "[MICE] Starting imputation round 100/110, elapsed time 141.909\n",
      "[MICE] Starting imputation round 101/110, elapsed time 143.346\n",
      "[MICE] Starting imputation round 102/110, elapsed time 144.793\n",
      "[MICE] Starting imputation round 103/110, elapsed time 146.245\n",
      "[MICE] Starting imputation round 104/110, elapsed time 147.705\n",
      "[MICE] Starting imputation round 105/110, elapsed time 149.144\n",
      "[MICE] Starting imputation round 106/110, elapsed time 150.585\n",
      "[MICE] Starting imputation round 107/110, elapsed time 152.019\n",
      "[MICE] Starting imputation round 108/110, elapsed time 153.450\n",
      "[MICE] Starting imputation round 109/110, elapsed time 154.881\n",
      "[MICE] Starting imputation round 110/110, elapsed time 156.311\n"
     ]
    }
   ],
   "source": [
    "# allele -> list of (train set, imputed train set, test set) for each fold\n",
    "n_folds = 3\n",
    "cv_splits = {}\n",
    "for allele in alleles:\n",
    "    print(\"Allele: %s\" % allele)\n",
    "    cv_iter = all_train_data.cross_validation_iterator(allele, n_folds=n_folds, shuffle=True)\n",
    "    triples = []\n",
    "    for (all_allele_train_split, full_test_split) in cv_iter:\n",
    "        peptides_to_remove = similar_peptides(\n",
    "            all_allele_train_split.get_allele(allele).peptides,\n",
    "            full_test_split.get_allele(allele).peptides\n",
    "        )\n",
    "        print(\"Peptides to remove: %d: %s\" % (len(peptides_to_remove), str(peptides_to_remove)))\n",
    "        if peptides_to_remove:\n",
    "            test_split = full_test_split.drop_allele_peptide_lists(\n",
    "                [allele] * len(peptides_to_remove),\n",
    "                peptides_to_remove)\n",
    "            print(\"After dropping similar peptides, test size %d -> %d\" % (len(full_test_split), len(test_split)))\n",
    "        else:\n",
    "            test_split = full_test_split\n",
    "        imputed_train_split = all_allele_train_split.impute_missing_values(\n",
    "            imputer,\n",
    "            min_observations_per_peptide=2,\n",
    "            min_observations_per_allele=2).get_allele(allele)\n",
    "        train_split = all_allele_train_split.get_allele(allele)\n",
    "        triples.append((train_split, imputed_train_split, test_split))\n",
    "    cv_splits[allele] = triples"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "scrolled": true
   },
   "outputs": [
    {
     "name": "stdout",
     "output_type": "stream",
     "text": [
      "Allele: HLA-A0201\n",
      "test size 9555 -> 9488 after removing\n",
      "Dropping 10067 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18850, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.375\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.715\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.056\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.395\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.733\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.078\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.423\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.769\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.114\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.459\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.804\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.149\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.494\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.839\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.184\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.529\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.873\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.218\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.564\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.910\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.257\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.603\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.950\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.296\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.643\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.990\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.337\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.684\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.031\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.377\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.724\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.071\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.418\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.764\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.111\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.457\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.804\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.151\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.498\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.845\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.192\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.539\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.885\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.232\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.578\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.924\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.271\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.618\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.964\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.310\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.657\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.004\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.350\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.696\n",
      "test size 9555 -> 9482 after removing\n",
      "Dropping 10070 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.374\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.714\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.055\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.393\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.731\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.077\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.423\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.769\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.115\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.461\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.808\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.154\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.500\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.846\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.192\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.538\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.884\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.229\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.575\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.922\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.268\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.613\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.959\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.305\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.651\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.999\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.346\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.694\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.042\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.389\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.737\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.085\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.432\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.779\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.126\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.474\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.821\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.169\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.517\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.864\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.211\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.559\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.907\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.255\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.602\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.950\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.297\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.645\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.992\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.340\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.688\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.035\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.382\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.730\n",
      "test size 9555 -> 9521 after removing\n",
      "Dropping 10068 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.366\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.697\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.036\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.376\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.715\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.055\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.394\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.733\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.073\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.412\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.752\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.092\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.432\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.771\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.110\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.449\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.789\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.128\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.469\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.809\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.150\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.490\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.831\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.172\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.513\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.853\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.194\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.535\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.876\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.217\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.558\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.899\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.240\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.580\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.921\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.262\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.603\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.944\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.284\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.625\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.965\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.305\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.646\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.986\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.327\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.668\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.008\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.349\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.690\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.031\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.371\n",
      "test size 9545 -> 9499 after removing\n",
      "Dropping 10067 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18852, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.704\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.039\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.373\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.705\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.044\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.382\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.720\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.059\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.398\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.737\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.075\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.414\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.752\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.091\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.429\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.767\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.106\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.782\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.121\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.459\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.799\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.139\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.479\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.819\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.159\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.499\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.838\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.178\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.518\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.858\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.198\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.538\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.878\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.218\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.558\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.898\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.238\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.578\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.918\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.258\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.598\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.938\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.278\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.618\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.957\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.297\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.637\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.977\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.317\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.657\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.997\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.337\n",
      "test size 9545 -> 9514 after removing\n",
      "Dropping 10068 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18850, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.703\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.037\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.370\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.702\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.041\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.381\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.720\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.059\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.398\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.737\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.076\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.418\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.760\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.102\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.443\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.785\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.127\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.469\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.811\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.153\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.495\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.837\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.180\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.524\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.867\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.212\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.555\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.899\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.242\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.586\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.929\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.272\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.616\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.960\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.304\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.648\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.992\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.335\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.679\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.023\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.366\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.710\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.054\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.397\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.741\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.084\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.428\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.772\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.116\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.459\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.802\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.146\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.489\n",
      "test size 9545 -> 9462 after removing\n",
      "Dropping 10069 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.374\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.714\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.053\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.392\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.732\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.071\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.410\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.748\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.088\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.427\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.766\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.105\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.783\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.121\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.461\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.800\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.138\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.477\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.818\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.158\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.500\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.841\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.181\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.522\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.862\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.202\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.543\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.883\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.223\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.564\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.904\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.245\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.585\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.925\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.266\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.606\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.947\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.287\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.627\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.968\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.308\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.648\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.989\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.330\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.670\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.010\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.350\n",
      "test size 9535 -> 9481 after removing\n",
      "Dropping 10071 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.364\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.695\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.373\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.712\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.052\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.391\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.730\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.069\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.407\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.746\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.085\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.424\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.763\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.103\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.784\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.125\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.466\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.806\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.147\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.487\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.828\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.168\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.509\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.850\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.190\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.531\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.871\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.211\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.553\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.893\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.233\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.573\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.914\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.254\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.594\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.934\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.274\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.614\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.954\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.295\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.636\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.977\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.317\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.657\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.997\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.337\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.678\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.018\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.358\n",
      "test size 9535 -> 9441 after removing\n",
      "Dropping 10072 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.707\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.043\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.378\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.711\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.052\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.393\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.733\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.074\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.415\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.756\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.096\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.437\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.777\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.118\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.459\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.799\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.140\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.480\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.821\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.162\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.503\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.843\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.184\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.524\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.864\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.207\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.550\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.892\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.234\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.577\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.919\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.261\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.603\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.945\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.288\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.629\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.972\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.314\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.656\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.998\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.340\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.682\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.024\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.366\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.708\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.050\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.392\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.734\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.076\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.418\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.760\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.102\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.444\n",
      "test size 9535 -> 9415 after removing\n",
      "Dropping 10072 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.373\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.712\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.051\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.390\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.728\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.067\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.406\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.748\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.091\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.434\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.777\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.119\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.462\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.804\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.147\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.489\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.832\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.174\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.518\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.863\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.208\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.553\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.897\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.242\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.586\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.931\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.275\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.620\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.964\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.308\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.653\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.997\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.342\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.686\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.030\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.375\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.719\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.064\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.408\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.752\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.097\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.441\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.786\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.130\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.475\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.820\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.164\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.508\n",
      "test size 9525 -> 9402 after removing\n",
      "Dropping 10075 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18852, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.706\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.042\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.376\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.709\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.049\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.388\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.728\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.068\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.408\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.750\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.092\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.434\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.776\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.118\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.460\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.802\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.146\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.490\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.833\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.177\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.521\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.865\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.209\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.552\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.896\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.240\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.584\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.927\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.271\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.615\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.959\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.302\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.645\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.989\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.333\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.676\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.020\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.364\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.707\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.051\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.395\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.738\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.082\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.426\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.770\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.114\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.458\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.801\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.145\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.489\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.832\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.175\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.519\n",
      "test size 9525 -> 9308 after removing\n",
      "Dropping 10071 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18853, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.374\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.713\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.053\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.392\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.731\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.070\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.409\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.749\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.088\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.427\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.766\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.105\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.783\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.122\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.461\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.801\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.140\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.479\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.818\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.158\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.499\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.840\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.181\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.521\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.862\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.202\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.543\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.883\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.224\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.565\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.907\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.248\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.589\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.930\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.270\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.611\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.952\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.292\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.633\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.974\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.315\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.656\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.997\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.337\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.677\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.018\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.359\n",
      "test size 9525 -> 9374 after removing\n",
      "Dropping 10078 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.032\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.363\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.693\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.032\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.370\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.709\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.048\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.386\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.725\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.063\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.401\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.739\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.078\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.416\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.754\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.093\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.431\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.770\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.108\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.446\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.784\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.124\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.465\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.805\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.145\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.485\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.826\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.165\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.505\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.845\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.186\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.525\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.865\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.205\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.546\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.886\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.225\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.565\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.905\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.245\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.585\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.925\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.265\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.605\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.945\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.285\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.625\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.965\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.305\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.645\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.985\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.325\n",
      "test size 9515 -> 9321 after removing\n",
      "Dropping 10075 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18850, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.703\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.036\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.368\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.700\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.039\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.377\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.716\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.054\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.393\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.732\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.070\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.409\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.748\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.086\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.425\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.764\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.104\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.784\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.124\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.465\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.805\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.146\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.486\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.826\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.165\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.505\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.846\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.186\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.526\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.866\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.207\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.547\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.887\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.227\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.567\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.907\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.247\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.587\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.927\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.267\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.606\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.946\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.286\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.626\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.966\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.305\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.645\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.985\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.324\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.664\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.004\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.344\n",
      "test size 9515 -> 9277 after removing\n",
      "Dropping 10074 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.702\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.035\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.368\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.036\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.375\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.713\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.051\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.389\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.727\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.065\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.403\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.742\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.080\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.418\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.756\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.093\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.431\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.769\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.107\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.445\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.783\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.121\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.459\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.798\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.139\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.479\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.819\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.158\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.498\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.837\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.176\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.515\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.855\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.194\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.533\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.873\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.212\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.552\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.891\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.231\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.570\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.909\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.248\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.588\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.927\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.267\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.606\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.946\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.285\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.624\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.964\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.303\n",
      "test size 9515 -> 9356 after removing\n",
      "Dropping 10081 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.699\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.031\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.361\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.691\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.029\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.367\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.705\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.044\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.383\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.721\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.059\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.397\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.735\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.073\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.411\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.749\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.088\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.426\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.764\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.102\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.441\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.781\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.119\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.459\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.799\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.138\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.478\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.818\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.157\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.497\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.837\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.177\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.517\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.856\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.196\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.535\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.875\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.215\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.555\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.894\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.234\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.573\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.913\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.253\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.592\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.932\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.270\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.610\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.950\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.290\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.629\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.969\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.308\n",
      "test size 9505 -> 9293 after removing\n",
      "Dropping 10083 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.695\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.373\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.712\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.051\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.390\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.729\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.068\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.407\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.746\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.085\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.423\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.762\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.103\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.443\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.784\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.125\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.465\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.805\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.146\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.487\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.827\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.167\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.508\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.848\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.189\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.530\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.870\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.211\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.551\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.892\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.232\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.573\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.913\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.254\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.594\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.935\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.275\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.956\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.296\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.637\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.978\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.318\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.659\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.999\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.340\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.680\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.021\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.362\n",
      "test size 9505 -> 9256 after removing\n",
      "Dropping 10079 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.699\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.032\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.362\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.692\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.030\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.369\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.708\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.046\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.384\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.723\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.061\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.400\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.738\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.076\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.415\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.753\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.091\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.429\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.768\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.106\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.445\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.783\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.121\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.459\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.799\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.138\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.478\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.818\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.158\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.497\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.837\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.176\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.516\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.855\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.195\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.535\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.875\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.215\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.555\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.895\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.234\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.574\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.913\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.253\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.592\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.932\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.272\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.612\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.952\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.291\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.631\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.970\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.309\n",
      "test size 9505 -> 9273 after removing\n",
      "Dropping 10080 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18853, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.695\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.034\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.373\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.712\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.051\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.391\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.729\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.069\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.407\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.746\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.085\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.423\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.761\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.099\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.437\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.775\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.113\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.451\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.789\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.127\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.464\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.804\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.144\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.483\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.823\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.163\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.502\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.842\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.181\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.521\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.861\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.200\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.539\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.879\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.218\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.558\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.897\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.237\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.576\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.916\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.255\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.595\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.935\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.275\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.614\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.953\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.293\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.632\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.972\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.311\n",
      "test size 9495 -> 9216 after removing\n",
      "Dropping 10079 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.364\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.694\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.031\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.368\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.705\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.042\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.379\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.715\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.051\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.388\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.725\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.062\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.398\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.735\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.073\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.411\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.749\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.087\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.425\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.762\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.100\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.438\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.776\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.114\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.452\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.790\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.128\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.465\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.803\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.141\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.479\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.816\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.154\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.492\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.830\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.168\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.506\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.844\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.181\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.519\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.857\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.196\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.533\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.871\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.208\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.546\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.884\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.222\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.559\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.898\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.235\n",
      "test size 9495 -> 9206 after removing\n",
      "Dropping 10084 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18853, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.704\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.038\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.372\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.704\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.045\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.385\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.726\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.066\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.407\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.748\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.088\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.429\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.770\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.110\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.451\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.792\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.133\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.473\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.814\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.154\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.495\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.835\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.176\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.519\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.861\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.204\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.546\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.889\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.231\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.573\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.915\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.258\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.601\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.943\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.285\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.628\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.970\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.313\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.655\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.997\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.340\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.682\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.025\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.367\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.710\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.052\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.394\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.736\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.078\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.421\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.763\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.105\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.447\n",
      "test size 9495 -> 9215 after removing\n",
      "Dropping 10085 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18851, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.695\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.374\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.713\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.052\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.391\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.730\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.069\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.408\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.747\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.086\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.424\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.763\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.102\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.441\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.779\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.118\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.457\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.795\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.134\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.475\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.816\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.157\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.498\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.839\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.180\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.521\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.862\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.202\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.543\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.884\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.226\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.566\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.907\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.248\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.588\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.929\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.270\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.611\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.951\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.292\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.633\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.974\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.314\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.655\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.996\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.337\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.678\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.019\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.359\n",
      "test size 9485 -> 9167 after removing\n",
      "Dropping 10076 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18856, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.711\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.049\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.386\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.722\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.064\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.406\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.747\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.089\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.430\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.772\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.113\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.455\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.796\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.138\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.479\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.820\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.162\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.504\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.845\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.187\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.528\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.871\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.213\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.556\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.900\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.243\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.586\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.930\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.272\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.615\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.958\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.301\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.643\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.987\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.329\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.672\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.014\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.357\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.700\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.043\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.386\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.729\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.072\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.415\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.758\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.100\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.444\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.786\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.129\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.472\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.815\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.157\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.501\n",
      "test size 9485 -> 9222 after removing\n",
      "Dropping 10082 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.366\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.697\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.373\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.710\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.048\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.386\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.724\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.062\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.399\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.737\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.074\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.411\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.749\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.087\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.424\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.762\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.099\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.437\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.774\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.113\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.452\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.791\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.129\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.468\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.807\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.146\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.485\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.824\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.163\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.501\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.840\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.180\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.520\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.859\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.198\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.537\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.876\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.216\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.555\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.894\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.233\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.571\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.911\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.250\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.589\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.927\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.266\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.604\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.943\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.281\n",
      "test size 9485 -> 9202 after removing\n",
      "Dropping 10075 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18857, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.701\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.034\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.374\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.714\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.053\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.392\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.731\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.070\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.409\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.748\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.087\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.426\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.765\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.104\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.443\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.782\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.121\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.460\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.799\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.138\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.477\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.818\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.160\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.501\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.841\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.182\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.523\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.864\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.205\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.546\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.887\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.227\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.568\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.909\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.249\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.591\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.931\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.272\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.613\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.954\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.295\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.636\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.976\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.317\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.658\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.999\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.340\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.680\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.022\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.363\n",
      "test size 9475 -> 9114 after removing\n",
      "Dropping 10086 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18857, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.365\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.035\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.375\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.714\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.053\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.392\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.732\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.071\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.410\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.750\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.089\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.430\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.771\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.112\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.453\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.794\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.135\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.475\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.816\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.157\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.498\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.839\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.180\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.521\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.862\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.202\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.543\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.884\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.225\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.566\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.906\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.247\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.588\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.929\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.269\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.610\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.951\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.291\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.631\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.972\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.312\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.653\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.994\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.335\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.675\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.016\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.357\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.697\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.038\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.378\n",
      "test size 9475 -> 9118 after removing\n",
      "Dropping 10093 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18852, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.705\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.041\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.375\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.708\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.047\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.385\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.725\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.064\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.403\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.743\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.082\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.422\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.761\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.100\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.439\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.779\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.118\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.457\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.797\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.136\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.475\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.814\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.153\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.493\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.832\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.173\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.513\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.855\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.196\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.537\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.878\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.219\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.559\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.900\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.241\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.581\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.923\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.264\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.605\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.946\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.287\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.628\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.970\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.310\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.651\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.992\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.333\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.673\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.014\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.355\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.696\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.036\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.377\n",
      "test size 9475 -> 9129 after removing\n",
      "Dropping 10076 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18856, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.371\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.708\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.044\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.379\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.713\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.053\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.392\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.732\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.071\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.411\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.750\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.089\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.428\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.768\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.108\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.447\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.786\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.126\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.465\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.807\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.148\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.489\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.831\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.172\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.514\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.855\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.196\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.537\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.879\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.220\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.561\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.902\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.243\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.585\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.926\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.267\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.609\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.950\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.291\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.633\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.974\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.315\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.656\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.998\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.339\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.680\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.021\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.363\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.704\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.045\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.387\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.728\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.070\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.411\n",
      "test size 9465 -> 8988 after removing\n",
      "Dropping 10091 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.705\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.040\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.373\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.706\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.045\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.385\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.724\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.064\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.403\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.743\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.082\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.422\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.761\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.101\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.441\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.780\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.120\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.459\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.798\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.137\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.477\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.820\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.163\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.507\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.851\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.196\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.541\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.886\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.231\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.576\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.921\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.265\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.610\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.955\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.299\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.644\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.989\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.334\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.678\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.023\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.368\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.713\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.057\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.402\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.747\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.092\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.436\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.781\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.126\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.470\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.815\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.159\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.504\n",
      "test size 9465 -> 9024 after removing\n",
      "Dropping 10085 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18854, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.032\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.364\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.694\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.032\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.369\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.707\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.044\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.381\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.719\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.056\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.393\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.730\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.067\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.404\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.741\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.078\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.415\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.752\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.089\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.426\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.763\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.100\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.437\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.810\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.238\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.666\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.094\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.523\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.950\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.379\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.807\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.235\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.663\n",
      "[MICE] Starting imputation round 37/55, elapsed time 13.091\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.518\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.946\n",
      "[MICE] Starting imputation round 40/55, elapsed time 14.374\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.802\n",
      "[MICE] Starting imputation round 42/55, elapsed time 15.231\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.657\n",
      "[MICE] Starting imputation round 44/55, elapsed time 16.086\n",
      "[MICE] Starting imputation round 45/55, elapsed time 16.514\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.942\n",
      "[MICE] Starting imputation round 47/55, elapsed time 17.370\n",
      "[MICE] Starting imputation round 48/55, elapsed time 17.797\n",
      "[MICE] Starting imputation round 49/55, elapsed time 18.225\n",
      "[MICE] Starting imputation round 50/55, elapsed time 18.654\n",
      "[MICE] Starting imputation round 51/55, elapsed time 19.082\n",
      "[MICE] Starting imputation round 52/55, elapsed time 19.510\n",
      "[MICE] Starting imputation round 53/55, elapsed time 19.937\n",
      "[MICE] Starting imputation round 54/55, elapsed time 20.366\n",
      "[MICE] Starting imputation round 55/55, elapsed time 20.794\n",
      "test size 9465 -> 9031 after removing\n",
      "Dropping 10099 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18855, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.867\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.287\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.707\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.126\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.558\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.989\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.418\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.847\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.276\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.705\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.134\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.562\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.991\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.420\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.849\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.280\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.711\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.141\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.572\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.003\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.434\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.864\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.295\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.725\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.156\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.586\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.016\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.447\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.878\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.309\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.739\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.169\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.599\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.030\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.460\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.891\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.321\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.751\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.182\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.612\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.042\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.472\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.903\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.334\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.764\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.195\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.625\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.056\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.486\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.917\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.348\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.778\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.208\n",
      "test size 9415 -> 8835 after removing\n",
      "Dropping 10105 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18855, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.281\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.114\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.544\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.972\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.401\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.830\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.257\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.686\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.115\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.543\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.971\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.399\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.827\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.256\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.684\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.112\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.540\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.968\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.397\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.825\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.253\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.681\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.109\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.539\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.970\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.400\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.829\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.259\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.690\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.120\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.550\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.979\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.409\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.839\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.270\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.700\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.131\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.561\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.991\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.422\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.852\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.281\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.712\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.142\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.573\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.003\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.434\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.864\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.295\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.725\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.156\n",
      "test size 9415 -> 8842 after removing\n",
      "Dropping 10095 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18855, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.281\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.116\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.546\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.975\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.404\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.833\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.263\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.692\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.121\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.550\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.979\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.409\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.838\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.266\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.696\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.126\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.555\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.984\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.412\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.842\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.271\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.700\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.131\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.562\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.993\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.424\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.856\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.287\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.717\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.149\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.580\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.011\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.442\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.873\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.303\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.734\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.165\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.596\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.027\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.458\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.890\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.321\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.752\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.183\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.614\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.045\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.476\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.907\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.338\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.768\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.199\n",
      "test size 9415 -> 8892 after removing\n",
      "Dropping 10101 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18858, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.866\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.284\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.702\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.121\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.549\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.977\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.405\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.832\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.260\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.688\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.116\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.543\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.970\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.397\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.825\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.254\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.684\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.112\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.542\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.971\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.401\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.831\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.259\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.689\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.118\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.547\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.977\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.406\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.835\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.264\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.694\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.123\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.551\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.981\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.410\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.840\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.269\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.698\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.127\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.556\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.986\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.415\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.844\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.274\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.703\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.132\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.562\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.991\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.420\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.849\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.279\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.709\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.138\n",
      "test size 9365 -> 8748 after removing\n",
      "Dropping 10114 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18861, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.280\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.697\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.113\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.542\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.971\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.400\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.829\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.258\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.686\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.115\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.544\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.973\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.402\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.830\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.258\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.687\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.115\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.544\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.972\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.401\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.830\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.259\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.688\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.118\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.549\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.980\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.411\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.842\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.272\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.703\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.134\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.565\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.996\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.425\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.856\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.287\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.718\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.148\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.578\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.009\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.439\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.870\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.301\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.731\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.162\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.592\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.023\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.453\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.883\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.314\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.744\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.175\n",
      "test size 9365 -> 8642 after removing\n",
      "Dropping 10118 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18858, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.862\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.279\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.112\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.539\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.964\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.390\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.816\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.242\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.668\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.094\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.520\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.946\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.372\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.798\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.224\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.650\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.076\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.502\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.928\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.354\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.780\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.205\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.631\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.060\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.489\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.916\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.345\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.773\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.201\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.629\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.057\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.485\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.913\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.341\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.769\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.196\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.624\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.053\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.481\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.910\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.337\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.766\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.194\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.622\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.050\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.478\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.905\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.334\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.762\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.190\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.618\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.046\n",
      "test size 9365 -> 8725 after removing\n",
      "Dropping 10113 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18858, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.280\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.113\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.540\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.967\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.393\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.819\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.244\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.670\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.097\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.522\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.948\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.373\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.799\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.225\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.650\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.078\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.505\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.933\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.361\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.788\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.217\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.644\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.071\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.499\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.927\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.355\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.782\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.210\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.637\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.065\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.493\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.919\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.347\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.775\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.203\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.630\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.057\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.485\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.913\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.340\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.768\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.195\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.623\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.050\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.478\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.906\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.334\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.761\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.188\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.615\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.043\n",
      "test size 9315 -> 8529 after removing\n",
      "Dropping 10125 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18864, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.867\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.287\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.706\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.125\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.551\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.977\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.403\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.829\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.255\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.682\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.108\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.534\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.960\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.387\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.813\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.238\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.664\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.090\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.517\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.943\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.368\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.794\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.220\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.646\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.072\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.499\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.927\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.355\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.783\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.211\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.639\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.066\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.495\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.923\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.351\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.779\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.206\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.634\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.062\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.490\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.918\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.345\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.773\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.200\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.628\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.056\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.483\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.911\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.339\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.767\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.195\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.622\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.050\n",
      "test size 9315 -> 8505 after removing\n",
      "Dropping 10130 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18864, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.449\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.870\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.292\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.712\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.134\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.562\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.990\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.419\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.846\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.275\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.703\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.131\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.559\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.986\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.414\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.844\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.273\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.702\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.131\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.561\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.990\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.420\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.848\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.278\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.707\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.136\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.565\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.995\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.424\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.854\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.282\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.712\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.142\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.571\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.000\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.430\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.859\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.289\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.719\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.147\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.577\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.007\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.437\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.867\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.295\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.725\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.154\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.583\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.013\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.441\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.871\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.300\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.730\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.160\n",
      "test size 9315 -> 8578 after removing\n",
      "Dropping 10117 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18863, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.862\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.280\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.697\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.113\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.541\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.970\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.399\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.828\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.257\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.685\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.113\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.542\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.971\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.400\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.828\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.256\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.685\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.114\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.543\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.971\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.400\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.828\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.257\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.686\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.114\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.545\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.975\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.406\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.836\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.267\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.698\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.128\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.559\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.989\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.419\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.849\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.280\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.710\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.141\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.571\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.001\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.431\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.862\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.292\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.723\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.152\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.583\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.013\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.444\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.874\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.304\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.734\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.164\n",
      "test size 9265 -> 8463 after removing\n",
      "Dropping 10129 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18868, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.864\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.282\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.700\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.544\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.970\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.396\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.822\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.248\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.674\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.100\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.525\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.951\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.377\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.803\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.229\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.654\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.080\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.506\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.931\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.357\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.783\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.209\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.636\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.064\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.491\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.919\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.346\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.773\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.201\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.628\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.056\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.483\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.910\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.338\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.765\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.193\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.619\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.046\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.474\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.901\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.329\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.755\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.183\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.610\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.038\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.466\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.893\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.320\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.747\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.174\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.601\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.029\n",
      "test size 9265 -> 8547 after removing\n",
      "Dropping 10124 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18865, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.864\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.282\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.699\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.115\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.544\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.973\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.401\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.831\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.259\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.688\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.117\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.545\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.974\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.402\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.830\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.259\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.688\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.116\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.544\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.972\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.401\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.829\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.258\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.686\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.115\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.543\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.974\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.404\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.834\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.264\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.694\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.125\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.555\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.986\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.415\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.846\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.276\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.706\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.136\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.565\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.996\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.426\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.857\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.287\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.717\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.147\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.577\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.008\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.438\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.868\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.298\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.728\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.159\n",
      "test size 9265 -> 8340 after removing\n",
      "Dropping 10138 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18863, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.451\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.875\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.299\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.722\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.146\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.582\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.017\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.452\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.888\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.322\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.752\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.182\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.612\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.042\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.472\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.901\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.330\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.760\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.190\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.620\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.050\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.481\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.911\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.342\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.774\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.206\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.637\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.068\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.499\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.931\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.362\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.793\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.224\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.656\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.087\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.519\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.950\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.381\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.813\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.244\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.676\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.107\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.538\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.969\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.401\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.832\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.264\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.695\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.126\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.557\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.989\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.420\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.851\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.282\n",
      "test size 9215 -> 8165 after removing\n",
      "Dropping 10153 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18868, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.453\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.878\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.303\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.727\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.151\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.585\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.018\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.451\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.883\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.319\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.755\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.191\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.627\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.062\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.497\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.924\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.351\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.779\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.205\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.632\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.060\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.487\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.914\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.341\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.769\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.196\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.625\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.054\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.482\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.911\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.341\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.770\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.199\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.627\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.056\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.485\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.914\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.343\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.771\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.200\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.629\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.059\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.488\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.917\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.345\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.774\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.202\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.631\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.060\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.488\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.917\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.346\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.775\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.203\n",
      "test size 9215 -> 8150 after removing\n",
      "Dropping 10133 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18870, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.281\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.115\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.542\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.969\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.396\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.822\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.249\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.675\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.102\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.529\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.955\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.382\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.810\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.239\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.668\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.097\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.525\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.953\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.381\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.809\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.238\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.667\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.095\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.523\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.951\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.380\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.809\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.237\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.665\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.094\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.523\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.951\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.379\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.807\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.235\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.664\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.093\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.521\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.949\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.378\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.806\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.234\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.662\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.090\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.518\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.946\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.375\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.804\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.231\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.660\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.088\n",
      "test size 9215 -> 8094 after removing\n",
      "Dropping 10139 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18871, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.448\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.867\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.287\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.706\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.126\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.557\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.987\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.417\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.847\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.278\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.708\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.138\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.567\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.997\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.427\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.857\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.286\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.716\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.146\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.575\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.005\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.436\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.865\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.295\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.727\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.159\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.591\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.022\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.454\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.886\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.318\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.750\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.181\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.613\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.044\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.476\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.908\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.339\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.771\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.203\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.635\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.067\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.498\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.930\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.361\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.793\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.225\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.656\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.088\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.520\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.952\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.384\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.815\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.247\n",
      "test size 9165 -> 7893 after removing\n",
      "Dropping 10142 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18871, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.866\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.285\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.703\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.122\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.553\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.983\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.414\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.844\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.275\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.706\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.137\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.568\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.997\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.427\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.857\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.287\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.717\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.146\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.576\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.006\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.436\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.866\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.295\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.727\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.159\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.591\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.023\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.455\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.886\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.317\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.749\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.181\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.613\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.044\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.476\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.908\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.340\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.772\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.203\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.635\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.068\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.500\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.932\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.363\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.795\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.227\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.658\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.090\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.521\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.953\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.385\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.817\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.249\n",
      "test size 9165 -> 8082 after removing\n",
      "Dropping 10170 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18869, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.281\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.114\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.543\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.973\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.402\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.831\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.260\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.689\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.119\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.548\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.976\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.405\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.834\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.263\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.692\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.121\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.550\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.979\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.408\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.837\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.266\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.696\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.124\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.555\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.986\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.417\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.849\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.278\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.710\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.141\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.572\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.003\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.433\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.864\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.295\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.726\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.157\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.587\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.018\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.449\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.881\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.312\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.742\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.173\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.604\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.035\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.466\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.897\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.328\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.758\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.190\n",
      "test size 9165 -> 7957 after removing\n",
      "Dropping 10137 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18871, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.865\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.284\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.703\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.121\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.552\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.981\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.412\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.842\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.273\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.704\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.134\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.565\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.995\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.426\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.857\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.286\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.717\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.148\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.581\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.014\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.445\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.878\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.311\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.743\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.175\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.607\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.040\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.473\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.906\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.338\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.770\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.202\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.635\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.067\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.500\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.932\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.365\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.797\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.230\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.662\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.094\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.526\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.959\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.391\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.824\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.256\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.688\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.121\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.553\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.986\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.418\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.850\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.283\n",
      "test size 9115 -> 7852 after removing\n",
      "Dropping 10151 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18883, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.865\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.282\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.700\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.545\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.972\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.398\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.825\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.251\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.677\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.103\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.529\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.955\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.381\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.807\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.234\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.660\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.086\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.512\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.939\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.366\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.792\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.217\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.644\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.071\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.497\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.924\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.352\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.780\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.209\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.637\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.066\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.493\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.922\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.351\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.779\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.208\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.635\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.064\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.493\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.921\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.350\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.777\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.205\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.634\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.063\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.491\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.919\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.347\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.776\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.204\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.633\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.061\n",
      "test size 9115 -> 7699 after removing\n",
      "Dropping 10149 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18880, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.449\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.871\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.292\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.713\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.134\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.562\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.990\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.418\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.846\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.274\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.702\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.129\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.556\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.984\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.410\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.837\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.265\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.692\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.120\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.547\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.973\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.401\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.828\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.256\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.683\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.112\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.540\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.968\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.397\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.825\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.254\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.682\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.111\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.539\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.967\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.395\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.824\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.253\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.681\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.110\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.537\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.967\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.395\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.824\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.252\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.680\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.109\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.537\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.966\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.394\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.822\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.251\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.679\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.107\n",
      "test size 9115 -> 7759 after removing\n",
      "Dropping 10176 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18866, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.862\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.279\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.695\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.112\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.538\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.964\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.390\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.817\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.243\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.669\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.095\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.521\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.947\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.374\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.800\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.225\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.651\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.077\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.503\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.931\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.359\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.787\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.215\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.643\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.071\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.499\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.927\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.355\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.783\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.212\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.641\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.069\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.497\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.925\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.353\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.782\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.210\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.638\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.067\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.496\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.924\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.352\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.780\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.209\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.637\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.065\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.493\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.922\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.350\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.778\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.207\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.635\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.064\n",
      "test size 9065 -> 7655 after removing\n",
      "Dropping 10171 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18873, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.867\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.286\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.704\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.123\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.554\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.985\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.416\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.848\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.280\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.713\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.146\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.579\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.011\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.441\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.870\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.300\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.730\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.159\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.589\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.019\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.449\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.879\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.308\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.738\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.168\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.597\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.027\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.458\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.889\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.321\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.753\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.184\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.047\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.479\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.911\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.343\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.774\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.206\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.637\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.069\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.501\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.933\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.364\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.797\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.228\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.659\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.091\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.522\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.954\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.385\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.817\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.248\n",
      "test size 9065 -> 7613 after removing\n",
      "Dropping 10157 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18874, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.447\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.866\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.285\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.703\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.120\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.548\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.976\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.404\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.832\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.259\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.687\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.115\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.543\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.971\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.401\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.830\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.260\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.690\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.120\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.549\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.979\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.409\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.839\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.268\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.698\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.127\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.557\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.987\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.418\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.847\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.277\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.706\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.137\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.566\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.996\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.425\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.855\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.285\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.715\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.145\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.574\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.004\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.434\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.864\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.294\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.723\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.153\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.583\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.013\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.442\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.871\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.301\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.732\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.161\n",
      "test size 9065 -> 7787 after removing\n",
      "Dropping 10178 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18877, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.445\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.862\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.279\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.696\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.113\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.541\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.970\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.398\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.828\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.258\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.688\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.117\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.547\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.977\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.407\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.836\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.265\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.694\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.124\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.554\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.984\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.413\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.842\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.272\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.702\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.134\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.565\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.996\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.428\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.859\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.290\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.721\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.152\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.583\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.015\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.446\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.877\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.308\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.739\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.170\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.602\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.033\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.464\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.896\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.327\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.758\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.189\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.620\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.051\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.483\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.914\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.346\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.777\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.210\n",
      "test size 8965 -> 7438 after removing\n",
      "Dropping 10192 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18886, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.446\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.863\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.281\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.698\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.115\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.541\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.966\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.392\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.816\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.242\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.667\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.092\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.518\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.942\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.367\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.793\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.219\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.644\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.069\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.495\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.920\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.346\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.772\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.196\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.621\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.047\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.472\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.900\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.327\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.754\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.181\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.608\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.035\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.462\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.889\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.317\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.744\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.172\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.600\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.026\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.454\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.882\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.309\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.737\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.163\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.591\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.018\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.445\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.872\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.299\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.727\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.155\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.583\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.010\n",
      "test size 8965 -> 7393 after removing\n",
      "Dropping 10201 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18880, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.383\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.720\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.057\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.392\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.727\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.067\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.407\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.747\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.087\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.427\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.767\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.107\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.447\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.787\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.127\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.467\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.807\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.147\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.486\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.826\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.168\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.510\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.852\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.193\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.535\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.876\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.218\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.559\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.901\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.242\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.584\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.925\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.266\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.608\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.950\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.291\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.633\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.974\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.316\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.658\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.999\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.340\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.682\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.023\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.365\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.707\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.048\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.389\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.731\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.073\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.414\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.755\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.097\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.438\n",
      "test size 8965 -> 7409 after removing\n",
      "Dropping 10210 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18873, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.367\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.700\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.033\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.364\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.694\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.033\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.372\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.712\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.051\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.390\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.729\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.069\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.408\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.747\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.087\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.426\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.766\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.106\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.445\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.785\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.125\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.465\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.804\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.144\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.483\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.823\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.162\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.502\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.843\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.184\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.526\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.867\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.208\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.549\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.890\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.231\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.572\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.913\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.254\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.595\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.936\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.277\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.618\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.960\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.300\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.641\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.982\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.324\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.664\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.005\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.346\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.687\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.028\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.369\n",
      "test size 8865 -> 7074 after removing\n",
      "Dropping 10204 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18887, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.705\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.039\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.372\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.704\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.044\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.383\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.723\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.063\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.403\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.744\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.084\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.424\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.764\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.104\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.447\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.790\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.133\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.476\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.820\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.163\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.506\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.848\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.191\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.535\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.877\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.221\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.563\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.906\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.249\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.591\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.934\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.277\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.620\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.963\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.306\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.649\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.992\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.334\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.677\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.019\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.362\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.705\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.048\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.391\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.734\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.076\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.419\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.761\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.104\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.447\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.789\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.133\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.476\n",
      "test size 8865 -> 7162 after removing\n",
      "Dropping 10235 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18884, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.369\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.704\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.039\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.373\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.705\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.044\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.383\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.722\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.061\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.401\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.740\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.079\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.418\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.757\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.096\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.435\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.774\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.113\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.452\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.791\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.130\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.469\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.808\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.147\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.486\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.825\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.165\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.506\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.846\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.187\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.527\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.868\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.209\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.549\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.890\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.231\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.572\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.913\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.254\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.594\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.935\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.275\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.957\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.297\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.638\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.978\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.319\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.659\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.000\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.340\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.681\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.021\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.362\n",
      "test size 8865 -> 7052 after removing\n",
      "Dropping 10229 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18883, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.703\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.037\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.370\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.702\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.041\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.379\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.718\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.057\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.396\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.734\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.073\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.412\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.751\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.092\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.432\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.772\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.113\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.453\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.793\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.133\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.473\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.814\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.154\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.494\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.834\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.175\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.515\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.855\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.196\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.536\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.875\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.215\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.555\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.895\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.236\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.576\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.916\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.256\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.596\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.936\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.277\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.617\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.958\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.297\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.638\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.978\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.319\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.659\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.999\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.339\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.680\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.020\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.360\n",
      "test size 8765 -> 6833 after removing\n",
      "Dropping 10234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18890, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.371\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.709\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.046\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.381\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.716\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.058\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.398\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.737\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.077\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.418\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.758\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.099\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.439\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.779\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.119\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.459\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.799\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.139\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.479\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.819\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.160\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.500\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.839\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.179\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.521\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.863\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.204\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.546\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.888\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.230\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.572\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.914\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.255\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.598\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.941\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.283\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.624\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.967\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.309\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.651\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.992\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.334\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.677\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.019\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.361\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.702\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.044\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.386\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.728\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.070\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.412\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.754\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.096\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.437\n",
      "test size 8765 -> 7015 after removing\n",
      "Dropping 10263 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18886, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.365\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.696\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.028\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.357\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.686\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.021\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.356\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.692\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.027\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.362\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.698\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.033\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.368\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.704\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.039\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.374\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.709\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.045\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.380\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.715\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.050\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.386\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.721\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.057\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.392\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.728\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.065\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.402\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.739\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.077\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.414\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.752\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.088\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.425\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.762\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.100\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.437\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.774\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.112\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.449\n",
      "[MICE] Starting imputation round 42/55, elapsed time 13.786\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.123\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.460\n",
      "[MICE] Starting imputation round 45/55, elapsed time 14.797\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.135\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.472\n",
      "[MICE] Starting imputation round 48/55, elapsed time 15.809\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.146\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.483\n",
      "[MICE] Starting imputation round 51/55, elapsed time 16.820\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.157\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.494\n",
      "[MICE] Starting imputation round 54/55, elapsed time 17.831\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.169\n",
      "test size 8765 -> 6845 after removing\n",
      "Dropping 10247 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18879, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.376\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.719\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.061\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.401\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.741\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.089\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.439\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.788\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.129\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.471\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.813\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.155\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.497\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.839\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.182\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.524\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.871\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.218\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.565\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.912\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.260\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.606\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.953\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.300\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.647\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.994\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.343\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.692\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.041\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.390\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.738\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.087\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.435\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.784\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.132\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.481\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.830\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.179\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.527\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.876\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.225\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.574\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.922\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.271\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.620\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.968\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.317\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.665\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.013\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.362\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.710\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.059\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.408\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.756\n",
      "test size 8665 -> 6797 after removing\n",
      "Dropping 10264 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18899, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.705\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.041\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.374\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.707\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.047\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.388\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.729\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.069\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.410\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.751\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.092\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.432\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.773\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.113\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.454\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.794\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.134\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.475\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.816\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.156\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.498\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.841\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.182\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.525\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.867\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.209\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.551\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.894\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.236\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.578\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.921\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.263\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.606\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.948\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.290\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.632\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.975\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.318\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.659\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.002\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.344\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.687\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.029\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.371\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.713\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.056\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.398\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.739\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.081\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.425\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.766\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.109\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.452\n",
      "test size 8665 -> 6727 after removing\n",
      "Dropping 10242 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18901, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.372\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.710\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.047\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.383\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.718\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.061\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.403\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.746\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.088\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.430\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.771\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.113\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.456\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.798\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.139\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.480\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.821\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.162\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.503\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.844\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.186\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.527\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.868\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.209\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.550\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.891\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.233\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.575\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.918\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.260\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.603\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.946\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.288\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.631\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.974\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.317\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.660\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.002\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.345\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.688\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.030\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.373\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.715\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.058\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.401\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.743\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.086\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.428\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.771\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.113\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.456\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.798\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.141\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.484\n",
      "test size 8665 -> 6735 after removing\n",
      "Dropping 10243 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18911, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.706\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.042\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.376\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.709\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.051\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.392\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.733\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.074\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.415\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.756\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.097\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.438\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.779\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.120\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.461\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.803\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.144\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.485\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.826\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.167\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.508\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.849\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.191\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.532\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.872\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.215\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.558\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.901\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.244\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.587\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.929\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.272\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.615\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.958\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.301\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.644\n",
      "[MICE] Starting imputation round 39/55, elapsed time 12.987\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.329\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.672\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.015\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.358\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.700\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.043\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.386\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.729\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.072\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.415\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.758\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.101\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.443\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.786\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.129\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.472\n",
      "test size 8565 -> 6431 after removing\n",
      "Dropping 10295 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18899, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.368\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.703\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.037\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.369\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.700\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.039\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.379\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.720\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.060\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.400\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.741\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.081\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.426\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.770\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.115\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.459\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.803\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.148\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.492\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.837\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.181\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.526\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.871\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.217\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.562\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.908\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.253\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.598\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.944\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.289\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.635\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.980\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.326\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.671\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.017\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.362\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.708\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.054\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.399\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.744\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.090\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.435\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.781\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.126\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.472\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.818\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.163\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.508\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.854\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.200\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.545\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.890\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.236\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.581\n",
      "test size 8565 -> 6421 after removing\n",
      "Dropping 10302 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18905, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.707\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.043\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.377\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.711\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.053\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.395\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.737\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.079\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.420\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.762\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.104\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.446\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.788\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.130\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.472\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.814\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.155\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.497\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.838\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.180\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.522\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.863\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.205\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.547\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.888\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.232\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.575\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.918\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.261\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.604\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.947\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.290\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.634\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.977\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.320\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.663\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.007\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.350\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.693\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.036\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.379\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.723\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.066\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.409\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.752\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.096\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.439\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.782\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.125\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.468\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.811\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.155\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.498\n",
      "test size 8565 -> 6387 after removing\n",
      "Dropping 10277 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (18902, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.380\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.726\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.071\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.416\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.759\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.109\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.459\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.809\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.158\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.508\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.858\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.207\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.557\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.907\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.257\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.606\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.956\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.305\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.654\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.001\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.349\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.697\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.045\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.393\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.741\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.092\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.443\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.794\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.144\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.495\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.846\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.197\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.547\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.898\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.249\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.600\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.950\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.302\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.653\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.003\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.354\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.705\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.055\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.406\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.757\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.108\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.459\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.809\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.160\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.511\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.862\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.212\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.563\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.914\n",
      "Allele: HLA-A0301\n",
      "test size 6131 -> 6114 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.075\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.420\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.765\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.471\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.824\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.177\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.528\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.880\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.231\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.583\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.934\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.286\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.638\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.990\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.341\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.692\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.044\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.396\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.747\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.098\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.450\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.802\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.154\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.505\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.858\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.211\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.564\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.916\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.270\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.623\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.976\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.329\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.682\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.035\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.389\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.742\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.095\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.448\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.801\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.154\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.508\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.860\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.214\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.567\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.920\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.272\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.626\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.979\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.331\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.684\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.038\n",
      "test size 6131 -> 6114 after removing\n",
      "Dropping 12378 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.377\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.719\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.062\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.403\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.743\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.092\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.440\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.789\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.139\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.488\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.838\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.188\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.537\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.887\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.236\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.588\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.940\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.291\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.643\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.995\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.346\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.698\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.050\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.401\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.755\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.108\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.462\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.815\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.168\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.521\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.875\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.228\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.582\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.935\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.288\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.642\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.995\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.348\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.702\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.055\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.408\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.761\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.115\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.468\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.822\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.175\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.528\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.882\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.235\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.588\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.942\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.295\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.648\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.001\n",
      "test size 6131 -> 6124 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.372\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.709\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.047\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.382\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.717\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.061\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.404\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.748\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.091\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.435\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.778\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.122\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.465\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.810\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.155\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.500\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.845\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.190\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.535\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.881\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.225\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.570\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.915\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.260\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.605\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.950\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.294\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.639\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.984\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.329\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.673\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.018\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.362\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.707\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.052\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.396\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.742\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.086\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.431\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.775\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.120\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.465\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.809\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.154\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.499\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.844\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.189\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.534\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.878\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.222\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.567\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.912\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.256\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.601\n",
      "test size 6121 -> 6082 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.374\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.712\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.051\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.388\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.724\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.069\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.411\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.755\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.099\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.448\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.797\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.146\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.495\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.845\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.196\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.546\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.896\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.247\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.597\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.948\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.298\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.650\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.002\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.355\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.707\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.059\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.412\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.764\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.116\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.468\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.820\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.172\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.525\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.877\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.229\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.581\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.934\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.286\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.638\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.990\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.342\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.694\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.046\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.398\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.750\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.102\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.454\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.806\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.158\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.511\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.863\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.215\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.567\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.919\n",
      "test size 6121 -> 6091 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.372\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.710\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.047\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.383\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.718\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.061\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.405\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.748\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.092\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.436\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.780\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.123\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.467\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.811\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.154\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.497\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.841\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.184\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.527\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.871\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.214\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.557\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.901\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.244\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.587\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.932\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.277\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.621\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.966\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.310\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.655\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.000\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.345\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.690\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.035\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.381\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.725\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.071\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.416\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.761\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.106\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.451\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.796\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.141\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.486\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.831\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.176\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.521\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.866\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.211\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.555\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.900\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.246\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.590\n",
      "test size 6121 -> 6090 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.380\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.727\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.073\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.418\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.763\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.115\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.467\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.820\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.171\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.521\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.872\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.223\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.574\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.925\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.276\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.624\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.973\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.322\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.671\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.019\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.368\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.717\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.065\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.414\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.762\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.111\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.460\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.810\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.162\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.513\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.864\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.214\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.565\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.915\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.266\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.617\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.967\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.318\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.669\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.019\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.370\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.720\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.072\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.422\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.772\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.123\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.474\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.824\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.175\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.525\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.876\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.226\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.577\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.927\n",
      "test size 6111 -> 6061 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.371\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.707\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.044\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.379\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.713\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.055\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.398\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.740\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.083\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.425\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.770\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.115\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.460\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.805\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.150\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.495\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.840\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.185\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.530\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.875\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.222\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.568\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.914\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.261\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.607\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.954\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.300\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.647\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.993\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.339\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.686\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.032\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.379\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.725\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.071\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.418\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.764\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.111\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.457\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.804\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.150\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.496\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.843\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.190\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.536\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.883\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.229\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.575\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.921\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.268\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.614\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.961\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.308\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.654\n",
      "test size 6111 -> 6052 after removing\n",
      "Dropping 12378 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.371\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.708\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.044\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.379\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.714\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.057\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.399\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.742\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.085\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.428\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.771\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.113\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.456\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.799\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.141\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.486\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.830\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.175\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.520\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.864\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.209\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.554\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.898\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.243\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.587\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.932\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.276\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.622\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.969\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.315\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.662\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.008\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.355\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.701\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.047\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.394\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.741\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.086\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.432\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.778\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.124\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.470\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.816\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.162\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.508\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.855\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.201\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.547\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.893\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.239\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.584\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.930\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.276\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.623\n",
      "test size 6111 -> 6046 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.375\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.717\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.057\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.396\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.735\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.082\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.429\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.776\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.122\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.469\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.816\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.162\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.509\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.856\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.203\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.551\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.899\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.248\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.597\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.945\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.294\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.643\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.992\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.340\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.689\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.038\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.388\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.736\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.085\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.433\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.782\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.131\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.479\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.828\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.176\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.525\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.873\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.222\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.570\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.919\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.268\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.965\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.313\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.662\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.010\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.359\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.707\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.056\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.405\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.753\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.102\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.450\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.799\n",
      "test size 6101 -> 6038 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.074\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.419\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.763\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.116\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.469\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.821\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.170\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.518\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.867\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.216\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.564\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.912\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.261\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.609\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.957\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.306\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.654\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.002\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.350\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.700\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.050\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.400\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.750\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.100\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.450\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.800\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.150\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.500\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.850\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.200\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.550\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.900\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.250\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.600\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.950\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.300\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.650\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.999\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.350\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.700\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.050\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.400\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.750\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.101\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.451\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.801\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.151\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.501\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.852\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.202\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.552\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.902\n",
      "test size 6101 -> 6025 after removing\n",
      "Dropping 12381 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19029, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.712\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.050\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.387\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.723\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.068\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.412\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.756\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.101\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.445\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.789\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.133\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.477\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.821\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.165\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.508\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.852\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.195\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.538\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.881\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.225\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.568\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.912\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.255\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.598\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.941\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.284\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.628\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.972\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.317\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.661\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.006\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.351\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.695\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.040\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.384\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.729\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.073\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.418\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.763\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.108\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.452\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.796\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.141\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.486\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.830\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.175\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.519\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.864\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.209\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.554\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.898\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.243\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.588\n",
      "test size 6101 -> 6026 after removing\n",
      "Dropping 12376 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19033, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.378\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.721\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.064\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.406\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.746\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.095\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.444\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.793\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.142\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.491\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.840\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.189\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.540\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.891\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.242\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.593\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.943\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.294\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.645\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.995\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.347\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.697\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.049\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.399\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.750\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.101\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.452\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.803\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.153\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.504\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.855\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.206\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.557\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.908\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.259\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.610\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.960\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.311\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.662\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.013\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.364\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.714\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.065\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.416\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.767\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.117\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.468\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.819\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.169\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.520\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.871\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.221\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.571\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.921\n",
      "test size 6091 -> 5986 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.382\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.730\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.077\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.422\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.768\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.468\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.820\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.171\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.521\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.872\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.222\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.573\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.923\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.273\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.623\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.974\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.324\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.674\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.025\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.375\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.725\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.076\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.428\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.780\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.133\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.485\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.837\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.189\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.540\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.893\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.244\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.596\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.948\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.300\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.652\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.004\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.356\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.708\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.059\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.412\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.763\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.115\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.466\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.818\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.170\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.521\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.873\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.225\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.577\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.928\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.280\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.632\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.983\n",
      "test size 6091 -> 6012 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.377\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.720\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.063\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.404\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.744\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.090\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.443\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.796\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.149\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.502\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.855\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.208\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.560\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.910\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.259\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.607\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.956\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.305\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.654\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.002\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.351\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.700\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.048\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.397\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.746\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.097\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.447\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.798\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.148\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.498\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.849\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.200\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.551\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.901\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.251\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.602\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.952\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.303\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.654\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.004\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.354\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.705\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.055\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.406\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.756\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.106\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.457\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.807\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.158\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.509\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.859\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.209\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.560\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.910\n",
      "test size 6091 -> 5980 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.375\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.717\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.059\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.399\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.738\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.082\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.426\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.770\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.114\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.458\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.802\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.147\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.493\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.839\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.185\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.531\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.877\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.222\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.568\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.913\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.259\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.605\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.951\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.297\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.642\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.988\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.333\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.679\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.024\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.370\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.716\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.061\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.407\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.753\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.098\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.444\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.790\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.136\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.482\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.828\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.173\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.519\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.865\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.210\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.556\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.902\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.247\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.593\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.938\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.284\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.630\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.976\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.321\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.667\n",
      "test size 6081 -> 5962 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19030, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.380\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.726\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.072\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.417\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.760\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.111\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.460\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.810\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.160\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.509\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.859\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.209\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.559\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.908\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.259\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.609\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.959\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.309\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.659\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.009\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.353\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.698\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.042\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.388\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.734\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.079\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.425\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.771\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.116\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.462\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.808\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.154\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.500\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.846\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.191\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.537\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.882\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.228\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.574\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.920\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.265\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.611\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.956\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.302\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.648\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.993\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.339\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.685\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.030\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.376\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.721\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.067\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.413\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.758\n",
      "test size 6081 -> 5999 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.384\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.735\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.085\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.433\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.781\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.135\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.489\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.843\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.196\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.550\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.903\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.256\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.610\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.994\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.430\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.865\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.301\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.735\n",
      "[MICE] Starting imputation round 20/55, elapsed time 7.170\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.605\n",
      "[MICE] Starting imputation round 22/55, elapsed time 8.041\n",
      "[MICE] Starting imputation round 23/55, elapsed time 8.476\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.912\n",
      "[MICE] Starting imputation round 25/55, elapsed time 9.346\n",
      "[MICE] Starting imputation round 26/55, elapsed time 9.782\n",
      "[MICE] Starting imputation round 27/55, elapsed time 10.219\n",
      "[MICE] Starting imputation round 28/55, elapsed time 10.656\n",
      "[MICE] Starting imputation round 29/55, elapsed time 11.093\n",
      "[MICE] Starting imputation round 30/55, elapsed time 11.530\n",
      "[MICE] Starting imputation round 31/55, elapsed time 11.967\n",
      "[MICE] Starting imputation round 32/55, elapsed time 12.404\n",
      "[MICE] Starting imputation round 33/55, elapsed time 12.842\n",
      "[MICE] Starting imputation round 34/55, elapsed time 13.279\n",
      "[MICE] Starting imputation round 35/55, elapsed time 13.715\n",
      "[MICE] Starting imputation round 36/55, elapsed time 14.152\n",
      "[MICE] Starting imputation round 37/55, elapsed time 14.589\n",
      "[MICE] Starting imputation round 38/55, elapsed time 15.026\n",
      "[MICE] Starting imputation round 39/55, elapsed time 15.463\n",
      "[MICE] Starting imputation round 40/55, elapsed time 15.899\n",
      "[MICE] Starting imputation round 41/55, elapsed time 16.337\n",
      "[MICE] Starting imputation round 42/55, elapsed time 16.774\n",
      "[MICE] Starting imputation round 43/55, elapsed time 17.211\n",
      "[MICE] Starting imputation round 44/55, elapsed time 17.648\n",
      "[MICE] Starting imputation round 45/55, elapsed time 18.085\n",
      "[MICE] Starting imputation round 46/55, elapsed time 18.522\n",
      "[MICE] Starting imputation round 47/55, elapsed time 18.959\n",
      "[MICE] Starting imputation round 48/55, elapsed time 19.397\n",
      "[MICE] Starting imputation round 49/55, elapsed time 19.834\n",
      "[MICE] Starting imputation round 50/55, elapsed time 20.271\n",
      "[MICE] Starting imputation round 51/55, elapsed time 20.708\n",
      "[MICE] Starting imputation round 52/55, elapsed time 21.145\n",
      "[MICE] Starting imputation round 53/55, elapsed time 21.582\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.019\n",
      "[MICE] Starting imputation round 55/55, elapsed time 22.455\n",
      "test size 6081 -> 5957 after removing\n",
      "Dropping 12376 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19033, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.452\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.875\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.299\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.722\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.145\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.580\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.015\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.450\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.885\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.320\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.755\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.192\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.630\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.065\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.502\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.938\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.375\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.811\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.247\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.684\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.120\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.557\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.994\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.429\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.867\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.303\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.741\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.177\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.612\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.050\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.486\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.923\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.359\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.794\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.231\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.668\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.104\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.541\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.977\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.413\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.850\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.287\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.723\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.159\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.596\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.032\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.469\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.905\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.341\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.778\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.214\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.650\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.087\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.523\n",
      "test size 6071 -> 5953 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19034, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.460\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.893\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.325\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.757\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.188\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.629\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.071\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.512\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.953\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.394\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.835\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.277\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.718\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.159\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.599\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.041\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.482\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.923\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.364\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.804\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.246\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.687\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.128\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.569\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.009\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.453\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.896\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.340\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.783\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.225\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.667\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.111\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.553\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.997\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.439\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.882\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.326\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.769\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.213\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.655\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.098\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.542\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.985\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.429\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.871\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.314\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.758\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.201\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.644\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.086\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.530\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.973\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.417\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.859\n",
      "test size 6071 -> 5921 after removing\n",
      "Dropping 12378 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.462\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.896\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.330\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.763\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.195\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.636\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.074\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.513\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.950\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.387\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.826\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.264\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.702\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.139\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.576\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.013\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.450\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.888\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.325\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.762\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.199\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.636\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.074\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.511\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.948\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.385\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.822\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.261\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.700\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.139\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.578\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.017\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.456\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.895\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.334\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.773\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.213\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.651\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.090\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.529\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.968\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.407\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.846\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.286\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.724\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.163\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.603\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.041\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.482\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.920\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.359\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.798\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.237\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.677\n",
      "test size 6071 -> 5935 after removing\n",
      "Dropping 12378 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.461\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.896\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.330\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.764\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.198\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.638\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.077\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.516\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.953\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.392\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.830\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.263\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.694\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.126\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.558\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.989\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.422\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.853\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.286\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.718\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.149\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.581\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.012\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.444\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.876\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.308\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.742\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.175\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.609\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.043\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.476\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.909\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.343\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.776\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.209\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.642\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.075\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.509\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.943\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.376\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.809\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.242\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.677\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.110\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.544\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.976\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.410\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.844\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.278\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.711\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.143\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.577\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.011\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.444\n",
      "test size 6061 -> 5866 after removing\n",
      "Dropping 12372 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19037, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.453\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.879\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.304\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.729\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.153\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.591\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.027\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.464\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.901\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.338\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.775\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.212\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.652\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.090\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.529\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.967\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.404\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.843\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.281\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.719\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.158\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.595\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.033\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.472\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.910\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.348\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.786\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.224\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.662\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.100\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.538\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.975\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.413\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.851\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.290\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.728\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.165\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.604\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.042\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.480\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.918\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.356\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.794\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.233\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.671\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.109\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.547\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.985\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.424\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.862\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.300\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.738\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.176\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.615\n",
      "test size 6061 -> 5898 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.459\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.889\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.320\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.750\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.180\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.621\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.067\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.513\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.960\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.407\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.853\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.298\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.742\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.187\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.631\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.076\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.520\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.964\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.409\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.853\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.298\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.741\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.186\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.631\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.076\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.521\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.966\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.413\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.860\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.307\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.753\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.199\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.646\n",
      "[MICE] Starting imputation round 35/55, elapsed time 15.092\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.539\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.985\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.431\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.878\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.324\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.771\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.217\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.663\n",
      "[MICE] Starting imputation round 44/55, elapsed time 19.110\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.557\n",
      "[MICE] Starting imputation round 46/55, elapsed time 20.003\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.450\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.896\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.343\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.790\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.236\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.682\n",
      "[MICE] Starting imputation round 53/55, elapsed time 23.129\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.576\n",
      "[MICE] Starting imputation round 55/55, elapsed time 24.022\n",
      "test size 6061 -> 5944 after removing\n",
      "Dropping 12375 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19035, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.458\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.889\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.320\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.750\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.181\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.622\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.065\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.505\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.945\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.385\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.825\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.265\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.705\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.145\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.585\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.025\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.465\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.905\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.345\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.785\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.224\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.664\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.104\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.544\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.986\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.425\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.866\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.307\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.749\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.190\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.631\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.072\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.513\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.955\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.398\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.838\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.280\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.722\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.164\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.605\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.046\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.487\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.929\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.370\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.811\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.253\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.694\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.136\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.577\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.019\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.460\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.902\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.344\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.786\n",
      "test size 6051 -> 5868 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19033, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.458\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.889\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.320\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.752\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.183\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.626\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.068\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.513\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.956\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.399\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.842\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.286\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.730\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.174\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.618\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.061\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.496\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.933\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.369\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.806\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.241\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.686\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.131\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.577\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.022\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.466\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.911\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.356\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.801\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.247\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.692\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.136\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.581\n",
      "[MICE] Starting imputation round 35/55, elapsed time 15.027\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.472\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.917\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.361\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.807\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.252\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.697\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.142\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.586\n",
      "[MICE] Starting imputation round 44/55, elapsed time 19.031\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.476\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.921\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.366\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.811\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.256\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.701\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.147\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.590\n",
      "[MICE] Starting imputation round 53/55, elapsed time 23.036\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.481\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.927\n",
      "test size 6051 -> 5884 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.461\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.895\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.329\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.762\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.195\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.640\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.084\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.529\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.973\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.417\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.861\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.305\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.749\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.192\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.635\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.078\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.521\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.964\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.406\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.849\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.291\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.734\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.177\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.620\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.063\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.505\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.949\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.394\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.839\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.283\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.728\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.172\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.617\n",
      "[MICE] Starting imputation round 35/55, elapsed time 15.062\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.505\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.949\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.393\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.837\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.281\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.726\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.170\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.615\n",
      "[MICE] Starting imputation round 44/55, elapsed time 19.059\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.504\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.948\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.392\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.837\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.282\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.727\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.171\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.615\n",
      "[MICE] Starting imputation round 53/55, elapsed time 23.059\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.505\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.949\n",
      "test size 6051 -> 5857 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19034, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.460\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.893\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.326\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.758\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.190\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.632\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.074\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.516\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.957\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.400\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.842\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.283\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.728\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.172\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.617\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.061\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.506\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.950\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.395\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.839\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.284\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.728\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.172\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.617\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.062\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.505\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.949\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.394\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.838\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.283\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.727\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.171\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 35/55, elapsed time 15.060\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.505\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.948\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.393\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.838\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.282\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.727\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.170\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.614\n",
      "[MICE] Starting imputation round 44/55, elapsed time 19.059\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.503\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.948\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.391\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.836\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.280\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.724\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.169\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.613\n",
      "[MICE] Starting imputation round 53/55, elapsed time 23.057\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.502\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.946\n",
      "test size 6041 -> 5876 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19031, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.448\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.869\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.290\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.710\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.131\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.562\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.005\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.447\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.890\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.332\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.774\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.210\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.645\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.081\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.516\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.951\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.386\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.822\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.257\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.693\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.127\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.562\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.998\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.433\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.869\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.306\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.743\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.179\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.617\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.054\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.491\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.928\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.365\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.802\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.239\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.676\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.113\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.550\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.987\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.425\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.861\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.299\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.736\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.174\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.611\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.048\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.485\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.924\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.361\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.798\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.235\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.673\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.110\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.547\n",
      "test size 6041 -> 5841 after removing\n",
      "Dropping 12381 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19033, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.452\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.876\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.300\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.724\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.148\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.584\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.019\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.455\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.891\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.327\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.763\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.198\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.634\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.070\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.508\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.946\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.383\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.821\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.259\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.697\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.134\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.571\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.009\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.447\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.885\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.323\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.761\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.201\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.640\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.080\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.519\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.958\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.397\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.837\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.276\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.715\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.154\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.594\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.033\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.473\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.912\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.350\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.790\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.229\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.669\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.108\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.547\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.986\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.425\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.865\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.305\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.743\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.182\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.622\n",
      "test size 6041 -> 5851 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19033, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.460\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.891\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.322\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.753\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.184\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.626\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.072\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.516\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.960\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.404\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.848\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.291\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.734\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.179\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.623\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.068\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.512\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.956\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.400\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.844\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.288\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.731\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.176\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.621\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.065\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.510\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.953\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.398\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.843\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.287\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.732\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.174\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.618\n",
      "[MICE] Starting imputation round 35/55, elapsed time 15.062\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.506\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.949\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.393\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.838\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.282\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.726\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.170\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.612\n",
      "[MICE] Starting imputation round 44/55, elapsed time 19.056\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.499\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.944\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.388\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.830\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.275\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.718\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.162\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.605\n",
      "[MICE] Starting imputation round 53/55, elapsed time 23.048\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.491\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.935\n",
      "test size 5991 -> 5670 after removing\n",
      "Dropping 12375 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19036, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.463\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.898\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.333\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.768\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.203\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.646\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.088\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.530\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.975\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.412\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.851\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.288\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.726\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.164\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.603\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.041\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.478\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.916\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.355\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.792\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.230\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.667\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.106\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.546\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.985\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.426\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.864\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.304\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.744\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.183\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.623\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.062\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.501\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.941\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.380\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.820\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.259\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.699\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.138\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.578\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.018\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.457\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.897\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.336\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.776\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.215\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.655\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.094\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.534\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.974\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.413\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.852\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.293\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.732\n",
      "test size 5991 -> 5727 after removing\n",
      "Dropping 12376 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19036, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.453\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.878\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.304\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.729\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.154\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.588\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.020\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.453\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.886\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.319\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.751\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.182\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.614\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.056\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.497\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.938\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.377\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.818\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.259\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.700\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.141\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.581\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.022\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.463\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.905\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.346\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.788\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.232\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.674\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.117\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.560\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.003\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.445\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.888\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.331\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.774\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.216\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.659\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.102\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.545\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.987\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.430\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.873\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.315\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.759\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.202\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.644\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.087\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.530\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.973\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.416\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.858\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.302\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.744\n",
      "test size 5991 -> 5710 after removing\n",
      "Dropping 12381 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19032, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.460\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.891\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.323\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.755\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.186\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.625\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.063\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.502\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.941\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.380\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.820\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.259\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.699\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.139\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.579\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.019\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.458\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.898\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.338\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.777\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.217\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.656\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.095\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.535\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.975\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.415\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.854\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.293\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.733\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.173\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.613\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.052\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.491\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.931\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.370\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.810\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.249\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.689\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.129\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.568\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.008\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.447\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.886\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.326\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.765\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.205\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.644\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.084\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.524\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.963\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.403\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.842\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.282\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.722\n",
      "test size 5941 -> 5606 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19036, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.461\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.894\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.327\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.760\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.193\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.634\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.078\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.522\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.967\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.412\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.846\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.279\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.713\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.147\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.581\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.016\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.449\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.883\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.317\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.750\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.184\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.617\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.050\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.485\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.920\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.355\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.790\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.225\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.659\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.094\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.530\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.963\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.398\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.833\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.268\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.703\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.137\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.572\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.007\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.441\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.876\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.310\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.745\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.180\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.614\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.049\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.484\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.918\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.353\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.788\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.223\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.657\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.092\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.526\n",
      "test size 5941 -> 5624 after removing\n",
      "Dropping 12367 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19046, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.459\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.891\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.321\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.752\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.182\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.623\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.068\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.510\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.955\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.400\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.844\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.286\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.727\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.170\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.611\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.051\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.493\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.932\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.374\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.816\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.257\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.697\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.138\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.580\n",
      "[MICE] Starting imputation round 26/55, elapsed time 11.020\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.460\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.900\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.341\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.783\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.224\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.666\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.108\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.549\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.991\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.433\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.874\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.316\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.757\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.199\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.641\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.083\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.524\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.966\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.407\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.849\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.290\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.732\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.174\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.615\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.057\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.499\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.940\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.382\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.823\n",
      "test size 5941 -> 5554 after removing\n",
      "Dropping 12368 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19044, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.460\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.893\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.324\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.755\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.187\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.627\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.068\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.506\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.944\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.382\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.820\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.258\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.698\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.137\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.577\n",
      "[MICE] Starting imputation round 17/55, elapsed time 7.017\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.457\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.896\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.336\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.776\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.217\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.657\n",
      "[MICE] Starting imputation round 24/55, elapsed time 10.096\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.536\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.976\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.418\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.860\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.301\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.743\n",
      "[MICE] Starting imputation round 31/55, elapsed time 13.185\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.627\n",
      "[MICE] Starting imputation round 33/55, elapsed time 14.069\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.511\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.952\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.394\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.835\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.277\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.719\n",
      "[MICE] Starting imputation round 40/55, elapsed time 17.160\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.602\n",
      "[MICE] Starting imputation round 42/55, elapsed time 18.043\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.485\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.926\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.368\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.810\n",
      "[MICE] Starting imputation round 47/55, elapsed time 20.252\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.693\n",
      "[MICE] Starting imputation round 49/55, elapsed time 21.134\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.576\n",
      "[MICE] Starting imputation round 51/55, elapsed time 22.018\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.460\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.901\n",
      "[MICE] Starting imputation round 54/55, elapsed time 23.342\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.784\n",
      "test size 5891 -> 5444 after removing\n",
      "Dropping 12376 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19038, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.452\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.876\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.299\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.722\n",
      "[MICE] Starting imputation round 6/55, elapsed time 2.146\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.579\n",
      "[MICE] Starting imputation round 8/55, elapsed time 3.012\n",
      "[MICE] Starting imputation round 9/55, elapsed time 3.445\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.878\n",
      "[MICE] Starting imputation round 11/55, elapsed time 4.312\n",
      "[MICE] Starting imputation round 12/55, elapsed time 4.745\n",
      "[MICE] Starting imputation round 13/55, elapsed time 5.178\n",
      "[MICE] Starting imputation round 14/55, elapsed time 5.610\n",
      "[MICE] Starting imputation round 15/55, elapsed time 6.044\n",
      "[MICE] Starting imputation round 16/55, elapsed time 6.477\n",
      "[MICE] Starting imputation round 17/55, elapsed time 6.910\n",
      "[MICE] Starting imputation round 18/55, elapsed time 7.343\n",
      "[MICE] Starting imputation round 19/55, elapsed time 7.776\n",
      "[MICE] Starting imputation round 20/55, elapsed time 8.209\n",
      "[MICE] Starting imputation round 21/55, elapsed time 8.642\n",
      "[MICE] Starting imputation round 22/55, elapsed time 9.077\n",
      "[MICE] Starting imputation round 23/55, elapsed time 9.512\n",
      "[MICE] Starting imputation round 24/55, elapsed time 9.947\n",
      "[MICE] Starting imputation round 25/55, elapsed time 10.381\n",
      "[MICE] Starting imputation round 26/55, elapsed time 10.817\n",
      "[MICE] Starting imputation round 27/55, elapsed time 11.252\n",
      "[MICE] Starting imputation round 28/55, elapsed time 11.687\n",
      "[MICE] Starting imputation round 29/55, elapsed time 12.122\n",
      "[MICE] Starting imputation round 30/55, elapsed time 12.556\n",
      "[MICE] Starting imputation round 31/55, elapsed time 12.991\n",
      "[MICE] Starting imputation round 32/55, elapsed time 13.426\n",
      "[MICE] Starting imputation round 33/55, elapsed time 13.861\n",
      "[MICE] Starting imputation round 34/55, elapsed time 14.296\n",
      "[MICE] Starting imputation round 35/55, elapsed time 14.729\n",
      "[MICE] Starting imputation round 36/55, elapsed time 15.164\n",
      "[MICE] Starting imputation round 37/55, elapsed time 15.599\n",
      "[MICE] Starting imputation round 38/55, elapsed time 16.034\n",
      "[MICE] Starting imputation round 39/55, elapsed time 16.469\n",
      "[MICE] Starting imputation round 40/55, elapsed time 16.903\n",
      "[MICE] Starting imputation round 41/55, elapsed time 17.337\n",
      "[MICE] Starting imputation round 42/55, elapsed time 17.772\n",
      "[MICE] Starting imputation round 43/55, elapsed time 18.207\n",
      "[MICE] Starting imputation round 44/55, elapsed time 18.641\n",
      "[MICE] Starting imputation round 45/55, elapsed time 19.075\n",
      "[MICE] Starting imputation round 46/55, elapsed time 19.509\n",
      "[MICE] Starting imputation round 47/55, elapsed time 19.944\n",
      "[MICE] Starting imputation round 48/55, elapsed time 20.379\n",
      "[MICE] Starting imputation round 49/55, elapsed time 20.813\n",
      "[MICE] Starting imputation round 50/55, elapsed time 21.247\n",
      "[MICE] Starting imputation round 51/55, elapsed time 21.682\n",
      "[MICE] Starting imputation round 52/55, elapsed time 22.117\n",
      "[MICE] Starting imputation round 53/55, elapsed time 22.552\n",
      "[MICE] Starting imputation round 54/55, elapsed time 22.986\n",
      "[MICE] Starting imputation round 55/55, elapsed time 23.421\n",
      "test size 5891 -> 5484 after removing\n",
      "Dropping 12380 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19035, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.423\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.763\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.101\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.439\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.775\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.119\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.464\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.808\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.163\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.519\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.874\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.229\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.585\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.940\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.295\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.650\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.005\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.360\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.715\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.071\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.426\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.780\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.135\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.490\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.846\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.202\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.559\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.916\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.273\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.630\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.986\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.343\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.700\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.057\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.413\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.770\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.127\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.484\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.841\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.198\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.554\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.911\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.268\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.625\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.982\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.339\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.695\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.052\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.408\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.765\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.122\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.479\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.835\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.193\n",
      "test size 5891 -> 5499 after removing\n",
      "Dropping 12379 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19036, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.382\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.730\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.078\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.424\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.769\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.122\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.474\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.827\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.179\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.532\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.884\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.237\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.590\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.943\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.297\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.650\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.003\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.356\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.709\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.062\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.415\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.769\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.122\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.474\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.827\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.180\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.533\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.888\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.243\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.599\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.953\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.309\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.663\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.018\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.374\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.729\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.084\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.439\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.794\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.149\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.504\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.859\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.214\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.568\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.923\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.278\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.633\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.988\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.344\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.698\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.053\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.409\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.763\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.118\n",
      "test size 5841 -> 5331 after removing\n",
      "Dropping 12370 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19047, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.384\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.734\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.084\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.432\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.779\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.136\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.491\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.846\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.202\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.556\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.910\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.265\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.620\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.976\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.331\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.686\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.041\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.396\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.752\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.107\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.462\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.818\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.175\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.532\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.888\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.245\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.602\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.959\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.315\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.672\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.028\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.385\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.741\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.098\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.454\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.811\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.167\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.524\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.880\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.237\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.593\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.950\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.307\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.663\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.020\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.376\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.733\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.090\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.446\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.803\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.159\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.516\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.872\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.229\n",
      "test size 5841 -> 5258 after removing\n",
      "Dropping 12372 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19040, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.076\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.421\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.765\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.116\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.466\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.816\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.166\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.517\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.867\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.217\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.568\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.918\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.269\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.619\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.970\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.320\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.670\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.021\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.371\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.722\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.072\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.422\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.773\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.123\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.473\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.826\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.178\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.530\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.882\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.233\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.586\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.938\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.290\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.641\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.993\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.346\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.698\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.051\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.402\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.754\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.106\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.459\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.811\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.163\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.515\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.867\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.219\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.571\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.923\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.276\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.627\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.979\n",
      "test size 5841 -> 5395 after removing\n",
      "Dropping 12373 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19043, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.379\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.725\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.070\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.414\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.757\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.109\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.462\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.814\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.167\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.521\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.874\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.228\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.580\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.933\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.285\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.638\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.990\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.342\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.694\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.047\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.399\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.752\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.104\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.457\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.809\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.162\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.514\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.866\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.223\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.578\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.934\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.290\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.646\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.001\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.357\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.713\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.069\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.424\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.780\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.136\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.492\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.848\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.204\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.560\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.915\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.271\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.627\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.983\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.339\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.694\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.050\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.406\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.762\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.117\n",
      "test size 5791 -> 5291 after removing\n",
      "Dropping 12372 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19047, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.711\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.049\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.385\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.721\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.065\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.410\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.754\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.097\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.442\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.785\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.130\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.473\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.818\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.162\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.506\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.850\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.193\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.537\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.881\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.225\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.570\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.916\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.262\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.608\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.953\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.298\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.644\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.989\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.335\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.680\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.026\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.371\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.717\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.062\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.407\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.753\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.099\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.444\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.790\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.136\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.482\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.828\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.173\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.519\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.864\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.210\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.555\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.900\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.246\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.591\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.936\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.282\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.627\n",
      "test size 5791 -> 5261 after removing\n",
      "Dropping 12374 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19043, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.383\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.732\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.081\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.428\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.774\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.129\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.483\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.836\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.189\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.543\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.896\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.248\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.603\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.958\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.313\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.668\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.023\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.378\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.732\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.087\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.442\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.797\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.151\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.507\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.861\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.216\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.572\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.928\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.285\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.641\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.998\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.354\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.711\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.067\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.423\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.779\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.135\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.492\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.848\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.204\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.560\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.917\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.273\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.629\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.985\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.341\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.697\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.053\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.409\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.766\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.122\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.478\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.835\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.191\n",
      "test size 5791 -> 5296 after removing\n",
      "Dropping 12373 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19044, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.075\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.419\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.764\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.114\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.465\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.816\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.167\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.521\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.875\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.229\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.583\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.935\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.288\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.640\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.992\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.344\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.696\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.048\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.400\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.752\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.104\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.456\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.808\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.162\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.516\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.870\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.223\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.577\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.930\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.284\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.637\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.991\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.344\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.698\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.051\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.405\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.758\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.111\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.465\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.818\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.171\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.525\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.878\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.231\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.585\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.938\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.292\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.645\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.998\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.352\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.705\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.059\n",
      "test size 5741 -> 5157 after removing\n",
      "Dropping 12364 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19052, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.379\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.725\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.071\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.415\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.758\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.107\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.457\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.806\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.155\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.505\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.854\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.204\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.554\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.903\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.253\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.603\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.952\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.302\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.652\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.001\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.351\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.700\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.050\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.400\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.750\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.099\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.449\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.802\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.155\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.507\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.860\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.213\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.566\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.919\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.272\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.624\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.978\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.330\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.684\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.037\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.390\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.743\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.095\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.448\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.801\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.154\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.506\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.859\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.212\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.565\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.917\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.271\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.623\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.977\n",
      "test size 5741 -> 5167 after removing\n",
      "Dropping 12369 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19047, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.075\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.420\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.765\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.471\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.824\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.177\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.530\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.885\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.239\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.592\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.946\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.300\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.654\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.008\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.362\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.716\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.070\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.426\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.782\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.137\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.493\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.848\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.204\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.560\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.915\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.271\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.626\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.982\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.338\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.693\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.049\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.404\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.760\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.115\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.470\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.826\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.181\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.537\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.892\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.247\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.603\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.958\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.314\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.670\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.025\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.381\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.736\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.092\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.447\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.803\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.158\n",
      "test size 5741 -> 5053 after removing\n",
      "Dropping 12367 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19050, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.707\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.043\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.378\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.712\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.053\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.396\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.737\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.079\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.423\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.766\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.108\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.450\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.792\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.133\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.484\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.835\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.186\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.538\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.889\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.240\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.591\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.942\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.293\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.644\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.995\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.346\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.698\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.051\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.404\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.756\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.109\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.461\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.813\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.167\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.519\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.872\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.224\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.576\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.929\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.281\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.634\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.986\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.338\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.690\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.043\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.395\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.748\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.101\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.453\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.805\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.158\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.511\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.863\n",
      "test size 5691 -> 5018 after removing\n",
      "Dropping 12361 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19054, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.379\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.726\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.071\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.415\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.759\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.110\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.460\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.810\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.160\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.510\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.860\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.211\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.561\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.913\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.264\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.615\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.965\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.316\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.666\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.017\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.367\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.718\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.069\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.420\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.771\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.122\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.472\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.824\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.175\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.527\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.878\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.230\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.581\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.932\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.283\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.635\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.986\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.338\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.689\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.040\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.392\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.743\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.094\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.446\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.797\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.148\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.500\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.851\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.203\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.554\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.906\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.257\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.609\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.960\n",
      "test size 5691 -> 4999 after removing\n",
      "Dropping 12363 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19055, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.383\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.731\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.079\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.425\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.771\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.125\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.479\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.833\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.188\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.542\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.896\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.249\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.603\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.956\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.309\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.662\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.016\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.369\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.722\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.075\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.429\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.784\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.139\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.494\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.849\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.204\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.558\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.913\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.268\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.623\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.978\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.332\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.687\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.042\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.397\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.752\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.107\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.462\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.817\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.172\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.526\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.882\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.237\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.591\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.946\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.301\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.655\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.009\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.364\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.720\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.075\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.429\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.784\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.139\n",
      "test size 5691 -> 5007 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19047, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.382\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.731\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.079\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.426\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.772\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.127\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.481\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.833\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.187\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.539\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.891\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.245\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.598\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.950\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.302\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.654\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.006\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.357\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.709\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.060\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.412\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.763\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.115\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.467\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.819\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.171\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.517\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.863\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.211\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.559\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.907\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.255\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.603\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.951\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.299\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.647\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.994\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.342\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.690\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.037\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.385\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.733\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.081\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.429\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.777\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.125\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.473\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.820\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.168\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.516\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.864\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.212\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.560\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.908\n",
      "test size 5641 -> 4907 after removing\n",
      "Dropping 12366 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19053, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.706\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.042\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.377\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.711\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.054\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.396\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.740\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.084\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.427\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.770\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.114\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.456\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.800\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.143\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.486\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.830\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.173\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.518\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.863\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.208\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.552\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.897\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.242\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.587\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.931\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.276\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.620\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.964\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.310\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.654\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.998\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.343\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.688\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.032\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.376\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.721\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.066\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.411\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.756\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.100\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.445\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.790\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.134\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.478\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.823\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.168\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.513\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.858\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.203\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.547\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.893\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.237\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.581\n",
      "test size 5641 -> 4935 after removing\n",
      "Dropping 12366 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19052, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.384\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.734\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.083\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.431\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.779\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.133\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.486\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.840\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.194\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.547\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.901\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.254\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.607\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.959\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.310\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.661\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.013\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.364\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.715\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.066\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.417\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.769\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.120\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.471\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.823\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.174\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.526\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.879\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.232\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.585\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.938\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.290\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.643\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.996\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.349\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.702\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.054\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.408\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.760\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.113\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.465\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.818\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.171\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.523\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.876\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.229\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.581\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.934\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.287\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.640\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.993\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.345\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.698\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.051\n",
      "test size 5641 -> 4911 after removing\n",
      "Dropping 12364 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19057, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.383\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.731\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.079\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.426\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.772\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.126\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.472\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.819\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.166\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.513\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.859\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.214\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.568\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.923\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.278\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.632\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.987\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.341\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.696\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.050\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.405\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.759\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.113\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.468\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.823\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.177\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.534\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.890\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.246\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.602\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.958\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.314\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.670\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.027\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.383\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.739\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.095\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.451\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.807\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.163\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.520\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.876\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.232\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.588\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.944\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.300\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.656\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.012\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.368\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.724\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.081\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.436\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.792\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.148\n",
      "test size 5541 -> 4591 after removing\n",
      "Dropping 12363 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19057, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.382\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.729\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.077\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.423\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.768\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.123\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.469\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.815\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.161\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.507\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.854\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.201\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.546\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.893\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.239\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.587\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.934\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.280\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.627\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.974\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.320\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.667\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.012\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.361\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.711\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.060\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.409\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.758\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.107\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.456\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.806\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.154\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.503\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.853\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.201\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.550\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.899\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.249\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.599\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.948\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.297\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.647\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.996\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.345\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.694\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.043\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.392\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.740\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.088\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.439\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.789\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.138\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.486\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.835\n",
      "test size 5541 -> 4661 after removing\n",
      "Dropping 12367 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19053, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.370\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.706\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.041\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.376\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.709\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.050\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.392\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.734\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.076\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.418\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.760\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.102\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.444\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.786\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.128\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.470\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.812\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.155\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.497\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.839\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.181\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.523\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.865\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.209\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.553\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.896\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.240\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.584\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.927\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.271\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.615\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.958\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.302\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.646\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.990\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.333\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.677\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.021\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.364\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.708\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.052\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.396\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.739\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.083\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.426\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.770\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.113\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.457\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.800\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.144\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.488\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.832\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.175\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.518\n",
      "test size 5541 -> 4665 after removing\n",
      "Dropping 12366 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19055, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.712\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.050\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.387\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.724\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.069\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.414\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.758\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.103\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.447\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.791\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.136\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.480\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.825\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.169\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.514\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.858\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.203\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.547\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.891\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.236\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.580\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.924\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.268\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.612\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.957\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.301\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.646\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.990\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.336\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.680\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.024\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.368\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.713\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.058\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.402\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.746\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.090\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.435\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.780\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.123\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.467\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.811\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.156\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.500\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.845\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.189\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.534\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.878\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.223\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.566\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.911\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.255\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.600\n",
      "test size 5441 -> 4509 after removing\n",
      "Dropping 12360 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19063, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.384\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.732\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.081\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.428\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.775\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.130\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.485\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.840\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.196\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.551\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.906\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.261\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.613\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.965\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.316\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.668\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.020\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.372\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.724\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.075\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.426\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.777\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.130\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.483\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.836\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.190\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.543\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.896\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.249\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.601\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.954\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.307\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.660\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.013\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.366\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.719\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.073\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.426\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.779\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.132\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.485\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.838\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.191\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.544\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.897\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.250\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.603\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.956\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.308\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.661\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.014\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.367\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.720\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.073\n",
      "test size 5441 -> 4461 after removing\n",
      "Dropping 12364 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19057, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.380\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.726\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.072\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.416\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.759\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.111\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.463\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.815\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.168\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.520\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.872\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.225\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.577\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.930\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.283\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.635\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.988\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.341\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.693\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.046\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.398\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.751\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.104\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.456\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.809\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.161\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.513\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.867\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.221\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.575\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.929\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.283\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.637\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.990\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.344\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.698\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.052\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.405\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.759\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.113\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.467\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.821\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.175\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.529\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.883\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.237\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.590\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.943\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.297\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.650\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.004\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.358\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.712\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.066\n",
      "test size 5441 -> 4524 after removing\n",
      "Dropping 12366 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19052, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.380\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.727\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.073\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.418\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.762\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.112\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.463\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.814\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.165\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.516\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.866\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.218\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.569\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.920\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.271\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.622\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.973\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.323\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.674\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.025\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.376\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.727\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.078\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.429\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.779\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.130\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.483\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.836\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.190\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.543\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.896\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.249\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.602\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.956\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.309\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.662\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.014\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.368\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.721\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.075\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.427\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.780\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.133\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.485\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.838\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.192\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.545\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.897\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.250\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.604\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.956\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.309\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.662\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.015\n",
      "test size 5341 -> 4398 after removing\n",
      "Dropping 12361 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19060, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.379\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.723\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.067\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.410\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.752\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.100\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.449\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.796\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.143\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.490\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.837\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.184\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.531\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.878\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.226\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.573\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.916\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.259\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.603\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.947\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.290\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.636\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.982\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.327\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.672\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.017\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.363\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.708\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.054\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.399\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.745\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.090\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.435\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.781\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.126\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.471\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.817\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.162\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.507\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.853\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.198\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.544\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.889\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.235\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.580\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.926\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.271\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.616\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.962\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.307\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.652\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.998\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.344\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.690\n",
      "test size 5341 -> 4335 after removing\n",
      "Dropping 12377 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19059, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.375\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.716\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.058\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.396\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.735\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.082\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.430\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.777\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.124\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.471\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.818\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.166\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.513\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.860\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.207\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.554\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.901\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.249\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.597\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.944\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.292\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.640\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.987\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.335\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.683\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.031\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.378\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.726\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.075\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.425\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.774\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.123\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.472\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.821\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.171\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.521\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.870\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.220\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.569\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.918\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.268\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.618\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.968\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.316\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.666\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.015\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.365\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.714\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.063\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.412\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.761\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.111\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.460\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.809\n",
      "test size 5341 -> 4283 after removing\n",
      "Dropping 12370 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19052, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.382\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.730\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.077\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.424\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.769\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.121\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.473\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.825\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.177\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.522\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.868\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.213\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.558\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.903\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.250\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.597\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.944\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.291\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.638\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.984\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.330\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.677\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.023\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.369\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.715\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.062\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.409\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.755\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.102\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.448\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.795\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.141\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.487\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.833\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.180\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.526\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.872\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.219\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.565\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.911\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.258\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.603\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.950\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.296\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.642\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.989\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.335\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.681\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.027\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.373\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.720\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.066\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.413\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.759\n",
      "test size 5241 -> 4208 after removing\n",
      "Dropping 12357 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19076, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.374\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.713\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.052\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.390\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.727\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.071\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.414\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.757\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.101\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.444\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.787\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.130\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.473\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.816\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.159\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.502\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.845\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.188\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.532\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.875\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.219\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.563\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.908\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.253\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.598\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.944\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.289\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.633\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.979\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.324\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.669\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.014\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.358\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.704\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.049\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.393\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.738\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.083\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.428\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.773\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.118\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.463\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.808\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.153\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.498\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.843\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.188\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.533\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.878\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.223\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.568\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.913\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.258\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.603\n",
      "test size 5241 -> 4144 after removing\n",
      "Dropping 12370 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19061, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.075\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.420\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.765\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.119\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.473\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.826\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.179\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.533\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.886\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.239\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.592\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.945\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.298\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.651\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.005\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.357\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.711\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.064\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.417\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.770\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.124\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.476\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.829\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.184\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.538\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.893\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.247\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.602\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.957\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.311\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.666\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.020\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.375\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.730\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.084\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.439\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.794\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.148\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.502\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.856\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.211\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.566\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.920\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.275\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.629\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.983\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.338\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.692\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.047\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.402\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.756\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.110\n",
      "test size 5241 -> 4173 after removing\n",
      "Dropping 12358 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19073, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.379\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.724\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.069\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.412\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.755\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.107\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.458\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.809\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.160\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.510\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.862\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.212\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.562\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.912\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.262\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.613\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.964\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.311\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.658\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.006\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.354\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.701\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.049\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.397\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.745\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.093\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.443\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.790\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.139\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.489\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.839\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.188\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.538\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.888\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.237\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.587\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.937\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.287\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.637\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.987\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.336\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.685\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.035\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.385\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.735\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.084\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.434\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.783\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.133\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.482\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.832\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.182\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.531\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.881\n",
      "test size 5141 -> 3997 after removing\n",
      "Dropping 12345 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19082, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.372\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.710\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.048\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.383\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.719\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.061\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.404\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.746\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.088\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.430\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.771\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.113\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.454\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.796\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.138\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.479\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.821\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.162\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.504\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.845\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.187\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.530\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.873\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.216\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.560\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.903\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.246\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.590\n",
      "[MICE] Starting imputation round 30/55, elapsed time 9.933\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.276\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.619\n",
      "[MICE] Starting imputation round 33/55, elapsed time 10.962\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.305\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.648\n",
      "[MICE] Starting imputation round 36/55, elapsed time 11.991\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.334\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.678\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.021\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.364\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.707\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.050\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.394\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.737\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.080\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.423\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.767\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.110\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.453\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.796\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.139\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.482\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.825\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.168\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.511\n",
      "test size 5141 -> 4040 after removing\n",
      "Dropping 12358 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19074, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.713\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.051\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.388\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.724\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.068\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.412\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.755\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.099\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.448\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.797\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.145\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.493\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.842\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.190\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.539\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.888\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.236\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.584\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.933\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.281\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.629\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.978\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.326\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.674\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.022\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.372\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.722\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.072\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.421\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.771\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.120\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.470\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.819\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.169\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.519\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.869\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.218\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.568\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.917\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.267\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.616\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.966\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.316\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.666\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.015\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.365\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.714\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.064\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.413\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.763\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.112\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.462\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.812\n",
      "test size 5141 -> 3994 after removing\n",
      "Dropping 12366 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19066, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.373\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.712\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.052\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.389\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.726\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.070\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.414\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.758\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.103\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.448\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.793\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.137\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.482\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.827\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.171\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.516\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.860\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.205\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.550\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.894\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.239\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.584\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.928\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.272\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.618\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.963\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.309\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.655\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.001\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.348\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.694\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.040\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.386\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.733\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.078\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.425\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.771\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.117\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.463\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.809\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.155\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.501\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.847\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.193\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.539\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.885\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.231\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.577\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.924\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.270\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.616\n",
      "[MICE] Starting imputation round 53/55, elapsed time 17.962\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.308\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.654\n",
      "Allele: HLA-A0203\n",
      "test size 5532 -> 5519 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.383\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.733\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.082\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.430\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.777\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.132\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.488\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.844\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.200\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.556\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.911\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.267\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.622\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.978\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.333\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.688\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.044\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.399\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.754\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.110\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.466\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.821\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.177\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.532\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.887\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.242\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.600\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.957\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.314\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.671\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.029\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.386\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.743\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.100\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.458\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.815\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.172\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.529\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.886\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.243\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.601\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.959\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.316\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.673\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.030\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.388\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.745\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.102\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.459\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.816\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.174\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.532\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.889\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.247\n",
      "test size 5532 -> 5493 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.387\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.739\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.091\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.442\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.791\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.150\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.507\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.867\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.225\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.584\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.944\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.302\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.660\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.018\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.375\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.732\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.090\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.447\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.804\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.160\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.517\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.874\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.230\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.587\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.943\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.299\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.656\n",
      "[MICE] Starting imputation round 29/55, elapsed time 10.012\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.368\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.725\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.081\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.438\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.795\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.152\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.508\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.865\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.222\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.578\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.935\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.292\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.649\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.005\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.362\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.719\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.075\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.432\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.789\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.146\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.503\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.860\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.216\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.573\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.930\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.286\n",
      "test size 5532 -> 5521 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.386\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.738\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.090\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.439\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.788\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.146\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.505\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.862\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.222\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.573\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.924\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.274\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.625\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.976\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.327\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.677\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.027\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.378\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.728\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.078\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.428\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.779\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.131\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.482\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.834\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.186\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.537\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.889\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.240\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.592\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.944\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.295\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.646\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.998\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.350\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.701\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.052\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.404\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.756\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.108\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.460\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.811\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.163\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.515\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.866\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.218\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.570\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.921\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.273\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.624\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.975\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.327\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.678\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.030\n",
      "test size 5522 -> 5490 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.381\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.728\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.075\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.420\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.765\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.118\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.471\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.825\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.177\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.529\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.882\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.234\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.587\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.939\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.292\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.644\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.996\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.348\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.700\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.053\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.404\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.756\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.108\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.460\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.812\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.164\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.516\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.869\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.223\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.577\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.930\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.284\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.638\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.992\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.345\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.699\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.052\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.405\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.759\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.112\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.465\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.819\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.172\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.526\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.879\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.233\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.587\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.940\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.294\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.647\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.001\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.355\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.709\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.062\n",
      "test size 5522 -> 5383 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.377\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.720\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.062\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.402\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.742\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.091\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.440\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.789\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.138\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.487\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.838\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.187\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.537\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.889\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.241\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.592\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.943\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.295\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.646\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.997\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.349\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.700\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.051\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.402\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.754\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.106\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.457\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.809\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.160\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.512\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.863\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.215\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.567\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.918\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.270\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.620\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.972\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.323\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.674\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.025\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.377\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.728\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.078\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.430\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.781\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.132\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.483\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.835\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.187\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.538\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.890\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.241\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.592\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.943\n",
      "test size 5522 -> 5486 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.378\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.722\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.066\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.408\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.748\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.099\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.448\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.797\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.146\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.495\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.846\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.196\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.547\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.897\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.247\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.598\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.948\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.299\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.649\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.000\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.350\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.701\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.053\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.404\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.756\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.108\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.460\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.813\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.165\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.516\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.868\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.220\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.572\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.924\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.275\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.627\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.979\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.331\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.682\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.034\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.386\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.738\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.089\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.441\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.793\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.144\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.496\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.848\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.200\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.552\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.903\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.255\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.606\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.958\n",
      "test size 5512 -> 5364 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.387\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.739\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.092\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.442\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.792\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.151\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.510\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.868\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.226\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.583\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.941\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.299\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.656\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.014\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.371\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.728\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.086\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.444\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.801\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.158\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.516\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.873\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.229\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.584\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.940\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.297\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.654\n",
      "[MICE] Starting imputation round 29/55, elapsed time 10.012\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.369\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.726\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.084\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.441\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.799\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.156\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.513\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.871\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.228\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.585\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.942\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.299\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.656\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.013\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.371\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.728\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.085\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.443\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.800\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.157\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.515\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.872\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.229\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.586\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.944\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.301\n",
      "test size 5512 -> 5455 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.374\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.714\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.054\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.392\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.729\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.076\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.422\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.768\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.114\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.460\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.806\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.152\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.510\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.868\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.225\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.583\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.941\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.298\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.656\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.013\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.371\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.729\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.086\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.444\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.802\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.159\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.517\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.874\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.232\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.589\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.948\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.305\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.662\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.020\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.378\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.735\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.093\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.450\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.808\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.166\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.523\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.881\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.239\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.596\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.954\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.311\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.669\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.026\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.384\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.742\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.099\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.457\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.814\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.172\n",
      "test size 5512 -> 5434 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.375\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.716\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.057\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.396\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.735\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.082\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.427\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.774\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.119\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.465\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.811\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.156\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.502\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.847\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.193\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.538\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.883\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.228\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.575\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.920\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.265\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.610\n",
      "[MICE] Starting imputation round 24/55, elapsed time 7.955\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.302\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.649\n",
      "[MICE] Starting imputation round 27/55, elapsed time 8.996\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.343\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.689\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.036\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.384\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.731\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.077\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.424\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.772\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.119\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.465\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.812\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.159\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.506\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.852\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.199\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.547\n",
      "[MICE] Starting imputation round 44/55, elapsed time 14.894\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.240\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.587\n",
      "[MICE] Starting imputation round 47/55, elapsed time 15.934\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.280\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.627\n",
      "[MICE] Starting imputation round 50/55, elapsed time 16.974\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.321\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.667\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.014\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.361\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.707\n",
      "test size 5502 -> 5326 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.386\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.737\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.088\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.438\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.787\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.144\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.502\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.860\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.217\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.574\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.931\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.288\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.645\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.003\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.359\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.714\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.075\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.434\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.793\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.149\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.507\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.864\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.222\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.579\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.936\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.292\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.648\n",
      "[MICE] Starting imputation round 29/55, elapsed time 10.003\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.360\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.718\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.075\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.432\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.790\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.147\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.504\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.861\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.219\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.576\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.933\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.290\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.647\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.004\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.362\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.719\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.076\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.434\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.791\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.147\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.505\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.862\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.219\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.576\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.933\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.290\n",
      "test size 5502 -> 5410 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.020\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.387\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.740\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.093\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.443\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.793\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.153\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.513\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.872\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.232\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.592\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.952\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.311\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.671\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.030\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.390\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.749\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.109\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.468\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.827\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.187\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.546\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.905\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.264\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.623\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.982\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.342\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.703\n",
      "[MICE] Starting imputation round 29/55, elapsed time 10.064\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.428\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.787\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.147\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.506\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.865\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.224\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.583\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.942\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.301\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.660\n",
      "[MICE] Starting imputation round 40/55, elapsed time 14.020\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.379\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.739\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.098\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.457\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.817\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.176\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.535\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.894\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.253\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.612\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.971\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.330\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.689\n",
      "[MICE] Starting imputation round 54/55, elapsed time 19.049\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.407\n",
      "test size 5502 -> 5377 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.385\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.737\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.088\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.437\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.786\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.144\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.503\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.863\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.223\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.582\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.940\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.300\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.657\n",
      "[MICE] Starting imputation round 15/55, elapsed time 5.015\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.374\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.733\n",
      "[MICE] Starting imputation round 18/55, elapsed time 6.091\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.449\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.809\n",
      "[MICE] Starting imputation round 21/55, elapsed time 7.168\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.524\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.880\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.236\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.594\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.951\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.309\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.666\n",
      "[MICE] Starting imputation round 29/55, elapsed time 10.024\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.382\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.740\n",
      "[MICE] Starting imputation round 32/55, elapsed time 11.097\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.455\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.813\n",
      "[MICE] Starting imputation round 35/55, elapsed time 12.171\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.528\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.886\n",
      "[MICE] Starting imputation round 38/55, elapsed time 13.243\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.601\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.959\n",
      "[MICE] Starting imputation round 41/55, elapsed time 14.316\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.674\n",
      "[MICE] Starting imputation round 43/55, elapsed time 15.032\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.390\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.747\n",
      "[MICE] Starting imputation round 46/55, elapsed time 16.105\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.463\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.820\n",
      "[MICE] Starting imputation round 49/55, elapsed time 17.178\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.536\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.893\n",
      "[MICE] Starting imputation round 52/55, elapsed time 18.251\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.609\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.967\n",
      "[MICE] Starting imputation round 55/55, elapsed time 19.325\n",
      "test size 5492 -> 5351 after removing\n",
      "Dropping 12234 peptides with <2 observations\n",
      "Dropping 9 alleles with <2 observations: ['ELA-A1', 'HLA-B2701', 'HLA-B3508', 'HLA-B44', 'HLA-E0101', 'Mamu-B04', 'Patr-A0602', 'Patr-B0901', 'Patr-B1701']\n",
      "[MICE] Completing matrix with shape (19303, 97)\n",
      "[MICE] Starting imputation round 1/55, elapsed time 0.021\n",
      "[MICE] Starting imputation round 2/55, elapsed time 0.377\n",
      "[MICE] Starting imputation round 3/55, elapsed time 0.720\n",
      "[MICE] Starting imputation round 4/55, elapsed time 1.063\n",
      "[MICE] Starting imputation round 5/55, elapsed time 1.403\n",
      "[MICE] Starting imputation round 6/55, elapsed time 1.744\n",
      "[MICE] Starting imputation round 7/55, elapsed time 2.092\n",
      "[MICE] Starting imputation round 8/55, elapsed time 2.441\n",
      "[MICE] Starting imputation round 9/55, elapsed time 2.790\n",
      "[MICE] Starting imputation round 10/55, elapsed time 3.139\n",
      "[MICE] Starting imputation round 11/55, elapsed time 3.489\n",
      "[MICE] Starting imputation round 12/55, elapsed time 3.838\n",
      "[MICE] Starting imputation round 13/55, elapsed time 4.187\n",
      "[MICE] Starting imputation round 14/55, elapsed time 4.536\n",
      "[MICE] Starting imputation round 15/55, elapsed time 4.885\n",
      "[MICE] Starting imputation round 16/55, elapsed time 5.233\n",
      "[MICE] Starting imputation round 17/55, elapsed time 5.581\n",
      "[MICE] Starting imputation round 18/55, elapsed time 5.929\n",
      "[MICE] Starting imputation round 19/55, elapsed time 6.278\n",
      "[MICE] Starting imputation round 20/55, elapsed time 6.626\n",
      "[MICE] Starting imputation round 21/55, elapsed time 6.973\n",
      "[MICE] Starting imputation round 22/55, elapsed time 7.321\n",
      "[MICE] Starting imputation round 23/55, elapsed time 7.669\n",
      "[MICE] Starting imputation round 24/55, elapsed time 8.017\n",
      "[MICE] Starting imputation round 25/55, elapsed time 8.365\n",
      "[MICE] Starting imputation round 26/55, elapsed time 8.712\n",
      "[MICE] Starting imputation round 27/55, elapsed time 9.060\n",
      "[MICE] Starting imputation round 28/55, elapsed time 9.410\n",
      "[MICE] Starting imputation round 29/55, elapsed time 9.760\n",
      "[MICE] Starting imputation round 30/55, elapsed time 10.109\n",
      "[MICE] Starting imputation round 31/55, elapsed time 10.459\n",
      "[MICE] Starting imputation round 32/55, elapsed time 10.808\n",
      "[MICE] Starting imputation round 33/55, elapsed time 11.158\n",
      "[MICE] Starting imputation round 34/55, elapsed time 11.507\n",
      "[MICE] Starting imputation round 35/55, elapsed time 11.857\n",
      "[MICE] Starting imputation round 36/55, elapsed time 12.206\n",
      "[MICE] Starting imputation round 37/55, elapsed time 12.555\n",
      "[MICE] Starting imputation round 38/55, elapsed time 12.905\n",
      "[MICE] Starting imputation round 39/55, elapsed time 13.255\n",
      "[MICE] Starting imputation round 40/55, elapsed time 13.604\n",
      "[MICE] Starting imputation round 41/55, elapsed time 13.953\n",
      "[MICE] Starting imputation round 42/55, elapsed time 14.303\n",
      "[MICE] Starting imputation round 43/55, elapsed time 14.652\n",
      "[MICE] Starting imputation round 44/55, elapsed time 15.002\n",
      "[MICE] Starting imputation round 45/55, elapsed time 15.351\n",
      "[MICE] Starting imputation round 46/55, elapsed time 15.700\n",
      "[MICE] Starting imputation round 47/55, elapsed time 16.050\n",
      "[MICE] Starting imputation round 48/55, elapsed time 16.399\n",
      "[MICE] Starting imputation round 49/55, elapsed time 16.749\n",
      "[MICE] Starting imputation round 50/55, elapsed time 17.098\n",
      "[MICE] Starting imputation round 51/55, elapsed time 17.448\n",
      "[MICE] Starting imputation round 52/55, elapsed time 17.797\n",
      "[MICE] Starting imputation round 53/55, elapsed time 18.146\n",
      "[MICE] Starting imputation round 54/55, elapsed time 18.496\n",
      "[MICE] Starting imputation round 55/55, elapsed time 18.845\n",
      "test size 5492 -> 5345 after removing\n"
     ]
    }
   ],
   "source": [
    "cv_splits_downsampled = {}\n",
    "for allele in [\"HLA-A0201\", \"HLA-A0301\", \"HLA-A0203\"]:\n",
    "    print(\"Allele: %s\" % allele)\n",
    "    for size in [10, 20, 30, 40, 50, 60, 70, 80, 90, 100, 150, 200, 250, 300, 350, 400, 450, 500, 600, 700, 800, 900, 1000]:\n",
    "        triples = []\n",
    "        for replica in range(3):\n",
    "            train_peptides = set(numpy.random.choice(all_train_data.get_allele(allele).peptides, size, replace=False))\n",
    "            full_test_peptides = [x for x in all_train_data.get_allele(allele).peptides if x not in train_peptides]\n",
    "            peptides_to_remove = set(similar_peptides(train_peptides, full_test_peptides))\n",
    "            test_peptides = [x for x in full_test_peptides if x not in peptides_to_remove]\n",
    "            #print(\"Removing peptides: %s\" % peptides_to_remove)\n",
    "            print(\"test size %d -> %d after removing\" % (len(full_test_peptides), len(test_peptides)))\n",
    "\n",
    "            train_dataset = all_train_data.drop_allele_peptide_lists(\n",
    "                [allele] * len(full_test_peptides), sorted(full_test_peptides))\n",
    "            test_dataset = all_train_data.drop_allele_peptide_pairs(\n",
    "                [(allele, peptide) for peptide in sorted(peptides_to_remove) + sorted(train_peptides)])\n",
    "\n",
    "            imputed_train_split = train_dataset.impute_missing_values(\n",
    "                imputer,\n",
    "                min_observations_per_peptide=2,\n",
    "                min_observations_per_allele=2)\n",
    "\n",
    "            triples.append((\n",
    "                    train_dataset.get_allele(allele),\n",
    "                    imputed_train_split.get_allele(allele),\n",
    "                    test_dataset.get_allele(allele)))\n",
    "        cv_splits_downsampled[\"%s__%d\" % (allele, size)] = triples\n",
    "                "
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_splits_downsampled"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "cv_df = defaultdict(list)\n",
    "start = time.time()\n",
    "\n",
    "for (allele, triples) in cv_splits_downsampled.items():\n",
    "    print(\"Allele: %s\" % allele)\n",
    "            \n",
    "    #cv = sklearn.cross_validation.LabelKFold(original_peptides, n_folds = 3)\n",
    "    for (fold_num, (subset_train, subset_impute, subset_test)) in enumerate(triples):\n",
    "        print(\"-- fold #%d/3\" % (fold_num + 1,))\n",
    "        \n",
    "        np.random.shuffle(models_params_list)\n",
    "        for (i, original_model_params) in enumerate(models_params_list):\n",
    "            model_params = dict(original_model_params)\n",
    "            fraction_negative = model_params[\"fraction_negative\"]\n",
    "            del model_params[\"fraction_negative\"]\n",
    "            \n",
    "            impute = model_params[\"impute\"]\n",
    "            del model_params[\"impute\"]\n",
    "            \n",
    "            n_training_epochs = model_params[\"n_training_epochs\"]\n",
    "            del model_params[\"n_training_epochs\"]\n",
    "            \n",
    "            pretrain_decay = model_params[\"pretrain_decay\"]\n",
    "            del model_params[\"pretrain_decay\"] \n",
    "            \n",
    "            print(\"%10s fold %3d [%3d / %3d] train_size=%d test_size=%d impute=%s model=%s\" %\n",
    "                  (allele, fold_num, i, len(models_params_list), len(subset_train), len(subset_test), impute, original_model_params))\n",
    "            sys.stdout.flush()\n",
    "            \n",
    "            predictor = mhcflurry.Class1BindingPredictor.from_hyperparameters(max_ic50=max_ic50, **model_params)\n",
    "\n",
    "            fit_time = -time.time()\n",
    "            predictor.fit_dataset(\n",
    "                subset_train,\n",
    "                pretrain_decay=lambda epoch: eval(pretrain_decay, {'epoch': epoch, 'numpy': numpy}),\n",
    "                pretraining_dataset=subset_impute if impute else None,\n",
    "                verbose=False,\n",
    "                batch_size=128,\n",
    "                n_training_epochs=n_training_epochs,\n",
    "                n_random_negative_samples=int(fraction_negative * len(subset_train)))\n",
    "            fit_time += time.time()\n",
    "            \n",
    "            train_predictions = predictor.predict(subset_train.peptides)\n",
    "            test_predictions = predictor.predict(subset_test.peptides)\n",
    "            \n",
    "            cv_df[\"allele\"].append(allele)\n",
    "            cv_df[\"train_size\"].append(len(subset_train))\n",
    "            cv_df[\"test_size\"].append(len(subset_test))\n",
    "\n",
    "            cv_df[\"model_params\"].append(original_model_params)\n",
    "            cv_df[\"fit_time\"].append(fit_time)\n",
    "\n",
    "            for (param, param_value) in original_model_params.items():\n",
    "                cv_df[param].append(param_value)\n",
    "            \n",
    "            for (key, value) in make_scores(subset_train.affinities, train_predictions).items():\n",
    "                cv_df[\"train_%s\" % key].append(value)\n",
    "                print(\"train %s: %f\" % (key, value))\n",
    "            \n",
    "            for (key, value) in make_scores(\n",
    "                    subset_test.affinities, \n",
    "                    test_predictions).items():\n",
    "                cv_df[\"test_%s\" % key].append(value)\n",
    "                print(\"test %s: %f\" % (key, value))\n",
    "            \n",
    "            best_model_index = sorted(cv_df)\n",
    "\n",
    "\n",
    "cv_df = pandas.DataFrame(cv_df)\n",
    "cv_df[\"layer0_size\"] = [x[0] for x in cv_df.layer_sizes]\n",
    "print(time.time() - start)\n",
    "cv_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df = pandas.DataFrame(cv_df)\n",
    "cv_df[\"layer0_size\"] = [x[0] for x in cv_df.layer_sizes]\n",
    "cv_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df[\"model_string\"] = [str(x) for x in cv_df.model_params]\n",
    "print_full(\n",
    "    cv_df.groupby([\"model_string\", \"train_size\"]).test_auc.mean().sort(inplace=False, ascending=False))"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df.groupby([\"model_string\"]).test_auc.mean().sort(inplace=False, ascending=False).to_frame()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "impute_comparison = cv_df.copy()\n",
    "impute_comparison[\"allele\"] = [x.split(\"__\")[0] for x in impute_comparison.allele]\n",
    "impute_comparison.to_csv(\"../data/impute_comparison.csv\", index=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df.groupby([\"train_size\", \"impute\"]).test_auc.max()"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df.sort(\"test_auc\", ascending=False)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df[\"combined\"] = cv_df.test_auc + cv_df.test_f1 + cv_df.test_tau"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df_str = cv_df.copy()\n",
    "print(cv_df_str.columns)\n",
    "del cv_df_str['model_params']\n",
    "del cv_df_str['fit_time']\n",
    "\n",
    "for col in [\"layer_sizes\"]:\n",
    "    cv_df_str[col] = [str(x) for x in cv_df_str[col]]\n",
    "summary = cv_df_str.groupby(list(cv_df_str.columns[:6])).mean() #.reset_index()\n",
    "summary.sort(\"combined\", ascending=False, inplace=True)\n",
    "summary.to_csv(\"../data/cv_hla0201_summary_128.csv\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": []
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "cv_df.sort(\"combined\", ascending=False, inplace=True)\n",
    "cv_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "scrolled": false
   },
   "outputs": [],
   "source": [
    "cv_df = pandas.DataFrame(cv_df)\n",
    "cv_df[\"layer0_size\"] = [x[0] for x in cv_df.layer_sizes]\n",
    "cv_df"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "scrolled": false
   },
   "outputs": [],
   "source": [
    "cv_df.to_csv(\"cv5.csv\")"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "group_columns = [\"allele\", \"allele_size\", \"impute\"]\n",
    "group_columns.extend(models_params_explored)\n",
    "group_columns.append(\"layer0_size\")\n",
    "group_columns.remove(\"layer_sizes\")\n",
    "print(mean_with_std(cv_df.groupby(group_columns).test_auc)) #.sort(inplace=False, ascending=False)\n",
    "\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": true
   },
   "outputs": [],
   "source": [
    "def best_by(score):\n",
    "    means = cv_df.groupby(group_columns)[score].mean().reset_index()\n",
    "    max_rows = []\n",
    "    for allele in means.allele.unique():\n",
    "        max_rows.append(means.ix[means.allele == allele][score].argmax())\n",
    "    return means.ix[max_rows]"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "best_by('test_auc')\n"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false,
    "scrolled": true
   },
   "outputs": [],
   "source": [
    "best_by('test_tau')"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": null,
   "metadata": {
    "collapsed": false
   },
   "outputs": [],
   "source": [
    "best_by('test_f1')"
   ]
  }
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