ihodes
commented
8 years ago ~/Desktop > echo $NETMHC_BUNDLE_TMPDIR
/tmp/netmhcbundle
~/Desktop > echo $NETMHC_BUNDLE_HOME
/Users/isaachodes/workspace/netmhc-bundle
~/Desktop > netMHCcons -f peptide_input -a HLA-B18:01 -length 8
The two methods NetMHCpan and NetMHC produced different outputs, number of peptides not the same
~/Desktop > cat peptide_input
> sequence0_0
MFCQLAKTY
~/Desktop > netMHCcons -f peptide_input -a HLA-B18:01 -length 9
The two methods NetMHCpan and NetMHC produced different outputs, number of peptides not the same
~/Desktop > netMHC -f peptide_input -a HLA-B18:01 -length 8
# /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/bin/netMHC -f peptide_input -a HLA-B18:01 -length 8
# Wed Nov 9 16:21:07 2016
# User: isaachodes
# PWD : /Users/isaachodes/Desktop
# -f peptide_input Input file (by default in FASTA format)
# -a HLA-B18:01 HLA allele name
Unrecognized parameter: -length
Usage: /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/bin/netMHC [-h] [args] [fastafile/peptidefile]
~/Desktop > python2
Python 2.7.11 (default, Mar 9 2016, 17:25:19)
[GCC 4.2.1 Compatible Apple LLVM 7.0.2 (clang-700.1.81)] on darwin
~/Desktop > netMHC-3.4 -f peptide_input -a HLA-B18:01 -length 8
Usage: netMHC.py [options] file
netMHC.py: error: no such option: -f
~/Desktop > netMHC-3.4 -a HLA-B18:01 -l 8 peptide_input
Wednesday November 9 2016 16:23
NetMHC version 3.4. 8mer predictions using Artificial Neural Networks - Approx+Direct. Allele HLA-B18:01.
Strong binder threshold 50 nM. Weak binder threshold score 500 nM
----------------------------------------------------------------------------------------------------
pos peptide logscore affinity(nM) Bind Level Protein Name Allele
----------------------------------------------------------------------------------------------------
--------------------------------------------------------------------------------------------------
~/Desktop > python2
Python 2.7.11 (default, Mar 9 2016, 17:25:19)
[GCC 4.2.1 Compatible Apple LLVM 7.0.2 (clang-700.1.81)] on darwinand nosetests
~/workspace/netmhc-bundle > nosetests-2.7 -s
Running netMHC with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/netMHC', '/Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/test/test.fsa']
***
---
***************
*** 1,5 ****
! # /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/bin/netMHC test.fsa
! # Thu Dec 17 23:17:14 2015
! # User: mniel
! # PWD : /usr/cbs/packages/netMHC/4.0/netMHC-4.0/test
! # Host: Linux padawan 2.6.37.6-0.11-desktop x86_64
--- 1,4 ----
! # /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/bin/netMHC /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/test/test.fsa
! # Wed Nov 9 16:21:46 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
***************
*** 18,22 ****
! # [-thrfmt filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/threshold/%s.thr Format for threshold filenames
! # [-hlalist filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/allelelist File with covered HLA names
! # [-rdir filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64 Home directory for NetMHC
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-syn filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/synlists/%s.synlist Format of synlist file
--- 17,21 ----
! # [-thrfmt filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/threshold/%s.thr Format for threshold filenames
! # [-hlalist filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/allelelist File with covered HLA names
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64 Home directory for NetMHC
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-syn filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/synlists/%s.synlist Format of synlist file
***************
*** 26 ****
! # [-version filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/version File with version information
--- 25 ----
! # [-version filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/version File with version information
***************
*** 30 ****
--- 30 ----
+ # Read 132 elements on pairlist /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/allelelist
Running netMHC with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/netMHC', '-p', '/Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/test/test.pep']
***
---
***************
*** 1,5 ****
! # /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/bin/netMHC -p test.pep
! # Thu Dec 17 23:16:10 2015
! # User: mniel
! # PWD : /usr/cbs/packages/netMHC/4.0/netMHC-4.0/test
! # Host: Linux padawan 2.6.37.6-0.11-desktop x86_64
--- 1,4 ----
! # /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/bin/netMHC -p /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/test/test.pep
! # Wed Nov 9 16:21:46 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
***************
*** 19,23 ****
! # [-thrfmt filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/threshold/%s.thr Format for threshold filenames
! # [-hlalist filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/allelelist File with covered HLA names
! # [-rdir filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64 Home directory for NetMHC
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-syn filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/synlists/%s.synlist Format of synlist file
--- 18,22 ----
! # [-thrfmt filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/threshold/%s.thr Format for threshold filenames
! # [-hlalist filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/allelelist File with covered HLA names
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64 Home directory for NetMHC
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-syn filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/synlists/%s.synlist Format of synlist file
***************
*** 27 ****
! # [-version filename] /usr/cbs/packages/netMHC/4.0/netMHC-4.0/Linux_x86_64/data/version File with version information
--- 26 ----
! # [-version filename] /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/version File with version information
***************
*** 31 ****
--- 31 ----
+ # Read 132 elements on pairlist /Users/isaachodes/workspace/netmhc-bundle/netMHC-4.0/Darwin_x86_64/data/allelelist
.Running netMHC-3.4 with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHC-3.4/netMHC-3.4', '-a', 'HLA-A02:01', '/Users/isaachodes/workspace/netmhc-bundle/netMHC-3.4/test/test.fsa']
***
---
***************
*** 1 ****
! Wednesday April 16 2014 22:00
--- 1 ----
! Wednesday November 9 2016 16:21
***************
*** 12,248 ****
- 0 TMDKSELVQ 0.074 22494 143B_BOVIN_(P29 HLA-A02:01
- 1 MDKSELVQK 0.049 29267 143B_BOVIN_(P29 HLA-A02:01
- 2 DKSELVQKA 0.049 29432 143B_BOVIN_(P29 HLA-A02:01
- 3 KSELVQKAK 0.052 28604 143B_BOVIN_(P29 HLA-A02:01
- 4 SELVQKAKL 0.058 26611 143B_BOVIN_(P29 HLA-A02:01
- 5 ELVQKAKLA 0.074 22572 143B_BOVIN_(P29 HLA-A02:01
- 6 LVQKAKLAE 0.051 28728 143B_BOVIN_(P29 HLA-A02:01
- 7 VQKAKLAEQ 0.065 24821 143B_BOVIN_(P29 HLA-A02:01
- 8 QKAKLAEQA 0.059 26403 143B_BOVIN_(P29 HLA-A02:01
- 9 KAKLAEQAE 0.043 31365 143B_BOVIN_(P29 HLA-A02:01
- 10 AKLAEQAER 0.055 27448 143B_BOVIN_(P29 HLA-A02:01
- 11 KLAEQAERY 0.105 16099 143B_BOVIN_(P29 HLA-A02:01
- 12 LAEQAERYD 0.044 30956 143B_BOVIN_(P29 HLA-A02:01
- 13 AEQAERYDD 0.048 29783 143B_BOVIN_(P29 HLA-A02:01
- 14 EQAERYDDM 0.078 21442 143B_BOVIN_(P29 HLA-A02:01
- 15 QAERYDDMA 0.064 24955 143B_BOVIN_(P29 HLA-A02:01
- 16 AERYDDMAA 0.067 24341 143B_BOVIN_(P29 HLA-A02:01
- 17 ERYDDMAAA 0.064 25075 143B_BOVIN_(P29 HLA-A02:01
- 18 RYDDMAAAM 0.097 17565 143B_BOVIN_(P29 HLA-A02:01
- 19 YDDMAAAMK 0.058 26655 143B_BOVIN_(P29 HLA-A02:01
- 20 DDMAAAMKA 0.057 27125 143B_BOVIN_(P29 HLA-A02:01
- 21 DMAAAMKAV 0.169 8018 143B_BOVIN_(P29 HLA-A02:01
- 22 MAAAMKAVT 0.092 18501 143B_BOVIN_(P29 HLA-A02:01
- 23 AAAMKAVTE 0.050 29126 143B_BOVIN_(P29 HLA-A02:01
- 24 AAMKAVTEQ 0.082 20574 143B_BOVIN_(P29 HLA-A02:01
- 25 AMKAVTEQG 0.078 21385 143B_BOVIN_(P29 HLA-A02:01
- 26 MKAVTEQGH 0.047 30224 143B_BOVIN_(P29 HLA-A02:01
- 27 KAVTEQGHE 0.048 29880 143B_BOVIN_(P29 HLA-A02:01
- 28 AVTEQGHEL 0.273 2616 143B_BOVIN_(P29 HLA-A02:01
- 29 VTEQGHELS 0.052 28472 143B_BOVIN_(P29 HLA-A02:01
- 30 TEQGHELSN 0.049 29583 143B_BOVIN_(P29 HLA-A02:01
- 31 EQGHELSNE 0.052 28388 143B_BOVIN_(P29 HLA-A02:01
- 32 QGHELSNEE 0.050 29131 143B_BOVIN_(P29 HLA-A02:01
- 33 GHELSNEER 0.050 28972 143B_BOVIN_(P29 HLA-A02:01
- 34 HELSNEERN 0.048 29608 143B_BOVIN_(P29 HLA-A02:01
- 35 ELSNEERNL 0.093 18313 143B_BOVIN_(P29 HLA-A02:01
- 36 LSNEERNLL 0.080 20927 143B_BOVIN_(P29 HLA-A02:01
- 37 SNEERNLLS 0.052 28335 143B_BOVIN_(P29 HLA-A02:01
- 38 NEERNLLSV 0.063 25286 143B_BOVIN_(P29 HLA-A02:01
- 39 EERNLLSVA 0.045 30618 143B_BOVIN_(P29 HLA-A02:01
- 40 ERNLLSVAY 0.050 29003 143B_BOVIN_(P29 HLA-A02:01
- 41 RNLLSVAYK 0.063 25158 143B_BOVIN_(P29 HLA-A02:01
- 42 NLLSVAYKN 0.110 15272 143B_BOVIN_(P29 HLA-A02:01
- 43 LLSVAYKNV 0.370 912 143B_BOVIN_(P29 HLA-A02:01
- 44 LSVAYKNVV 0.138 11230 143B_BOVIN_(P29 HLA-A02:01
- 45 SVAYKNVVG 0.066 24470 143B_BOVIN_(P29 HLA-A02:01
- 46 VAYKNVVGA 0.172 7790 143B_BOVIN_(P29 HLA-A02:01
- 47 AYKNVVGAR 0.051 28736 143B_BOVIN_(P29 HLA-A02:01
- 48 YKNVVGARR 0.055 27432 143B_BOVIN_(P29 HLA-A02:01
- 49 KNVVGARRS 0.054 27771 143B_BOVIN_(P29 HLA-A02:01
- 50 NVVGARRSS 0.051 28757 143B_BOVIN_(P29 HLA-A02:01
- 51 VVGARRSSW 0.050 28967 143B_BOVIN_(P29 HLA-A02:01
- 52 VGARRSSWR 0.051 28922 143B_BOVIN_(P29 HLA-A02:01
- 53 GARRSSWRV 0.108 15547 143B_BOVIN_(P29 HLA-A02:01
- 54 ARRSSWRVI 0.052 28502 143B_BOVIN_(P29 HLA-A02:01
- 55 RRSSWRVIS 0.065 24744 143B_BOVIN_(P29 HLA-A02:01
- 56 RSSWRVISS 0.088 19241 143B_BOVIN_(P29 HLA-A02:01
- 57 SSWRVISSI 0.294 2076 143B_BOVIN_(P29 HLA-A02:01
- 58 SWRVISSIE 0.046 30542 143B_BOVIN_(P29 HLA-A02:01
- 59 WRVISSIEQ 0.056 27183 143B_BOVIN_(P29 HLA-A02:01
- 60 RVISSIEQK 0.071 23252 143B_BOVIN_(P29 HLA-A02:01
- 61 VISSIEQKT 0.089 19152 143B_BOVIN_(P29 HLA-A02:01
- 62 ISSIEQKTE 0.048 29797 143B_BOVIN_(P29 HLA-A02:01
- 63 SSIEQKTER 0.058 26552 143B_BOVIN_(P29 HLA-A02:01
- 64 SIEQKTERN 0.040 32284 143B_BOVIN_(P29 HLA-A02:01
- 65 IEQKTERNE 0.047 30184 143B_BOVIN_(P29 HLA-A02:01
- 66 EQKTERNEK 0.046 30454 143B_BOVIN_(P29 HLA-A02:01
- 67 QKTERNEKK 0.046 30496 143B_BOVIN_(P29 HLA-A02:01
- 68 KTERNEKKQ 0.041 31999 143B_BOVIN_(P29 HLA-A02:01
- 69 TERNEKKQQ 0.036 33960 143B_BOVIN_(P29 HLA-A02:01
- 70 ERNEKKQQM 0.045 30860 143B_BOVIN_(P29 HLA-A02:01
- 71 RNEKKQQMG 0.050 29243 143B_BOVIN_(P29 HLA-A02:01
- 72 NEKKQQMGK 0.050 28993 143B_BOVIN_(P29 HLA-A02:01
- 73 EKKQQMGKE 0.039 32922 143B_BOVIN_(P29 HLA-A02:01
- 74 KKQQMGKEY 0.048 29837 143B_BOVIN_(P29 HLA-A02:01
- 75 KQQMGKEYR 0.068 23841 143B_BOVIN_(P29 HLA-A02:01
- 76 QQMGKEYRE 0.071 23188 143B_BOVIN_(P29 HLA-A02:01
- 77 QMGKEYREK 0.050 29163 143B_BOVIN_(P29 HLA-A02:01
- 78 MGKEYREKI 0.060 26257 143B_BOVIN_(P29 HLA-A02:01
- 79 GKEYREKIE 0.044 31068 143B_BOVIN_(P29 HLA-A02:01
- 80 KEYREKIEA 0.067 24252 143B_BOVIN_(P29 HLA-A02:01
- 81 EYREKIEAE 0.041 32021 143B_BOVIN_(P29 HLA-A02:01
- 82 YREKIEAEL 0.068 23996 143B_BOVIN_(P29 HLA-A02:01
- 83 REKIEAELQ 0.043 31543 143B_BOVIN_(P29 HLA-A02:01
- 84 EKIEAELQD 0.047 29970 143B_BOVIN_(P29 HLA-A02:01
- 85 KIEAELQDI 0.114 14589 143B_BOVIN_(P29 HLA-A02:01
- 86 IEAELQDIC 0.059 26287 143B_BOVIN_(P29 HLA-A02:01
- 87 EAELQDICN 0.042 31772 143B_BOVIN_(P29 HLA-A02:01
- 88 AELQDICND 0.051 28672 143B_BOVIN_(P29 HLA-A02:01
- 89 ELQDICNDV 0.244 3563 143B_BOVIN_(P29 HLA-A02:01
- 90 LQDICNDVL 0.192 6292 143B_BOVIN_(P29 HLA-A02:01
- 91 QDICNDVLQ 0.061 25937 143B_BOVIN_(P29 HLA-A02:01
- 92 DICNDVLQL 0.094 18091 143B_BOVIN_(P29 HLA-A02:01
- 93 ICNDVLQLL 0.184 6845 143B_BOVIN_(P29 HLA-A02:01
- 94 CNDVLQLLD 0.056 27399 143B_BOVIN_(P29 HLA-A02:01
- 95 NDVLQLLDK 0.054 27818 143B_BOVIN_(P29 HLA-A02:01
- 96 DVLQLLDKY 0.044 31174 143B_BOVIN_(P29 HLA-A02:01
- 97 VLQLLDKYL 0.325 1482 143B_BOVIN_(P29 HLA-A02:01
- 98 LQLLDKYLI 0.341 1246 143B_BOVIN_(P29 HLA-A02:01
- 99 QLLDKYLIP 0.124 13035 143B_BOVIN_(P29 HLA-A02:01
- 100 LLDKYLIPN 0.180 7154 143B_BOVIN_(P29 HLA-A02:01
- 101 LDKYLIPNA 0.066 24400 143B_BOVIN_(P29 HLA-A02:01
- 102 DKYLIPNAT 0.051 28837 143B_BOVIN_(P29 HLA-A02:01
- 103 KYLIPNATQ 0.051 28724 143B_BOVIN_(P29 HLA-A02:01
- 104 YLIPNATQP 0.174 7628 143B_BOVIN_(P29 HLA-A02:01
- 105 LIPNATQPE 0.053 28146 143B_BOVIN_(P29 HLA-A02:01
- 106 IPNATQPES 0.065 24629 143B_BOVIN_(P29 HLA-A02:01
- 107 PNATQPESK 0.043 31261 143B_BOVIN_(P29 HLA-A02:01
- 108 NATQPESKV 0.066 24563 143B_BOVIN_(P29 HLA-A02:01
- 109 ATQPESKVF 0.056 27272 143B_BOVIN_(P29 HLA-A02:01
- 110 TQPESKVFY 0.071 23084 143B_BOVIN_(P29 HLA-A02:01
- 111 QPESKVFYL 0.072 23025 143B_BOVIN_(P29 HLA-A02:01
- 112 PESKVFYLK 0.054 27912 143B_BOVIN_(P29 HLA-A02:01
- 113 ESKVFYLKM 0.054 27969 143B_BOVIN_(P29 HLA-A02:01
- 114 SKVFYLKMK 0.052 28441 143B_BOVIN_(P29 HLA-A02:01
- 115 KVFYLKMKG 0.084 20213 143B_BOVIN_(P29 HLA-A02:01
- 116 VFYLKMKGD 0.046 30407 143B_BOVIN_(P29 HLA-A02:01
- 117 FYLKMKGDY 0.053 28041 143B_BOVIN_(P29 HLA-A02:01
- 118 YLKMKGDYF 0.106 15889 143B_BOVIN_(P29 HLA-A02:01
- 119 LKMKGDYFR 0.070 23485 143B_BOVIN_(P29 HLA-A02:01
- 120 KMKGDYFRY 0.088 19257 143B_BOVIN_(P29 HLA-A02:01
- 121 MKGDYFRYL 0.140 11021 143B_BOVIN_(P29 HLA-A02:01
- 122 KGDYFRYLS 0.081 20886 143B_BOVIN_(P29 HLA-A02:01
- 123 GDYFRYLSE 0.052 28444 143B_BOVIN_(P29 HLA-A02:01
- 124 DYFRYLSEV 0.107 15646 143B_BOVIN_(P29 HLA-A02:01
- 125 YFRYLSEVA 0.084 20193 143B_BOVIN_(P29 HLA-A02:01
- 126 FRYLSEVAS 0.066 24462 143B_BOVIN_(P29 HLA-A02:01
- 127 RYLSEVASG 0.068 23965 143B_BOVIN_(P29 HLA-A02:01
- 128 YLSEVASGD 0.136 11451 143B_BOVIN_(P29 HLA-A02:01
- 129 LSEVASGDN 0.048 29618 143B_BOVIN_(P29 HLA-A02:01
- 130 SEVASGDNK 0.048 29845 143B_BOVIN_(P29 HLA-A02:01
- 131 EVASGDNKQ 0.043 31238 143B_BOVIN_(P29 HLA-A02:01
- 132 VASGDNKQT 0.062 25667 143B_BOVIN_(P29 HLA-A02:01
- 133 ASGDNKQTT 0.057 27066 143B_BOVIN_(P29 HLA-A02:01
- 134 SGDNKQTTV 0.097 17538 143B_BOVIN_(P29 HLA-A02:01
- 135 GDNKQTTVS 0.054 27831 143B_BOVIN_(P29 HLA-A02:01
- 136 DNKQTTVSN 0.042 31631 143B_BOVIN_(P29 HLA-A02:01
- 137 NKQTTVSNS 0.057 26908 143B_BOVIN_(P29 HLA-A02:01
- 138 KQTTVSNSQ 0.078 21601 143B_BOVIN_(P29 HLA-A02:01
- 139 QTTVSNSQQ 0.047 30025 143B_BOVIN_(P29 HLA-A02:01
- 140 TTVSNSQQA 0.107 15631 143B_BOVIN_(P29 HLA-A02:01
- 141 TVSNSQQAY 0.057 26991 143B_BOVIN_(P29 HLA-A02:01
- 142 VSNSQQAYQ 0.056 27168 143B_BOVIN_(P29 HLA-A02:01
- 143 SNSQQAYQE 0.048 29792 143B_BOVIN_(P29 HLA-A02:01
- 144 NSQQAYQEA 0.068 24078 143B_BOVIN_(P29 HLA-A02:01
- 145 SQQAYQEAF 0.112 14892 143B_BOVIN_(P29 HLA-A02:01
- 146 QQAYQEAFE 0.071 23194 143B_BOVIN_(P29 HLA-A02:01
- 147 QAYQEAFEI 0.189 6478 143B_BOVIN_(P29 HLA-A02:01
- 148 AYQEAFEIS 0.061 25912 143B_BOVIN_(P29 HLA-A02:01
- 149 YQEAFEISK 0.086 19755 143B_BOVIN_(P29 HLA-A02:01
- 150 QEAFEISKK 0.049 29351 143B_BOVIN_(P29 HLA-A02:01
- 151 EAFEISKKE 0.043 31229 143B_BOVIN_(P29 HLA-A02:01
- 152 AFEISKKEM 0.047 30093 143B_BOVIN_(P29 HLA-A02:01
- 153 FEISKKEMQ 0.053 28304 143B_BOVIN_(P29 HLA-A02:01
- 154 EISKKEMQP 0.049 29507 143B_BOVIN_(P29 HLA-A02:01
- 155 ISKKEMQPT 0.064 25105 143B_BOVIN_(P29 HLA-A02:01
- 156 SKKEMQPTH 0.044 31120 143B_BOVIN_(P29 HLA-A02:01
- 157 KKEMQPTHP 0.050 29148 143B_BOVIN_(P29 HLA-A02:01
- 158 KEMQPTHPI 0.158 9033 143B_BOVIN_(P29 HLA-A02:01
- 159 EMQPTHPIR 0.047 30147 143B_BOVIN_(P29 HLA-A02:01
- 160 MQPTHPIRL 0.303 1876 143B_BOVIN_(P29 HLA-A02:01
- 161 QPTHPIRLG 0.057 27115 143B_BOVIN_(P29 HLA-A02:01
- 162 PTHPIRLGL 0.063 25207 143B_BOVIN_(P29 HLA-A02:01
- 163 THPIRLGLA 0.054 27893 143B_BOVIN_(P29 HLA-A02:01
- 164 HPIRLGLAL 0.073 22787 143B_BOVIN_(P29 HLA-A02:01
- 165 PIRLGLALN 0.039 32941 143B_BOVIN_(P29 HLA-A02:01
- 166 IRLGLALNF 0.069 23699 143B_BOVIN_(P29 HLA-A02:01
- 167 RLGLALNFS 0.163 8555 143B_BOVIN_(P29 HLA-A02:01
- 168 LGLALNFSV 0.348 1160 143B_BOVIN_(P29 HLA-A02:01
- 169 GLALNFSVF 0.102 16502 143B_BOVIN_(P29 HLA-A02:01
- 170 LALNFSVFY 0.096 17637 143B_BOVIN_(P29 HLA-A02:01
- 171 ALNFSVFYY 0.228 4259 143B_BOVIN_(P29 HLA-A02:01
- 172 LNFSVFYYE 0.077 21647 143B_BOVIN_(P29 HLA-A02:01
- 173 NFSVFYYEI 0.161 8727 143B_BOVIN_(P29 HLA-A02:01
- 174 FSVFYYEIL 0.243 3596 143B_BOVIN_(P29 HLA-A02:01
- 175 SVFYYEILN 0.087 19553 143B_BOVIN_(P29 HLA-A02:01
- 176 VFYYEILNS 0.073 22659 143B_BOVIN_(P29 HLA-A02:01
- 177 FYYEILNSP 0.121 13488 143B_BOVIN_(P29 HLA-A02:01
- 178 YYEILNSPE 0.054 28017 143B_BOVIN_(P29 HLA-A02:01
- 179 YEILNSPEK 0.075 22292 143B_BOVIN_(P29 HLA-A02:01
- 180 EILNSPEKA 0.089 19127 143B_BOVIN_(P29 HLA-A02:01
- 181 ILNSPEKAC 0.068 24023 143B_BOVIN_(P29 HLA-A02:01
- 182 LNSPEKACS 0.047 30158 143B_BOVIN_(P29 HLA-A02:01
- 183 NSPEKACSL 0.087 19528 143B_BOVIN_(P29 HLA-A02:01
- 184 SPEKACSLA 0.054 27933 143B_BOVIN_(P29 HLA-A02:01
- 185 PEKACSLAK 0.049 29477 143B_BOVIN_(P29 HLA-A02:01
- 186 EKACSLAKT 0.053 28111 143B_BOVIN_(P29 HLA-A02:01
- 187 KACSLAKTA 0.080 21025 143B_BOVIN_(P29 HLA-A02:01
- 188 ACSLAKTAF 0.057 26866 143B_BOVIN_(P29 HLA-A02:01
- 189 CSLAKTAFD 0.066 24516 143B_BOVIN_(P29 HLA-A02:01
- 190 SLAKTAFDE 0.073 22741 143B_BOVIN_(P29 HLA-A02:01
- 191 LAKTAFDEA 0.074 22559 143B_BOVIN_(P29 HLA-A02:01
- 192 AKTAFDEAI 0.080 20969 143B_BOVIN_(P29 HLA-A02:01
- 193 KTAFDEAIA 0.129 12383 143B_BOVIN_(P29 HLA-A02:01
- 194 TAFDEAIAE 0.056 27259 143B_BOVIN_(P29 HLA-A02:01
- 195 AFDEAIAEL 0.257 3092 143B_BOVIN_(P29 HLA-A02:01
- 196 FDEAIAELD 0.052 28397 143B_BOVIN_(P29 HLA-A02:01
- 197 DEAIAELDT 0.046 30463 143B_BOVIN_(P29 HLA-A02:01
- 198 EAIAELDTL 0.093 18285 143B_BOVIN_(P29 HLA-A02:01
- 199 AIAELDTLN 0.072 22929 143B_BOVIN_(P29 HLA-A02:01
- 200 IAELDTLNE 0.051 28731 143B_BOVIN_(P29 HLA-A02:01
- 201 AELDTLNEE 0.054 27894 143B_BOVIN_(P29 HLA-A02:01
- 202 ELDTLNEES 0.073 22805 143B_BOVIN_(P29 HLA-A02:01
- 203 LDTLNEESY 0.049 29388 143B_BOVIN_(P29 HLA-A02:01
- 204 DTLNEESYK 0.047 29939 143B_BOVIN_(P29 HLA-A02:01
- 205 TLNEESYKD 0.070 23428 143B_BOVIN_(P29 HLA-A02:01
- 206 LNEESYKDS 0.049 29466 143B_BOVIN_(P29 HLA-A02:01
- 207 NEESYKDST 0.056 27351 143B_BOVIN_(P29 HLA-A02:01
- 208 EESYKDSTL 0.054 28010 143B_BOVIN_(P29 HLA-A02:01
- 209 ESYKDSTLI 0.078 21571 143B_BOVIN_(P29 HLA-A02:01
- 210 SYKDSTLIM 0.064 25148 143B_BOVIN_(P29 HLA-A02:01
- 211 YKDSTLIMQ 0.071 23292 143B_BOVIN_(P29 HLA-A02:01
- 212 KDSTLIMQL 0.084 20249 143B_BOVIN_(P29 HLA-A02:01
- 213 DSTLIMQLL 0.060 26126 143B_BOVIN_(P29 HLA-A02:01
- 214 STLIMQLLR 0.067 24269 143B_BOVIN_(P29 HLA-A02:01
- 215 TLIMQLLRD 0.072 23006 143B_BOVIN_(P29 HLA-A02:01
- 216 LIMQLLRDN 0.061 25829 143B_BOVIN_(P29 HLA-A02:01
- 217 IMQLLRDNL 0.250 3356 143B_BOVIN_(P29 HLA-A02:01
- 218 MQLLRDNLT 0.160 8841 143B_BOVIN_(P29 HLA-A02:01
- 219 QLLRDNLTL 0.492 243 WB 143B_BOVIN_(P29 HLA-A02:01
- 220 LLRDNLTLW 0.077 21826 143B_BOVIN_(P29 HLA-A02:01
- 221 LRDNLTLWT 0.072 22923 143B_BOVIN_(P29 HLA-A02:01
- 222 RDNLTLWTS 0.069 23638 143B_BOVIN_(P29 HLA-A02:01
- 223 DNLTLWTSE 0.047 30216 143B_BOVIN_(P29 HLA-A02:01
- 224 NLTLWTSEN 0.067 24253 143B_BOVIN_(P29 HLA-A02:01
- 225 LTLWTSENQ 0.070 23476 143B_BOVIN_(P29 HLA-A02:01
- 226 TLWTSENQG 0.104 16168 143B_BOVIN_(P29 HLA-A02:01
- 227 LWTSENQGD 0.049 29522 143B_BOVIN_(P29 HLA-A02:01
- 228 WTSENQGDE 0.057 26964 143B_BOVIN_(P29 HLA-A02:01
- 229 TSENQGDEG 0.054 28002 143B_BOVIN_(P29 HLA-A02:01
- 230 SENQGDEGD 0.046 30378 143B_BOVIN_(P29 HLA-A02:01
- 231 ENQGDEGDA 0.043 31326 143B_BOVIN_(P29 HLA-A02:01
- 232 NQGDEGDAG 0.066 24390 143B_BOVIN_(P29 HLA-A02:01
- 233 QGDEGDAGE 0.055 27623 143B_BOVIN_(P29 HLA-A02:01
- 234 GDEGDAGEG 0.052 28506 143B_BOVIN_(P29 HLA-A02:01
- 235 DEGDAGEGE 0.043 31355 143B_BOVIN_(P29 HLA-A02:01
- 236 EGDAGEGEN 0.046 30244 143B_BOVIN_(P29 HLA-A02:01
--- 11 ----
Running netMHC-3.4 with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHC-3.4/netMHC-3.4', '-a', 'HLA-A02:01', '-p', '/Users/isaachodes/workspace/netmhc-bundle/netMHC-3.4/test/test.pep']
***
---
***************
*** 1 ****
! Wednesday April 16 2014 22:00
--- 1 ----
! Wednesday November 9 2016 16:21
***************
*** 12,21 ****
- 0 AAAWYLWEV 0.823 6 SB Peptides HLA-A02:01
- 1 AAGLQDCTM 0.072 23033 Peptides HLA-A02:01
- 2 AARNIVRRA 0.066 24592 Peptides HLA-A02:01
- 3 AARPDDPTL 0.086 19689 Peptides HLA-A02:01
- 4 AASCGGAVF 0.075 22290 Peptides HLA-A02:01
- 5 AASKQQMLM 0.102 16505 Peptides HLA-A02:01
- 6 AASSTHRKV 0.086 19725 Peptides HLA-A02:01
- 7 AEALLADGL 0.079 21323 Peptides HLA-A02:01
- 8 AEESLSLEA 0.069 23715 Peptides HLA-A02:01
- 9 AEFGPWQTV 0.116 14306 Peptides HLA-A02:01
--- 11 ----
.Running netMHCpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/netMHCpan', '-p', '/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.pep']
***
---
***************
*** 1,5 ****
! # /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/bin/netMHCpan -p test.pep
! # Wed Mar 6 19:14:13 2013
! # User: mniel
! # PWD : /usr/cbs/bio/src/netMHCpan-2.8/test
! # Host: Linux interaction 2.6.16.54-0.2.12-default ia64
--- 1,4 ----
! # /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/bin/netMHCpan -p /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.pep
! # Wed Nov 9 16:21:46 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
***************
*** 8,9 ****
! # [-rdir filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64 Home directory for NetMHpan
! # [-syn filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/syn/synaps Synaps file
--- 7,8 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64 Home directory for NetMHpan
! # [-syn filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/syn/synaps Synaps file
***************
*** 13,14 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/MHC_pseudo.dat File with HLA pseudo sequences
--- 12,13 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
***************
*** 29 ****
! # [-thrfmt filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/%s.thr Format for threshold filenames
--- 28 ----
! # [-thrfmt filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/%s.thr Format for threshold filenames
***************
*** 31 ****
! # [-whitelist filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/whitelist List of alleles to include IC50 values
--- 30 ----
! # [-whitelist filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/whitelist List of alleles to include IC50 values
***************
*** 33 ****
! # [-version filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/version File with version information
--- 32 ----
! # [-version filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/version File with version information
Running netMHCpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/netMHCpan', '/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.fsa']
***
---
***************
*** 1,5 ****
! # /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/bin/netMHCpan test.fsa
! # Wed Mar 6 19:15:06 2013
! # User: mniel
! # PWD : /usr/cbs/bio/src/netMHCpan-2.8/test
! # Host: Linux interaction 2.6.16.54-0.2.12-default ia64
--- 1,4 ----
! # /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/bin/netMHCpan /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.fsa
! # Wed Nov 9 16:21:47 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
***************
*** 7,8 ****
! # [-rdir filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64 Home directory for NetMHpan
! # [-syn filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/syn/synaps Synaps file
--- 6,7 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64 Home directory for NetMHpan
! # [-syn filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/syn/synaps Synaps file
***************
*** 12,13 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/MHC_pseudo.dat File with HLA pseudo sequences
--- 11,12 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
***************
*** 28 ****
! # [-thrfmt filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/%s.thr Format for threshold filenames
--- 27 ----
! # [-thrfmt filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/%s.thr Format for threshold filenames
***************
*** 30 ****
! # [-whitelist filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/whitelist List of alleles to include IC50 values
--- 29 ----
! # [-whitelist filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/whitelist List of alleles to include IC50 values
***************
*** 32 ****
! # [-version filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/version File with version information
--- 31 ----
! # [-version filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/version File with version information
***************
*** 264 ****
! 213 HLA-A*02:01 DSTLIMQLL 143B_BOVIN_P293 0.053 28200.91 50.00
--- 263 ----
! 213 HLA-A*02:01 DSTLIMQLL 143B_BOVIN_P293 0.053 28201.20 50.00
Running netMHCpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/netMHCpan', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/B0702.fsa', '-p', '/Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.pep']
***
---
***************
*** 1,6 ****
! # /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/bin/netMHCpan -hlaseq B0702.fsa -p test.pep
! # Wed Mar 6 19:15:34 2013
! # User: mniel
! # PWD : /usr/cbs/bio/src/netMHCpan-2.8/test
! # Host: Linux interaction 2.6.16.54-0.2.12-default ia64
! # -hlaseq B0702.fsa File with full length HLA sequences
--- 1,5 ----
! # /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/bin/netMHCpan -hlaseq /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/B0702.fsa -p /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/test.pep
! # Wed Nov 9 16:21:48 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
! # -hlaseq /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/B0702.fsa File with full length HLA sequences
***************
*** 9,10 ****
! # [-rdir filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64 Home directory for NetMHpan
! # [-syn filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/syn/synaps Synaps file
--- 8,9 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64 Home directory for NetMHpan
! # [-syn filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/syn/synaps Synaps file
***************
*** 14,16 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/MHC_pseudo.dat File with HLA pseudo sequences
! # [-hlaseq filename] B0702.fsa File with full length HLA sequences
--- 13,15 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
! # [-hlaseq filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/test/B0702.fsa File with full length HLA sequences
***************
*** 30 ****
! # [-thrfmt filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/%s.thr Format for threshold filenames
--- 29 ----
! # [-thrfmt filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/%s.thr Format for threshold filenames
***************
*** 32 ****
! # [-whitelist filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/threshold/whitelist List of alleles to include IC50 values
--- 31 ----
! # [-whitelist filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/threshold/whitelist List of alleles to include IC50 values
***************
*** 34 ****
! # [-version filename] /usr/cbs/bio/src/netMHCpan-2.8//Linux_ia64/data/version File with version information
--- 33 ----
! # [-version filename] /Users/isaachodes/workspace/netmhc-bundle/netMHCpan-2.8/Darwin_x86_64/data/version File with version information
.Running PickPocket with args: ['/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/PickPocket', '-p', '/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.pep']
***
---
***************
*** 1,5 ****
! # /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/bin/pickpocket_pmbec -p test.pep -d /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/data/PMBEC.lib
! # Fri Sep 5 21:18:27 2014
! # User: mniel
! # PWD : /usr/cbs/bio/src/pickpocket-1.1/test
! # Host: Linux service0 2.6.32.12-0.7-default x86_64
--- 1,4 ----
! # /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/bin/pickpocket_pmbec -p /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.pep -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib
! # Wed Nov 9 16:21:48 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
***************
*** 7 ****
! # -d /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/data/PMBEC.lib Matrix library definitions
--- 6 ----
! # -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
***************
*** 9 ****
! # [-rdir filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64 Home directory for NetMHpan
--- 8 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64 Home directory for NetMHpan
***************
*** 12,13 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
--- 11,12 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
***************
*** 23,24 ****
! # [-c filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/data/contact.txt Contacts
! # [-d filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_x86_64/data/PMBEC.lib Matrix library definitions
--- 22,23 ----
! # [-c filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/contact.txt Contacts
! # [-d filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
Running PickPocket with args: ['/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/PickPocket', '/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.fsa']
***
---
***************
*** 1,6 ****
! # /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/bin/pickpocket_pmbec test.fsa -d /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib
! # Sat Aug 9 19:36:17 2014
! # User: mniel
! # PWD : /usr/cbs/bio/src/pickpocket-1.1/test
! # Host: Linux interaction 2.6.16.54-0.2.12-default ia64
! # -d /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib Matrix definitions
--- 1,5 ----
! # /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/bin/pickpocket_pmbec /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.fsa -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib
! # Wed Nov 9 16:21:48 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
! # -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
***************
*** 8 ****
! # [-rdir filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64 Home directory for NetMHpan
--- 7 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64 Home directory for NetMHpan
***************
*** 11,12 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/MHC_pseudo.dat File with HLA pseudo sequences
--- 10,11 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
***************
*** 22,23 ****
! # [-c filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/contact.txt Contacts
! # [-d filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib Matrix definitions
--- 21,22 ----
! # [-c filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/contact.txt Contacts
! # [-d filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
Running PickPocket with args: ['/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/PickPocket', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/B0702.fsa', '-p', '/Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.pep']
***
---
***************
*** 1,6 ****
! # /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/bin/pickpocket_pmbec -hlaseq B0702.fsa -p test.pep -d /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib
! # Sat Aug 9 19:36:46 2014
! # User: mniel
! # PWD : /usr/cbs/bio/src/pickpocket-1.1/test
! # Host: Linux interaction 2.6.16.54-0.2.12-default ia64
! # -hlaseq B0702.fsa File with full length HLA sequences
--- 1,5 ----
! # /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/bin/pickpocket_pmbec -hlaseq /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/B0702.fsa -p /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/test.pep -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib
! # Wed Nov 9 16:21:48 2016
! # User: isaachodes
! # PWD : /Users/isaachodes/workspace/netmhc-bundle
! # -hlaseq /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/B0702.fsa File with full length HLA sequences
***************
*** 8 ****
! # -d /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib Matrix definitions
--- 7 ----
! # -d /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
***************
*** 10 ****
! # [-rdir filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64 Home directory for NetMHpan
--- 9 ----
! # [-rdir filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64 Home directory for NetMHpan
***************
*** 13,15 ****
! # [-tdir filename] /scratch Temporary directory (Default $$)
! # [-hlapseudo filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/MHC_pseudo.dat File with HLA pseudo sequences
! # [-hlaseq filename] B0702.fsa File with full length HLA sequences
--- 12,14 ----
! # [-tdir filename] /tmp/netmhcbundle Temporary directory (Default $$)
! # [-hlapseudo filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/MHC_pseudo.dat File with HLA pseudo sequences
! # [-hlaseq filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/test/B0702.fsa File with full length HLA sequences
***************
*** 24,25 ****
! # [-c filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/contact.txt Contacts
! # [-d filename] /usr/cbs/bio/src/pickpocket-1.1/Linux_ia64/data/PMBEC.lib Matrix definitions
--- 23,24 ----
! # [-c filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/contact.txt Contacts
! # [-d filename] /Users/isaachodes/workspace/netmhc-bundle/pickpocket-1.1/Darwin_x86_64/data/PMBEC.lib Matrix definitions
.Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1']
***
---
***************
*** 1 ****
! # Method: NetMHCcons
--- 1 ----
! The two methods NetMHCpan and NetMHC produced different outputs, number of peptides not the same
***************
*** 3,35 ****
- # Input is in PEPTIDE format
-
- # Peptide length 9
-
- # Threshold for Strong binding peptides (IC50) 50.000 nM
- # Threshold for Weak binding peptides (IC50) 500.000 nM
-
- # Threshold for Strong binding peptides (%Rank) 0.5%
- # Threshold for Weak binding peptides (%Rank) 2%
-
- # Allele: HLA-A02:01
-
- # Distance to the nearest neighbour ( HLA-A02:01 ) in the training set: 0.000
-
- # NetMHCcons = NetMHC+NetMHCpan
-
- ---------------------------------------------------------------------------------------
- pos Allele peptide Identity 1-log50k(aff) Affinity(nM) %Rank Exp_Binding BindingLevel
- ---------------------------------------------------------------------------------------
- 0 HLA-A02:01 AAAWYLWEV PEPLIST 0.825 6.64 0.20 0.743 <=SB
- 0 HLA-A02:01 AAGLQDCTM PEPLIST 0.055 27725.29 50.00 0.000
- 0 HLA-A02:01 AARNIVRRA PEPLIST 0.054 27725.29 50.00 0.000
- 0 HLA-A02:01 AARPDDPTL PEPLIST 0.065 24882.07 50.00 0.149
- 0 HLA-A02:01 AASCGGAVF PEPLIST 0.067 24349.41 50.00 0.149
- 0 HLA-A02:01 AASKQQMLM PEPLIST 0.083 20368.33 32.00 0.000
- 0 HLA-A02:01 AASSTHRKV PEPLIST 0.074 22451.54 32.00 0.272
- 0 HLA-A02:01 AEALLADGL PEPLIST 0.062 25564.30 50.00 0.085
- 0 HLA-A02:01 AEESLSLEA PEPLIST 0.050 29266.51 50.00 0.000
- 0 HLA-A02:01 AEFGPWQTV PEPLIST 0.139 11172.82 16.00 0.316
- ---------------------------------------------------------------------------------------
- Number of strong binders: 1 Number of weak binders: 0
- ---------------------------------------------------------------------------------------
-
--- 2 ----
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.fsa']
***
---
***************
*** 1 ****
! # Method: NetMHCcons
--- 1 ----
! The two methods NetMHCpan and NetMHC produced different outputs, number of peptides not the same
***************
*** 3,262 ****
- # Input is in FASTA format
-
- # Peptide length 9
-
- # Threshold for Strong binding peptides (IC50) 50.000 nM
- # Threshold for Weak binding peptides (IC50) 500.000 nM
-
- # Threshold for Strong binding peptides (%Rank) 0.5%
- # Threshold for Weak binding peptides (%Rank) 2%
-
- # Allele: HLA-A02:01
-
- # Distance to the nearest neighbour ( HLA-A02:01 ) in the training set: 0.000
-
- # NetMHCcons = NetMHC+NetMHCpan
-
- ---------------------------------------------------------------------------------------
- pos Allele peptide Identity 1-log50k(aff) Affinity(nM) %Rank BindingLevel
- ---------------------------------------------------------------------------------------
- 0 HLA-A02:01 TMDKSELVQ 143B_BOVIN_P293 0.069 23699.60 50.00
- 1 HLA-A02:01 MDKSELVQK 143B_BOVIN_P293 0.033 34798.02 50.00
- 2 HLA-A02:01 DKSELVQKA 143B_BOVIN_P293 0.030 36337.11 50.00
- 3 HLA-A02:01 KSELVQKAK 143B_BOVIN_P293 0.032 35367.39 50.00
- 4 HLA-A02:01 SELVQKAKL 143B_BOVIN_P293 0.040 32434.80 50.00
- 5 HLA-A02:01 ELVQKAKLA 143B_BOVIN_P293 0.065 24882.07 50.00
- 6 HLA-A02:01 LVQKAKLAE 143B_BOVIN_P293 0.037 33686.63 50.00
- 7 HLA-A02:01 VQKAKLAEQ 143B_BOVIN_P293 0.050 29266.51 50.00
- 8 HLA-A02:01 QKAKLAEQA 143B_BOVIN_P293 0.038 33324.12 50.00
- 9 HLA-A02:01 KAKLAEQAE 143B_BOVIN_P293 0.027 37333.42 50.00
- 10 HLA-A02:01 AKLAEQAER 143B_BOVIN_P293 0.032 35367.39 50.00
- 11 HLA-A02:01 KLAEQAERY 143B_BOVIN_P293 0.098 17223.50 32.00
- 12 HLA-A02:01 LAEQAERYD 143B_BOVIN_P293 0.026 37944.28 50.00
- 13 HLA-A02:01 AEQAERYDD 143B_BOVIN_P293 0.026 37739.56 50.00
- 14 HLA-A02:01 EQAERYDDM 143B_BOVIN_P293 0.056 27278.95 50.00
- 15 HLA-A02:01 QAERYDDMA 143B_BOVIN_P293 0.041 32085.75 50.00
- 16 HLA-A02:01 AERYDDMAA 143B_BOVIN_P293 0.041 31912.64 50.00
- 17 HLA-A02:01 ERYDDMAAA 143B_BOVIN_P293 0.050 29108.61 50.00
- 18 HLA-A02:01 RYDDMAAAM 143B_BOVIN_P293 0.097 17410.87 32.00
- 19 HLA-A02:01 YDDMAAAMK 143B_BOVIN_P293 0.038 33324.12 50.00
- 20 HLA-A02:01 DDMAAAMKA 143B_BOVIN_P293 0.038 33324.12 50.00
- 21 HLA-A02:01 DMAAAMKAV 143B_BOVIN_P293 0.190 6399.79 15.00
- 22 HLA-A02:01 MAAAMKAVT 143B_BOVIN_P293 0.075 22209.93 32.00
- 23 HLA-A02:01 AAAMKAVTE 143B_BOVIN_P293 0.035 34237.82 50.00
- 24 HLA-A02:01 AAMKAVTEQ 143B_BOVIN_P293 0.060 26123.53 50.00
- 25 HLA-A02:01 AMKAVTEQG 143B_BOVIN_P293 0.070 23444.56 50.00
- 26 HLA-A02:01 MKAVTEQGH 143B_BOVIN_P293 0.029 36337.11 50.00
- 27 HLA-A02:01 KAVTEQGHE 143B_BOVIN_P293 0.029 36732.40 50.00
- 28 HLA-A02:01 AVTEQGHEL 143B_BOVIN_P293 0.239 3786.74 10.00
- 29 HLA-A02:01 VTEQGHELS 143B_BOVIN_P293 0.038 33324.12 50.00
- 30 HLA-A02:01 TEQGHELSN 143B_BOVIN_P293 0.028 36931.66 50.00
- 31 HLA-A02:01 EQGHELSNE 143B_BOVIN_P293 0.031 35946.07 50.00
- 32 HLA-A02:01 QGHELSNEE 143B_BOVIN_P293 0.029 36732.40 50.00
- 33 HLA-A02:01 GHELSNEER 143B_BOVIN_P293 0.029 36732.40 50.00
- 34 HLA-A02:01 HELSNEERN 143B_BOVIN_P293 0.027 37333.42 50.00
- 35 HLA-A02:01 ELSNEERNL 143B_BOVIN_P293 0.078 21500.59 32.00
- 36 HLA-A02:01 LSNEERNLL 143B_BOVIN_P293 0.078 21500.59 32.00
- 37 HLA-A02:01 SNEERNLLS 143B_BOVIN_P293 0.032 35367.39 50.00
- 38 HLA-A02:01 NEERNLLSV 143B_BOVIN_P293 0.055 27575.71 50.00
- 39 HLA-A02:01 EERNLLSVA 143B_BOVIN_P293 0.030 36141.06 50.00
- 40 HLA-A02:01 ERNLLSVAY 143B_BOVIN_P293 0.033 34798.02 50.00
- 41 HLA-A02:01 RNLLSVAYK 143B_BOVIN_P293 0.048 29745.37 50.00
- 42 HLA-A02:01 NLLSVAYKN 143B_BOVIN_P293 0.111 15044.73 32.00
- 43 HLA-A02:01 LLSVAYKNV 143B_BOVIN_P293 0.407 608.33 5.00
- 44 HLA-A02:01 LSVAYKNVV 143B_BOVIN_P293 0.123 13212.86 32.00
- 45 HLA-A02:01 SVAYKNVVG 143B_BOVIN_P293 0.048 29584.89 50.00
- 46 HLA-A02:01 VAYKNVVGA 143B_BOVIN_P293 0.213 4989.87 15.00
- 47 HLA-A02:01 AYKNVVGAR 143B_BOVIN_P293 0.032 35176.57 50.00
- 48 HLA-A02:01 YKNVVGARR 143B_BOVIN_P293 0.033 34986.78 50.00
- 49 HLA-A02:01 KNVVGARRS 143B_BOVIN_P293 0.032 35367.39 50.00
- 50 HLA-A02:01 NVVGARRSS 143B_BOVIN_P293 0.035 34237.82 50.00
- 51 HLA-A02:01 VVGARRSSW 143B_BOVIN_P293 0.041 31912.64 50.00
- 52 HLA-A02:01 VGARRSSWR 143B_BOVIN_P293 0.033 34986.78 50.00
- 53 HLA-A02:01 GARRSSWRV 143B_BOVIN_P293 0.096 17695.75 32.00
- 54 HLA-A02:01 ARRSSWRVI 143B_BOVIN_P293 0.038 33324.12 50.00
- 55 HLA-A02:01 RRSSWRVIS 143B_BOVIN_P293 0.045 30726.73 50.00
- 56 HLA-A02:01 RSSWRVISS 143B_BOVIN_P293 0.078 21617.22 32.00
- 57 HLA-A02:01 SSWRVISSI 143B_BOVIN_P293 0.266 2812.19 9.00
- 58 HLA-A02:01 SWRVISSIE 143B_BOVIN_P293 0.030 35946.07 50.00
- 59 HLA-A02:01 WRVISSIEQ 143B_BOVIN_P293 0.036 33869.37 50.00
- 60 HLA-A02:01 RVISSIEQK 143B_BOVIN_P293 0.059 26265.23 50.00
- 61 HLA-A02:01 VISSIEQKT 143B_BOVIN_P293 0.084 20149.14 32.00
- 62 HLA-A02:01 ISSIEQKTE 143B_BOVIN_P293 0.029 36534.22 50.00
- 63 HLA-A02:01 SSIEQKTER 143B_BOVIN_P293 0.037 33686.63 50.00
- 64 HLA-A02:01 SIEQKTERN 143B_BOVIN_P293 0.025 38150.11 50.00
- 65 HLA-A02:01 IEQKTERNE 143B_BOVIN_P293 0.026 37739.56 50.00
- 66 HLA-A02:01 EQKTERNEK 143B_BOVIN_P293 0.026 37739.56 50.00
- 67 HLA-A02:01 QKTERNEKK 143B_BOVIN_P293 0.025 37944.28 50.00
- 68 HLA-A02:01 KTERNEKKQ 143B_BOVIN_P293 0.023 38984.65 50.00
- 69 HLA-A02:01 TERNEKKQQ 143B_BOVIN_P293 0.019 40708.92 50.00
- 70 HLA-A02:01 ERNEKKQQM 143B_BOVIN_P293 0.028 36931.66 50.00
- 71 HLA-A02:01 RNEKKQQMG 143B_BOVIN_P293 0.027 37132.00 50.00
- 72 HLA-A02:01 NEKKQQMGK 143B_BOVIN_P293 0.029 36732.40 50.00
- 73 HLA-A02:01 EKKQQMGKE 143B_BOVIN_P293 0.021 39837.46 50.00
- 74 HLA-A02:01 KKQQMGKEY 143B_BOVIN_P293 0.029 36534.22 50.00
- 75 HLA-A02:01 KQQMGKEYR 143B_BOVIN_P293 0.050 29266.51 50.00
- 76 HLA-A02:01 QQMGKEYRE 143B_BOVIN_P293 0.055 27725.29 50.00
- 77 HLA-A02:01 QMGKEYREK 143B_BOVIN_P293 0.034 34423.54 50.00
- 78 HLA-A02:01 MGKEYREKI 143B_BOVIN_P293 0.043 31229.48 50.00
- 79 HLA-A02:01 GKEYREKIE 143B_BOVIN_P293 0.024 38774.32 50.00
- 80 HLA-A02:01 KEYREKIEA 143B_BOVIN_P293 0.049 29425.27 50.00
- 81 HLA-A02:01 EYREKIEAE 143B_BOVIN_P293 0.024 38565.12 50.00
- 82 HLA-A02:01 YREKIEAEL 143B_BOVIN_P293 0.065 24614.30 50.00
- 83 HLA-A02:01 REKIEAELQ 143B_BOVIN_P293 0.025 38150.11 50.00
- 84 HLA-A02:01 EKIEAELQD 143B_BOVIN_P293 0.026 37535.94 50.00
- 85 HLA-A02:01 KIEAELQDI 143B_BOVIN_P293 0.138 11294.36 16.00
- 86 HLA-A02:01 IEAELQDIC 143B_BOVIN_P293 0.038 33324.12 50.00
- 87 HLA-A02:01 EAELQDICN 143B_BOVIN_P293 0.024 38565.12 50.00
- 88 HLA-A02:01 AELQDICND 143B_BOVIN_P293 0.029 36534.22 50.00
- 89 HLA-A02:01 ELQDICNDV 143B_BOVIN_P293 0.228 4219.45 10.00
- 90 HLA-A02:01 LQDICNDVL 143B_BOVIN_P293 0.187 6646.79 15.00
- 91 HLA-A02:01 QDICNDVLQ 143B_BOVIN_P293 0.036 34053.09 50.00
- 92 HLA-A02:01 DICNDVLQL 143B_BOVIN_P293 0.078 21384.59 32.00
- 93 HLA-A02:01 ICNDVLQLL 143B_BOVIN_P293 0.166 8342.39 15.00
- 94 HLA-A02:01 CNDVLQLLD 143B_BOVIN_P293 0.034 34423.54 50.00
- 95 HLA-A02:01 NDVLQLLDK 143B_BOVIN_P293 0.032 35367.39 50.00
- 96 HLA-A02:01 DVLQLLDKY 143B_BOVIN_P293 0.034 34610.27 50.00
- 97 HLA-A02:01 VLQLLDKYL 143B_BOVIN_P293 0.343 1222.43 6.00
- 98 HLA-A02:01 LQLLDKYLI 143B_BOVIN_P293 0.343 1222.43 6.00
- 99 HLA-A02:01 QLLDKYLIP 143B_BOVIN_P293 0.118 13947.35 32.00
- 100 HLA-A02:01 LLDKYLIPN 143B_BOVIN_P293 0.235 3954.23 10.00
- 101 HLA-A02:01 LDKYLIPNA 143B_BOVIN_P293 0.052 28640.00 50.00
- 102 HLA-A02:01 DKYLIPNAT 143B_BOVIN_P293 0.032 35367.39 50.00
- 103 HLA-A02:01 KYLIPNATQ 143B_BOVIN_P293 0.036 34053.09 50.00
- 104 HLA-A02:01 YLIPNATQP 143B_BOVIN_P293 0.213 4962.95 15.00
- 105 HLA-A02:01 LIPNATQPE 143B_BOVIN_P293 0.038 32965.50 50.00
- 106 HLA-A02:01 IPNATQPES 143B_BOVIN_P293 0.042 31740.46 50.00
- 107 HLA-A02:01 PNATQPESK 143B_BOVIN_P293 0.023 38774.32 50.00
- 108 HLA-A02:01 NATQPESKV 143B_BOVIN_P293 0.053 28178.94 50.00
- 109 HLA-A02:01 ATQPESKVF 143B_BOVIN_P293 0.042 31740.46 50.00
- 110 HLA-A02:01 TQPESKVFY 143B_BOVIN_P293 0.053 28331.79 50.00
- 111 HLA-A02:01 QPESKVFYL 143B_BOVIN_P293 0.059 26550.96 50.00
- 112 HLA-A02:01 PESKVFYLK 143B_BOVIN_P293 0.036 34053.09 50.00
- 113 HLA-A02:01 ESKVFYLKM 143B_BOVIN_P293 0.037 33504.88 50.00
- 114 HLA-A02:01 SKVFYLKMK 143B_BOVIN_P293 0.034 34610.27 50.00
- 115 HLA-A02:01 KVFYLKMKG 143B_BOVIN_P293 0.069 23571.74 50.00
- 116 HLA-A02:01 VFYLKMKGD 143B_BOVIN_P293 0.032 35176.57 50.00
- 117 HLA-A02:01 FYLKMKGDY 143B_BOVIN_P293 0.041 31912.64 50.00
- 118 HLA-A02:01 YLKMKGDYF 143B_BOVIN_P293 0.118 13947.35 32.00
- 119 HLA-A02:01 LKMKGDYFR 143B_BOVIN_P293 0.051 28795.36 50.00
- 120 HLA-A02:01 KMKGDYFRY 143B_BOVIN_P293 0.090 18882.64 32.00
- 121 HLA-A02:01 MKGDYFRYL 143B_BOVIN_P293 0.112 14882.82 32.00
- 122 HLA-A02:01 KGDYFRYLS 143B_BOVIN_P293 0.057 26985.39 50.00
- 123 HLA-A02:01 GDYFRYLSE 143B_BOVIN_P293 0.037 33504.88 50.00
- 124 HLA-A02:01 DYFRYLSEV 143B_BOVIN_P293 0.092 18478.42 32.00
- 125 HLA-A02:01 YFRYLSEVA 143B_BOVIN_P293 0.082 20701.60 32.00
- 126 HLA-A02:01 FRYLSEVAS 143B_BOVIN_P293 0.056 27131.77 50.00
- 127 HLA-A02:01 RYLSEVASG 143B_BOVIN_P293 0.044 30893.41 50.00
- 128 HLA-A02:01 YLSEVASGD 143B_BOVIN_P293 0.185 6755.55 15.00
- 129 HLA-A02:01 LSEVASGDN 143B_BOVIN_P293 0.027 37132.00 50.00
- 130 HLA-A02:01 SEVASGDNK 143B_BOVIN_P293 0.027 37132.00 50.00
- 131 HLA-A02:01 EVASGDNKQ 143B_BOVIN_P293 0.026 37739.56 50.00
- 132 HLA-A02:01 VASGDNKQT 143B_BOVIN_P293 0.038 33144.32 50.00
- 133 HLA-A02:01 ASGDNKQTT 143B_BOVIN_P293 0.034 34423.54 50.00
- 134 HLA-A02:01 SGDNKQTTV 143B_BOVIN_P293 0.083 20368.33 32.00
- 135 HLA-A02:01 GDNKQTTVS 143B_BOVIN_P293 0.030 36141.06 50.00
- 136 HLA-A02:01 DNKQTTVSN 143B_BOVIN_P293 0.023 38774.32 50.00
- 137 HLA-A02:01 NKQTTVSNS 143B_BOVIN_P293 0.032 35367.39 50.00
- 138 HLA-A02:01 KQTTVSNSQ 143B_BOVIN_P293 0.052 28485.48 50.00
- 139 HLA-A02:01 QTTVSNSQQ 143B_BOVIN_P293 0.029 36732.40 50.00
- 140 HLA-A02:01 TTVSNSQQA 143B_BOVIN_P293 0.084 20040.43 32.00
- 141 HLA-A02:01 TVSNSQQAY 143B_BOVIN_P293 0.043 31569.21 50.00
- 142 HLA-A02:01 VSNSQQAYQ 143B_BOVIN_P293 0.036 33869.37 50.00
- 143 HLA-A02:01 SNSQQAYQE 143B_BOVIN_P293 0.029 36732.40 50.00
- 144 HLA-A02:01 NSQQAYQEA 143B_BOVIN_P293 0.049 29425.27 50.00
- 145 HLA-A02:01 SQQAYQEAF 143B_BOVIN_P293 0.121 13575.13 32.00
- 146 HLA-A02:01 QQAYQEAFE 143B_BOVIN_P293 0.046 30232.07 50.00
- 147 HLA-A02:01 QAYQEAFEI 143B_BOVIN_P293 0.178 7287.08 15.00
- 148 HLA-A02:01 AYQEAFEIS 143B_BOVIN_P293 0.044 31060.99 50.00
- 149 HLA-A02:01 YQEAFEISK 143B_BOVIN_P293 0.074 22330.41 32.00
- 150 HLA-A02:01 QEAFEISKK 143B_BOVIN_P293 0.030 36141.06 50.00
- 151 HLA-A02:01 EAFEISKKE 143B_BOVIN_P293 0.027 37333.42 50.00
- 152 HLA-A02:01 AFEISKKEM 143B_BOVIN_P293 0.033 34798.02 50.00
- 153 HLA-A02:01 FEISKKEMQ 143B_BOVIN_P293 0.032 35367.39 50.00
- 154 HLA-A02:01 EISKKEMQP 143B_BOVIN_P293 0.030 36337.11 50.00
- 155 HLA-A02:01 ISKKEMQPT 143B_BOVIN_P293 0.046 30396.07 50.00
- 156 HLA-A02:01 SKKEMQPTH 143B_BOVIN_P293 0.027 37333.42 50.00
- 157 HLA-A02:01 KKEMQPTHP 143B_BOVIN_P293 0.027 37535.94 50.00
- 158 HLA-A02:01 KEMQPTHPI 143B_BOVIN_P293 0.169 8032.38 15.00
- 159 HLA-A02:01 EMQPTHPIR 143B_BOVIN_P293 0.039 32610.74 50.00
- 160 HLA-A02:01 MQPTHPIRL 143B_BOVIN_P293 0.270 2678.54 8.00
- 161 HLA-A02:01 QPTHPIRLG 143B_BOVIN_P293 0.034 34610.27 50.00
- 162 HLA-A02:01 PTHPIRLGL 143B_BOVIN_P293 0.055 27575.71 50.00
- 163 HLA-A02:01 THPIRLGLA 143B_BOVIN_P293 0.040 32434.80 50.00
- 164 HLA-A02:01 HPIRLGLAL 143B_BOVIN_P293 0.078 21500.59 32.00
- 165 HLA-A02:01 PIRLGLALN 143B_BOVIN_P293 0.029 36534.22 50.00
- 166 HLA-A02:01 IRLGLALNF 143B_BOVIN_P293 0.060 25982.58 50.00
- 167 HLA-A02:01 RLGLALNFS 143B_BOVIN_P293 0.181 7092.61 15.00
- 168 HLA-A02:01 LGLALNFSV 143B_BOVIN_P293 0.317 1610.82 7.00
- 169 HLA-A02:01 GLALNFSVF 143B_BOVIN_P293 0.142 10699.58 16.00
- 170 HLA-A02:01 LALNFSVFY 143B_BOVIN_P293 0.087 19400.38 32.00
- 171 HLA-A02:01 ALNFSVFYY 143B_BOVIN_P293 0.215 4883.05 15.00
- 172 HLA-A02:01 LNFSVFYYE 143B_BOVIN_P293 0.059 26265.23 50.00
- 173 HLA-A02:01 NFSVFYYEI 143B_BOVIN_P293 0.172 7733.88 15.00
- 174 HLA-A02:01 FSVFYYEIL 143B_BOVIN_P293 0.230 4174.04 10.00
- 175 HLA-A02:01 SVFYYEILN 143B_BOVIN_P293 0.086 19717.81 32.00
- 176 HLA-A02:01 VFYYEILNS 143B_BOVIN_P293 0.062 25564.30 50.00
- 177 HLA-A02:01 FYYEILNSP 143B_BOVIN_P293 0.093 18279.56 32.00
- 178 HLA-A02:01 YYEILNSPE 143B_BOVIN_P293 0.036 34053.09 50.00
- 179 HLA-A02:01 YEILNSPEK 143B_BOVIN_P293 0.052 28640.00 50.00
- 180 HLA-A02:01 EILNSPEKA 143B_BOVIN_P293 0.072 22942.68 32.00
- 181 HLA-A02:01 ILNSPEKAC 143B_BOVIN_P293 0.072 22818.90 32.00
- 182 HLA-A02:01 LNSPEKACS 143B_BOVIN_P293 0.028 36931.66 50.00
- 183 HLA-A02:01 NSPEKACSL 143B_BOVIN_P293 0.082 20701.60 32.00
- 184 HLA-A02:01 SPEKACSLA 143B_BOVIN_P293 0.038 33144.32 50.00
- 185 HLA-A02:01 PEKACSLAK 143B_BOVIN_P293 0.028 36931.66 50.00
- 186 HLA-A02:01 EKACSLAKT 143B_BOVIN_P293 0.033 34798.02 50.00
- 187 HLA-A02:01 KACSLAKTA 143B_BOVIN_P293 0.063 25289.19 50.00
- 188 HLA-A02:01 ACSLAKTAF 143B_BOVIN_P293 0.039 32787.64 50.00
- 189 HLA-A02:01 CSLAKTAFD 143B_BOVIN_P293 0.045 30726.73 50.00
- 190 HLA-A02:01 SLAKTAFDE 143B_BOVIN_P293 0.071 23318.07 32.00
- 191 HLA-A02:01 LAKTAFDEA 143B_BOVIN_P293 0.064 25017.04 50.00
- 192 HLA-A02:01 AKTAFDEAI 143B_BOVIN_P293 0.059 26265.23 50.00
- 193 HLA-A02:01 KTAFDEAIA 143B_BOVIN_P293 0.122 13429.05 32.00
- 194 HLA-A02:01 TAFDEAIAE 143B_BOVIN_P293 0.038 33144.32 50.00
- 195 HLA-A02:01 AFDEAIAEL 143B_BOVIN_P293 0.282 2352.40 8.00
- 196 HLA-A02:01 FDEAIAELD 143B_BOVIN_P293 0.030 36337.11 50.00
- 197 HLA-A02:01 DEAIAELDT 143B_BOVIN_P293 0.026 37535.94 50.00
- 198 HLA-A02:01 EAIAELDTL 143B_BOVIN_P293 0.093 18378.72 32.00
- 199 HLA-A02:01 AIAELDTLN 143B_BOVIN_P293 0.060 26123.53 50.00
- 200 HLA-A02:01 IAELDTLNE 143B_BOVIN_P293 0.032 35559.24 50.00
- 201 HLA-A02:01 AELDTLNEE 143B_BOVIN_P293 0.036 34053.09 50.00
- 202 HLA-A02:01 ELDTLNEES 143B_BOVIN_P293 0.060 26123.53 50.00
- 203 HLA-A02:01 LDTLNEESY 143B_BOVIN_P293 0.030 35946.07 50.00
- 204 HLA-A02:01 DTLNEESYK 143B_BOVIN_P293 0.030 36141.06 50.00
- 205 HLA-A02:01 TLNEESYKD 143B_BOVIN_P293 0.071 23192.26 32.00
- 206 HLA-A02:01 LNEESYKDS 143B_BOVIN_P293 0.027 37132.00 50.00
- 207 HLA-A02:01 NEESYKDST 143B_BOVIN_P293 0.030 35946.07 50.00
- 208 HLA-A02:01 EESYKDSTL 143B_BOVIN_P293 0.037 33504.88 50.00
- 209 HLA-A02:01 ESYKDSTLI 143B_BOVIN_P293 0.067 24218.04 50.00
- 210 HLA-A02:01 SYKDSTLIM 143B_BOVIN_P293 0.051 28795.36 50.00
- 211 HLA-A02:01 YKDSTLIMQ 143B_BOVIN_P293 0.049 29425.27 50.00
- 212 HLA-A02:01 KDSTLIMQL 143B_BOVIN_P293 0.084 20040.43 32.00
- 213 HLA-A02:01 DSTLIMQLL 143B_BOVIN_P293 0.056 27131.77 50.00
- 214 HLA-A02:01 STLIMQLLR 143B_BOVIN_P293 0.059 26407.71 50.00
- 215 HLA-A02:01 TLIMQLLRD 143B_BOVIN_P293 0.071 23192.26 32.00
- 216 HLA-A02:01 LIMQLLRDN 143B_BOVIN_P293 0.054 27875.69 50.00
- 217 HLA-A02:01 IMQLLRDNL 143B_BOVIN_P293 0.283 2327.08 8.00
- 218 HLA-A02:01 MQLLRDNLT 143B_BOVIN_P293 0.149 9919.14 15.00
- 219 HLA-A02:01 QLLRDNLTL 143B_BOVIN_P293 0.464 328.32 4.00 <=WB
- 220 HLA-A02:01 LLRDNLTLW 143B_BOVIN_P293 0.108 15457.23 32.00
- 221 HLA-A02:01 LRDNLTLWT 143B_BOVIN_P293 0.050 29108.61 50.00
- 222 HLA-A02:01 RDNLTLWTS 143B_BOVIN_P293 0.049 29425.27 50.00
- 223 HLA-A02:01 DNLTLWTSE 143B_BOVIN_P293 0.028 36931.66 50.00
- 224 HLA-A02:01 NLTLWTSEN 143B_BOVIN_P293 0.067 24349.41 50.00
- 225 HLA-A02:01 LTLWTSENQ 143B_BOVIN_P293 0.052 28485.48 50.00
- 226 HLA-A02:01 TLWTSENQG 143B_BOVIN_P293 0.105 16140.90 32.00
- 227 HLA-A02:01 LWTSENQGD 143B_BOVIN_P293 0.027 37132.00 50.00
- 228 HLA-A02:01 WTSENQGDE 143B_BOVIN_P293 0.034 34423.54 50.00
- 229 HLA-A02:01 TSENQGDEG 143B_BOVIN_P293 0.029 36534.22 50.00
- 230 HLA-A02:01 SENQGDEGD 143B_BOVIN_P293 0.025 37944.28 50.00
- 231 HLA-A02:01 ENQGDEGDA 143B_BOVIN_P293 0.025 38357.05 50.00
- 232 HLA-A02:01 NQGDEGDAG 143B_BOVIN_P293 0.037 33504.88 50.00
- 233 HLA-A02:01 QGDEGDAGE 143B_BOVIN_P293 0.032 35367.39 50.00
- 234 HLA-A02:01 GDEGDAGEG 143B_BOVIN_P293 0.028 37132.00 50.00
- 235 HLA-A02:01 DEGDAGEGE 143B_BOVIN_P293 0.023 38984.65 50.00
- 236 HLA-A02:01 EGDAGEGEN 143B_BOVIN_P293 0.025 38150.11 50.00
- ---------------------------------------------------------------------------------------
- Number of strong binders: 0 Number of weak binders: 1
- ---------------------------------------------------------------------------------------
-
--- 2 ----
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/B0702.fsa', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1']
***
---
***************
*** 1 ****
! # Method: NetMHCcons
--- 1 ----
! The two methods NetMHCpan and NetMHC produced different outputs, number of peptides not the same
***************
*** 3,35 ****
- # Input is in PEPTIDE format
-
- # Peptide length 9
-
- # Threshold for Strong binding peptides (IC50) 50.000 nM
- # Threshold for Weak binding peptides (IC50) 500.000 nM
-
- # Thresholds for %Rank are ignored
-
-
- # MHC sequence from FASTA file
-
- # Distance to the nearest neighbour ( HLA-B07:02 ) in the training set: 0.000
-
- # NetMHCcons = NetMHC+NetMHCpan
-
- -------------------------------------------------------------------------------
- pos Allele peptide Identity 1-log50k(aff) Affinity(nM) Exp_Binding BindingLevel
- -------------------------------------------------------------------------------
- 0 USER_DEF AAAWYLWEV PEPLIST 0.132 11986.87 0.743
- 0 USER_DEF AAGLQDCTM PEPLIST 0.103 16316.49 0.000
- 0 USER_DEF AARNIVRRA PEPLIST 0.178 7287.08 0.000
- 0 USER_DEF AARPDDPTL PEPLIST 0.310 1746.99 0.149
- 0 USER_DEF AASCGGAVF PEPLIST 0.312 1709.59 0.149
- 0 USER_DEF AASKQQMLM PEPLIST 0.166 8342.39 0.000
- 0 USER_DEF AASSTHRKV PEPLIST 0.136 11541.43 0.272
- 0 USER_DEF AEALLADGL PEPLIST 0.054 27875.69 0.085
- 0 USER_DEF AEESLSLEA PEPLIST 0.047 30068.96 0.000
- 0 USER_DEF AEFGPWQTV PEPLIST 0.060 25982.58 0.316
- -------------------------------------------------------------------------------
- Number of strong binders: 0 Number of weak binders: 0
- -------------------------------------------------------------------------------
-
--- 2 ----
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'NetMHC']
***
---
***************
*** 19,28 ****
- 0 HLA-A02:01 AAAWYLWEV Peptides 0.823 6.00 0.20 0.743 <=SB
- 1 HLA-A02:01 AAGLQDCTM Peptides 0.072 23033.00 50.00 0.000
- 2 HLA-A02:01 AARNIVRRA Peptides 0.066 24592.00 50.00 0.000
- 3 HLA-A02:01 AARPDDPTL Peptides 0.086 19689.00 32.00 0.149
- 4 HLA-A02:01 AASCGGAVF Peptides 0.075 22290.00 50.00 0.149
- 5 HLA-A02:01 AASKQQMLM Peptides 0.102 16505.00 32.00 0.000
- 6 HLA-A02:01 AASSTHRKV Peptides 0.086 19725.00 32.00 0.272
- 7 HLA-A02:01 AEALLADGL Peptides 0.079 21323.00 50.00 0.085
- 8 HLA-A02:01 AEESLSLEA Peptides 0.069 23715.00 50.00 0.000
- 9 HLA-A02:01 AEFGPWQTV Peptides 0.116 14306.00 32.00 0.316
--- 18 ----
***************
*** 30 ****
! Number of strong binders: 1 Number of weak binders: 0
--- 20 ----
! Number of strong binders: 0 Number of weak binders: 0
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.fsa', '-method', 'NetMHC']
***
---
***************
*** 19,255 ****
- 0 HLA-A02:01 TMDKSELVQ 143B_BOVIN_(P29 0.074 22494.00 50.00
- 1 HLA-A02:01 MDKSELVQK 143B_BOVIN_(P29 0.049 29267.00 50.00
- 2 HLA-A02:01 DKSELVQKA 143B_BOVIN_(P29 0.049 29432.00 50.00
- 3 HLA-A02:01 KSELVQKAK 143B_BOVIN_(P29 0.052 28604.00 50.00
- 4 HLA-A02:01 SELVQKAKL 143B_BOVIN_(P29 0.058 26611.00 50.00
- 5 HLA-A02:01 ELVQKAKLA 143B_BOVIN_(P29 0.074 22572.00 50.00
- 6 HLA-A02:01 LVQKAKLAE 143B_BOVIN_(P29 0.051 28728.00 50.00
- 7 HLA-A02:01 VQKAKLAEQ 143B_BOVIN_(P29 0.065 24821.00 50.00
- 8 HLA-A02:01 QKAKLAEQA 143B_BOVIN_(P29 0.059 26403.00 50.00
- 9 HLA-A02:01 KAKLAEQAE 143B_BOVIN_(P29 0.043 31365.00 50.00
- 10 HLA-A02:01 AKLAEQAER 143B_BOVIN_(P29 0.055 27448.00 50.00
- 11 HLA-A02:01 KLAEQAERY 143B_BOVIN_(P29 0.105 16099.00 32.00
- 12 HLA-A02:01 LAEQAERYD 143B_BOVIN_(P29 0.044 30956.00 50.00
- 13 HLA-A02:01 AEQAERYDD 143B_BOVIN_(P29 0.048 29783.00 50.00
- 14 HLA-A02:01 EQAERYDDM 143B_BOVIN_(P29 0.078 21442.00 50.00
- 15 HLA-A02:01 QAERYDDMA 143B_BOVIN_(P29 0.064 24955.00 50.00
- 16 HLA-A02:01 AERYDDMAA 143B_BOVIN_(P29 0.067 24341.00 50.00
- 17 HLA-A02:01 ERYDDMAAA 143B_BOVIN_(P29 0.064 25075.00 50.00
- 18 HLA-A02:01 RYDDMAAAM 143B_BOVIN_(P29 0.097 17565.00 32.00
- 19 HLA-A02:01 YDDMAAAMK 143B_BOVIN_(P29 0.058 26655.00 50.00
- 20 HLA-A02:01 DDMAAAMKA 143B_BOVIN_(P29 0.057 27125.00 50.00
- 21 HLA-A02:01 DMAAAMKAV 143B_BOVIN_(P29 0.169 8018.00 15.00
- 22 HLA-A02:01 MAAAMKAVT 143B_BOVIN_(P29 0.092 18501.00 32.00
- 23 HLA-A02:01 AAAMKAVTE 143B_BOVIN_(P29 0.050 29126.00 50.00
- 24 HLA-A02:01 AAMKAVTEQ 143B_BOVIN_(P29 0.082 20574.00 32.00
- 25 HLA-A02:01 AMKAVTEQG 143B_BOVIN_(P29 0.078 21385.00 50.00
- 26 HLA-A02:01 MKAVTEQGH 143B_BOVIN_(P29 0.047 30224.00 50.00
- 27 HLA-A02:01 KAVTEQGHE 143B_BOVIN_(P29 0.048 29880.00 50.00
- 28 HLA-A02:01 AVTEQGHEL 143B_BOVIN_(P29 0.273 2616.00 8.00
- 29 HLA-A02:01 VTEQGHELS 143B_BOVIN_(P29 0.052 28472.00 50.00
- 30 HLA-A02:01 TEQGHELSN 143B_BOVIN_(P29 0.049 29583.00 50.00
- 31 HLA-A02:01 EQGHELSNE 143B_BOVIN_(P29 0.052 28388.00 50.00
- 32 HLA-A02:01 QGHELSNEE 143B_BOVIN_(P29 0.050 29131.00 50.00
- 33 HLA-A02:01 GHELSNEER 143B_BOVIN_(P29 0.050 28972.00 50.00
- 34 HLA-A02:01 HELSNEERN 143B_BOVIN_(P29 0.048 29608.00 50.00
- 35 HLA-A02:01 ELSNEERNL 143B_BOVIN_(P29 0.093 18313.00 32.00
- 36 HLA-A02:01 LSNEERNLL 143B_BOVIN_(P29 0.080 20927.00 50.00
- 37 HLA-A02:01 SNEERNLLS 143B_BOVIN_(P29 0.052 28335.00 50.00
- 38 HLA-A02:01 NEERNLLSV 143B_BOVIN_(P29 0.063 25286.00 50.00
- 39 HLA-A02:01 EERNLLSVA 143B_BOVIN_(P29 0.045 30618.00 50.00
- 40 HLA-A02:01 ERNLLSVAY 143B_BOVIN_(P29 0.050 29003.00 50.00
- 41 HLA-A02:01 RNLLSVAYK 143B_BOVIN_(P29 0.063 25158.00 50.00
- 42 HLA-A02:01 NLLSVAYKN 143B_BOVIN_(P29 0.110 15272.00 32.00
- 43 HLA-A02:01 LLSVAYKNV 143B_BOVIN_(P29 0.370 912.00 6.00
- 44 HLA-A02:01 LSVAYKNVV 143B_BOVIN_(P29 0.138 11230.00 16.00
- 45 HLA-A02:01 SVAYKNVVG 143B_BOVIN_(P29 0.066 24470.00 50.00
- 46 HLA-A02:01 VAYKNVVGA 143B_BOVIN_(P29 0.172 7790.00 15.00
- 47 HLA-A02:01 AYKNVVGAR 143B_BOVIN_(P29 0.051 28736.00 50.00
- 48 HLA-A02:01 YKNVVGARR 143B_BOVIN_(P29 0.055 27432.00 50.00
- 49 HLA-A02:01 KNVVGARRS 143B_BOVIN_(P29 0.054 27771.00 50.00
- 50 HLA-A02:01 NVVGARRSS 143B_BOVIN_(P29 0.051 28757.00 50.00
- 51 HLA-A02:01 VVGARRSSW 143B_BOVIN_(P29 0.050 28967.00 50.00
- 52 HLA-A02:01 VGARRSSWR 143B_BOVIN_(P29 0.051 28922.00 50.00
- 53 HLA-A02:01 GARRSSWRV 143B_BOVIN_(P29 0.108 15547.00 32.00
- 54 HLA-A02:01 ARRSSWRVI 143B_BOVIN_(P29 0.052 28502.00 50.00
- 55 HLA-A02:01 RRSSWRVIS 143B_BOVIN_(P29 0.065 24744.00 50.00
- 56 HLA-A02:01 RSSWRVISS 143B_BOVIN_(P29 0.088 19241.00 32.00
- 57 HLA-A02:01 SSWRVISSI 143B_BOVIN_(P29 0.294 2076.00 7.00
- 58 HLA-A02:01 SWRVISSIE 143B_BOVIN_(P29 0.046 30542.00 50.00
- 59 HLA-A02:01 WRVISSIEQ 143B_BOVIN_(P29 0.056 27183.00 50.00
- 60 HLA-A02:01 RVISSIEQK 143B_BOVIN_(P29 0.071 23252.00 50.00
- 61 HLA-A02:01 VISSIEQKT 143B_BOVIN_(P29 0.089 19152.00 32.00
- 62 HLA-A02:01 ISSIEQKTE 143B_BOVIN_(P29 0.048 29797.00 50.00
- 63 HLA-A02:01 SSIEQKTER 143B_BOVIN_(P29 0.058 26552.00 50.00
- 64 HLA-A02:01 SIEQKTERN 143B_BOVIN_(P29 0.040 32284.00 50.00
- 65 HLA-A02:01 IEQKTERNE 143B_BOVIN_(P29 0.047 30184.00 50.00
- 66 HLA-A02:01 EQKTERNEK 143B_BOVIN_(P29 0.046 30454.00 50.00
- 67 HLA-A02:01 QKTERNEKK 143B_BOVIN_(P29 0.046 30496.00 50.00
- 68 HLA-A02:01 KTERNEKKQ 143B_BOVIN_(P29 0.041 31999.00 50.00
- 69 HLA-A02:01 TERNEKKQQ 143B_BOVIN_(P29 0.036 33960.00 50.00
- 70 HLA-A02:01 ERNEKKQQM 143B_BOVIN_(P29 0.045 30860.00 50.00
- 71 HLA-A02:01 RNEKKQQMG 143B_BOVIN_(P29 0.050 29243.00 50.00
- 72 HLA-A02:01 NEKKQQMGK 143B_BOVIN_(P29 0.050 28993.00 50.00
- 73 HLA-A02:01 EKKQQMGKE 143B_BOVIN_(P29 0.039 32922.00 50.00
- 74 HLA-A02:01 KKQQMGKEY 143B_BOVIN_(P29 0.048 29837.00 50.00
- 75 HLA-A02:01 KQQMGKEYR 143B_BOVIN_(P29 0.068 23841.00 50.00
- 76 HLA-A02:01 QQMGKEYRE 143B_BOVIN_(P29 0.071 23188.00 50.00
- 77 HLA-A02:01 QMGKEYREK 143B_BOVIN_(P29 0.050 29163.00 50.00
- 78 HLA-A02:01 MGKEYREKI 143B_BOVIN_(P29 0.060 26257.00 50.00
- 79 HLA-A02:01 GKEYREKIE 143B_BOVIN_(P29 0.044 31068.00 50.00
- 80 HLA-A02:01 KEYREKIEA 143B_BOVIN_(P29 0.067 24252.00 50.00
- 81 HLA-A02:01 EYREKIEAE 143B_BOVIN_(P29 0.041 32021.00 50.00
- 82 HLA-A02:01 YREKIEAEL 143B_BOVIN_(P29 0.068 23996.00 50.00
- 83 HLA-A02:01 REKIEAELQ 143B_BOVIN_(P29 0.043 31543.00 50.00
- 84 HLA-A02:01 EKIEAELQD 143B_BOVIN_(P29 0.047 29970.00 50.00
- 85 HLA-A02:01 KIEAELQDI 143B_BOVIN_(P29 0.114 14589.00 32.00
- 86 HLA-A02:01 IEAELQDIC 143B_BOVIN_(P29 0.059 26287.00 50.00
- 87 HLA-A02:01 EAELQDICN 143B_BOVIN_(P29 0.042 31772.00 50.00
- 88 HLA-A02:01 AELQDICND 143B_BOVIN_(P29 0.051 28672.00 50.00
- 89 HLA-A02:01 ELQDICNDV 143B_BOVIN_(P29 0.244 3563.00 9.00
- 90 HLA-A02:01 LQDICNDVL 143B_BOVIN_(P29 0.192 6292.00 15.00
- 91 HLA-A02:01 QDICNDVLQ 143B_BOVIN_(P29 0.061 25937.00 50.00
- 92 HLA-A02:01 DICNDVLQL 143B_BOVIN_(P29 0.094 18091.00 32.00
- 93 HLA-A02:01 ICNDVLQLL 143B_BOVIN_(P29 0.184 6845.00 15.00
- 94 HLA-A02:01 CNDVLQLLD 143B_BOVIN_(P29 0.056 27399.00 50.00
- 95 HLA-A02:01 NDVLQLLDK 143B_BOVIN_(P29 0.054 27818.00 50.00
- 96 HLA-A02:01 DVLQLLDKY 143B_BOVIN_(P29 0.044 31174.00 50.00
- 97 HLA-A02:01 VLQLLDKYL 143B_BOVIN_(P29 0.325 1482.00 7.00
- 98 HLA-A02:01 LQLLDKYLI 143B_BOVIN_(P29 0.341 1246.00 6.00
- 99 HLA-A02:01 QLLDKYLIP 143B_BOVIN_(P29 0.124 13035.00 32.00
- 100 HLA-A02:01 LLDKYLIPN 143B_BOVIN_(P29 0.180 7154.00 15.00
- 101 HLA-A02:01 LDKYLIPNA 143B_BOVIN_(P29 0.066 24400.00 50.00
- 102 HLA-A02:01 DKYLIPNAT 143B_BOVIN_(P29 0.051 28837.00 50.00
- 103 HLA-A02:01 KYLIPNATQ 143B_BOVIN_(P29 0.051 28724.00 50.00
- 104 HLA-A02:01 YLIPNATQP 143B_BOVIN_(P29 0.174 7628.00 15.00
- 105 HLA-A02:01 LIPNATQPE 143B_BOVIN_(P29 0.053 28146.00 50.00
- 106 HLA-A02:01 IPNATQPES 143B_BOVIN_(P29 0.065 24629.00 50.00
- 107 HLA-A02:01 PNATQPESK 143B_BOVIN_(P29 0.043 31261.00 50.00
- 108 HLA-A02:01 NATQPESKV 143B_BOVIN_(P29 0.066 24563.00 50.00
- 109 HLA-A02:01 ATQPESKVF 143B_BOVIN_(P29 0.056 27272.00 50.00
- 110 HLA-A02:01 TQPESKVFY 143B_BOVIN_(P29 0.071 23084.00 50.00
- 111 HLA-A02:01 QPESKVFYL 143B_BOVIN_(P29 0.072 23025.00 50.00
- 112 HLA-A02:01 PESKVFYLK 143B_BOVIN_(P29 0.054 27912.00 50.00
- 113 HLA-A02:01 ESKVFYLKM 143B_BOVIN_(P29 0.054 27969.00 50.00
- 114 HLA-A02:01 SKVFYLKMK 143B_BOVIN_(P29 0.052 28441.00 50.00
- 115 HLA-A02:01 KVFYLKMKG 143B_BOVIN_(P29 0.084 20213.00 32.00
- 116 HLA-A02:01 VFYLKMKGD 143B_BOVIN_(P29 0.046 30407.00 50.00
- 117 HLA-A02:01 FYLKMKGDY 143B_BOVIN_(P29 0.053 28041.00 50.00
- 118 HLA-A02:01 YLKMKGDYF 143B_BOVIN_(P29 0.106 15889.00 32.00
- 119 HLA-A02:01 LKMKGDYFR 143B_BOVIN_(P29 0.070 23485.00 50.00
- 120 HLA-A02:01 KMKGDYFRY 143B_BOVIN_(P29 0.088 19257.00 32.00
- 121 HLA-A02:01 MKGDYFRYL 143B_BOVIN_(P29 0.140 11021.00 16.00
- 122 HLA-A02:01 KGDYFRYLS 143B_BOVIN_(P29 0.081 20886.00 32.00
- 123 HLA-A02:01 GDYFRYLSE 143B_BOVIN_(P29 0.052 28444.00 50.00
- 124 HLA-A02:01 DYFRYLSEV 143B_BOVIN_(P29 0.107 15646.00 32.00
- 125 HLA-A02:01 YFRYLSEVA 143B_BOVIN_(P29 0.084 20193.00 32.00
- 126 HLA-A02:01 FRYLSEVAS 143B_BOVIN_(P29 0.066 24462.00 50.00
- 127 HLA-A02:01 RYLSEVASG 143B_BOVIN_(P29 0.068 23965.00 50.00
- 128 HLA-A02:01 YLSEVASGD 143B_BOVIN_(P29 0.136 11451.00 32.00
- 129 HLA-A02:01 LSEVASGDN 143B_BOVIN_(P29 0.048 29618.00 50.00
- 130 HLA-A02:01 SEVASGDNK 143B_BOVIN_(P29 0.048 29845.00 50.00
- 131 HLA-A02:01 EVASGDNKQ 143B_BOVIN_(P29 0.043 31238.00 50.00
- 132 HLA-A02:01 VASGDNKQT 143B_BOVIN_(P29 0.062 25667.00 50.00
- 133 HLA-A02:01 ASGDNKQTT 143B_BOVIN_(P29 0.057 27066.00 50.00
- 134 HLA-A02:01 SGDNKQTTV 143B_BOVIN_(P29 0.097 17538.00 32.00
- 135 HLA-A02:01 GDNKQTTVS 143B_BOVIN_(P29 0.054 27831.00 50.00
- 136 HLA-A02:01 DNKQTTVSN 143B_BOVIN_(P29 0.042 31631.00 50.00
- 137 HLA-A02:01 NKQTTVSNS 143B_BOVIN_(P29 0.057 26908.00 50.00
- 138 HLA-A02:01 KQTTVSNSQ 143B_BOVIN_(P29 0.078 21601.00 50.00
- 139 HLA-A02:01 QTTVSNSQQ 143B_BOVIN_(P29 0.047 30025.00 50.00
- 140 HLA-A02:01 TTVSNSQQA 143B_BOVIN_(P29 0.107 15631.00 32.00
- 141 HLA-A02:01 TVSNSQQAY 143B_BOVIN_(P29 0.057 26991.00 50.00
- 142 HLA-A02:01 VSNSQQAYQ 143B_BOVIN_(P29 0.056 27168.00 50.00
- 143 HLA-A02:01 SNSQQAYQE 143B_BOVIN_(P29 0.048 29792.00 50.00
- 144 HLA-A02:01 NSQQAYQEA 143B_BOVIN_(P29 0.068 24078.00 50.00
- 145 HLA-A02:01 SQQAYQEAF 143B_BOVIN_(P29 0.112 14892.00 32.00
- 146 HLA-A02:01 QQAYQEAFE 143B_BOVIN_(P29 0.071 23194.00 50.00
- 147 HLA-A02:01 QAYQEAFEI 143B_BOVIN_(P29 0.189 6478.00 15.00
- 148 HLA-A02:01 AYQEAFEIS 143B_BOVIN_(P29 0.061 25912.00 50.00
- 149 HLA-A02:01 YQEAFEISK 143B_BOVIN_(P29 0.086 19755.00 32.00
- 150 HLA-A02:01 QEAFEISKK 143B_BOVIN_(P29 0.049 29351.00 50.00
- 151 HLA-A02:01 EAFEISKKE 143B_BOVIN_(P29 0.043 31229.00 50.00
- 152 HLA-A02:01 AFEISKKEM 143B_BOVIN_(P29 0.047 30093.00 50.00
- 153 HLA-A02:01 FEISKKEMQ 143B_BOVIN_(P29 0.053 28304.00 50.00
- 154 HLA-A02:01 EISKKEMQP 143B_BOVIN_(P29 0.049 29507.00 50.00
- 155 HLA-A02:01 ISKKEMQPT 143B_BOVIN_(P29 0.064 25105.00 50.00
- 156 HLA-A02:01 SKKEMQPTH 143B_BOVIN_(P29 0.044 31120.00 50.00
- 157 HLA-A02:01 KKEMQPTHP 143B_BOVIN_(P29 0.050 29148.00 50.00
- 158 HLA-A02:01 KEMQPTHPI 143B_BOVIN_(P29 0.158 9033.00 15.00
- 159 HLA-A02:01 EMQPTHPIR 143B_BOVIN_(P29 0.047 30147.00 50.00
- 160 HLA-A02:01 MQPTHPIRL 143B_BOVIN_(P29 0.303 1876.00 7.00
- 161 HLA-A02:01 QPTHPIRLG 143B_BOVIN_(P29 0.057 27115.00 50.00
- 162 HLA-A02:01 PTHPIRLGL 143B_BOVIN_(P29 0.063 25207.00 50.00
- 163 HLA-A02:01 THPIRLGLA 143B_BOVIN_(P29 0.054 27893.00 50.00
- 164 HLA-A02:01 HPIRLGLAL 143B_BOVIN_(P29 0.073 22787.00 50.00
- 165 HLA-A02:01 PIRLGLALN 143B_BOVIN_(P29 0.039 32941.00 50.00
- 166 HLA-A02:01 IRLGLALNF 143B_BOVIN_(P29 0.069 23699.00 50.00
- 167 HLA-A02:01 RLGLALNFS 143B_BOVIN_(P29 0.163 8555.00 15.00
- 168 HLA-A02:01 LGLALNFSV 143B_BOVIN_(P29 0.348 1160.00 6.00
- 169 HLA-A02:01 GLALNFSVF 143B_BOVIN_(P29 0.102 16502.00 32.00
- 170 HLA-A02:01 LALNFSVFY 143B_BOVIN_(P29 0.096 17637.00 32.00
- 171 HLA-A02:01 ALNFSVFYY 143B_BOVIN_(P29 0.228 4259.00 10.00
- 172 HLA-A02:01 LNFSVFYYE 143B_BOVIN_(P29 0.077 21647.00 50.00
- 173 HLA-A02:01 NFSVFYYEI 143B_BOVIN_(P29 0.161 8727.00 15.00
- 174 HLA-A02:01 FSVFYYEIL 143B_BOVIN_(P29 0.243 3596.00 9.00
- 175 HLA-A02:01 SVFYYEILN 143B_BOVIN_(P29 0.087 19553.00 32.00
- 176 HLA-A02:01 VFYYEILNS 143B_BOVIN_(P29 0.073 22659.00 50.00
- 177 HLA-A02:01 FYYEILNSP 143B_BOVIN_(P29 0.121 13488.00 32.00
- 178 HLA-A02:01 YYEILNSPE 143B_BOVIN_(P29 0.054 28017.00 50.00
- 179 HLA-A02:01 YEILNSPEK 143B_BOVIN_(P29 0.075 22292.00 50.00
- 180 HLA-A02:01 EILNSPEKA 143B_BOVIN_(P29 0.089 19127.00 32.00
- 181 HLA-A02:01 ILNSPEKAC 143B_BOVIN_(P29 0.068 24023.00 50.00
- 182 HLA-A02:01 LNSPEKACS 143B_BOVIN_(P29 0.047 30158.00 50.00
- 183 HLA-A02:01 NSPEKACSL 143B_BOVIN_(P29 0.087 19528.00 32.00
- 184 HLA-A02:01 SPEKACSLA 143B_BOVIN_(P29 0.054 27933.00 50.00
- 185 HLA-A02:01 PEKACSLAK 143B_BOVIN_(P29 0.049 29477.00 50.00
- 186 HLA-A02:01 EKACSLAKT 143B_BOVIN_(P29 0.053 28111.00 50.00
- 187 HLA-A02:01 KACSLAKTA 143B_BOVIN_(P29 0.080 21025.00 50.00
- 188 HLA-A02:01 ACSLAKTAF 143B_BOVIN_(P29 0.057 26866.00 50.00
- 189 HLA-A02:01 CSLAKTAFD 143B_BOVIN_(P29 0.066 24516.00 50.00
- 190 HLA-A02:01 SLAKTAFDE 143B_BOVIN_(P29 0.073 22741.00 50.00
- 191 HLA-A02:01 LAKTAFDEA 143B_BOVIN_(P29 0.074 22559.00 50.00
- 192 HLA-A02:01 AKTAFDEAI 143B_BOVIN_(P29 0.080 20969.00 50.00
- 193 HLA-A02:01 KTAFDEAIA 143B_BOVIN_(P29 0.129 12383.00 32.00
- 194 HLA-A02:01 TAFDEAIAE 143B_BOVIN_(P29 0.056 27259.00 50.00
- 195 HLA-A02:01 AFDEAIAEL 143B_BOVIN_(P29 0.257 3092.00 9.00
- 196 HLA-A02:01 FDEAIAELD 143B_BOVIN_(P29 0.052 28397.00 50.00
- 197 HLA-A02:01 DEAIAELDT 143B_BOVIN_(P29 0.046 30463.00 50.00
- 198 HLA-A02:01 EAIAELDTL 143B_BOVIN_(P29 0.093 18285.00 32.00
- 199 HLA-A02:01 AIAELDTLN 143B_BOVIN_(P29 0.072 22929.00 50.00
- 200 HLA-A02:01 IAELDTLNE 143B_BOVIN_(P29 0.051 28731.00 50.00
- 201 HLA-A02:01 AELDTLNEE 143B_BOVIN_(P29 0.054 27894.00 50.00
- 202 HLA-A02:01 ELDTLNEES 143B_BOVIN_(P29 0.073 22805.00 50.00
- 203 HLA-A02:01 LDTLNEESY 143B_BOVIN_(P29 0.049 29388.00 50.00
- 204 HLA-A02:01 DTLNEESYK 143B_BOVIN_(P29 0.047 29939.00 50.00
- 205 HLA-A02:01 TLNEESYKD 143B_BOVIN_(P29 0.070 23428.00 50.00
- 206 HLA-A02:01 LNEESYKDS 143B_BOVIN_(P29 0.049 29466.00 50.00
- 207 HLA-A02:01 NEESYKDST 143B_BOVIN_(P29 0.056 27351.00 50.00
- 208 HLA-A02:01 EESYKDSTL 143B_BOVIN_(P29 0.054 28010.00 50.00
- 209 HLA-A02:01 ESYKDSTLI 143B_BOVIN_(P29 0.078 21571.00 50.00
- 210 HLA-A02:01 SYKDSTLIM 143B_BOVIN_(P29 0.064 25148.00 50.00
- 211 HLA-A02:01 YKDSTLIMQ 143B_BOVIN_(P29 0.071 23292.00 50.00
- 212 HLA-A02:01 KDSTLIMQL 143B_BOVIN_(P29 0.084 20249.00 32.00
- 213 HLA-A02:01 DSTLIMQLL 143B_BOVIN_(P29 0.060 26126.00 50.00
- 214 HLA-A02:01 STLIMQLLR 143B_BOVIN_(P29 0.067 24269.00 50.00
- 215 HLA-A02:01 TLIMQLLRD 143B_BOVIN_(P29 0.072 23006.00 50.00
- 216 HLA-A02:01 LIMQLLRDN 143B_BOVIN_(P29 0.061 25829.00 50.00
- 217 HLA-A02:01 IMQLLRDNL 143B_BOVIN_(P29 0.250 3356.00 9.00
- 218 HLA-A02:01 MQLLRDNLT 143B_BOVIN_(P29 0.160 8841.00 15.00
- 219 HLA-A02:01 QLLRDNLTL 143B_BOVIN_(P29 0.492 243.00 4.00 <=WB
- 220 HLA-A02:01 LLRDNLTLW 143B_BOVIN_(P29 0.077 21826.00 50.00
- 221 HLA-A02:01 LRDNLTLWT 143B_BOVIN_(P29 0.072 22923.00 50.00
- 222 HLA-A02:01 RDNLTLWTS 143B_BOVIN_(P29 0.069 23638.00 50.00
- 223 HLA-A02:01 DNLTLWTSE 143B_BOVIN_(P29 0.047 30216.00 50.00
- 224 HLA-A02:01 NLTLWTSEN 143B_BOVIN_(P29 0.067 24253.00 50.00
- 225 HLA-A02:01 LTLWTSENQ 143B_BOVIN_(P29 0.070 23476.00 50.00
- 226 HLA-A02:01 TLWTSENQG 143B_BOVIN_(P29 0.104 16168.00 32.00
- 227 HLA-A02:01 LWTSENQGD 143B_BOVIN_(P29 0.049 29522.00 50.00
- 228 HLA-A02:01 WTSENQGDE 143B_BOVIN_(P29 0.057 26964.00 50.00
- 229 HLA-A02:01 TSENQGDEG 143B_BOVIN_(P29 0.054 28002.00 50.00
- 230 HLA-A02:01 SENQGDEGD 143B_BOVIN_(P29 0.046 30378.00 50.00
- 231 HLA-A02:01 ENQGDEGDA 143B_BOVIN_(P29 0.043 31326.00 50.00
- 232 HLA-A02:01 NQGDEGDAG 143B_BOVIN_(P29 0.066 24390.00 50.00
- 233 HLA-A02:01 QGDEGDAGE 143B_BOVIN_(P29 0.055 27623.00 50.00
- 234 HLA-A02:01 GDEGDAGEG 143B_BOVIN_(P29 0.052 28506.00 50.00
- 235 HLA-A02:01 DEGDAGEGE 143B_BOVIN_(P29 0.043 31355.00 50.00
- 236 HLA-A02:01 EGDAGEGEN 143B_BOVIN_(P29 0.046 30244.00 50.00
--- 18 ----
***************
*** 257 ****
! Number of strong binders: 0 Number of weak binders: 1
--- 20 ----
! Number of strong binders: 0 Number of weak binders: 0
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/B0702.fsa', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'NetMHC']
***
---
***************
*** 19,28 ****
- 0 USER_DEF AAAWYLWEV Peptides 0.137 11367.00 0.743
- 1 USER_DEF AAGLQDCTM Peptides 0.107 15738.00 0.000
- 2 USER_DEF AARNIVRRA Peptides 0.173 7664.00 0.000
- 3 USER_DEF AARPDDPTL Peptides 0.327 1455.00 0.149
- 4 USER_DEF AASCGGAVF Peptides 0.312 1717.00 0.149
- 5 USER_DEF AASKQQMLM Peptides 0.148 10043.00 0.000
- 6 USER_DEF AASSTHRKV Peptides 0.116 14186.00 0.272
- 7 USER_DEF AEALLADGL Peptides 0.080 21035.00 0.085
- 8 USER_DEF AEESLSLEA Peptides 0.077 21708.00 0.000
- 9 USER_DEF AEFGPWQTV Peptides 0.078 21545.00 0.316
--- 18 ----
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'NetMHCpan']
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.fsa', '-method', 'NetMHCpan']
***
---
***************
*** 232 ****
! 213 HLA-A02:01 DSTLIMQLL 143B_BOVIN_P293 0.053 28200.91 50.00
--- 232 ----
! 213 HLA-A02:01 DSTLIMQLL 143B_BOVIN_P293 0.053 28201.20 50.00
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/B0702.fsa', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'NetMHCpan']
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'PickPocket']
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.fsa', '-method', 'PickPocket']
Running netMHCcons with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/netMHCcons', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/B0702.fsa', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCcons-1.1/test/test.pep', '-inptype', '1', '-method', 'PickPocket']
.Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.fsa']
***
---
***************
*** 41 ****
! 21 DRB1*01:01 SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.76 50.00
--- 41 ----
! 21 DRB1*01:01 SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.75 50.00
***************
*** 76 ****
! 56 DRB1*01:01 LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.04 50.00 <=WB
--- 76 ----
! 56 DRB1*01:01 LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.03 50.00 <=WB
***************
*** 100 ****
! 80 DRB1*01:01 TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.41 50.00
--- 100 ----
! 80 DRB1*01:01 TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.43 50.00
***************
*** 144 ****
! 124 DRB1*01:01 DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.15 50.00
--- 144 ----
! 124 DRB1*01:01 DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.16 50.00
***************
*** 185 ****
! 165 DRB1*01:01 LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.63 50.00
--- 185 ----
! 165 DRB1*01:01 LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.64 50.00
***************
*** 223 ****
! 203 DRB1*01:01 GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.47 32.00 <=WB
--- 223 ----
! 203 DRB1*01:01 GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.48 32.00 <=WB
***************
*** 301 ****
! 281 DRB1*01:01 CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.14 50.00
--- 301 ----
! 281 DRB1*01:01 CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.12 50.00
Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.pep', '-inptype', '1']
Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.fsa', '-a', 'DRB1_0101']
***
---
***************
*** 41 ****
! 21 DRB1*01:01 SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.76 50.00
--- 41 ----
! 21 DRB1*01:01 SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.75 50.00
***************
*** 76 ****
! 56 DRB1*01:01 LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.04 50.00 <=WB
--- 76 ----
! 56 DRB1*01:01 LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.03 50.00 <=WB
***************
*** 100 ****
! 80 DRB1*01:01 TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.41 50.00
--- 100 ----
! 80 DRB1*01:01 TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.43 50.00
***************
*** 144 ****
! 124 DRB1*01:01 DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.15 50.00
--- 144 ----
! 124 DRB1*01:01 DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.16 50.00
***************
*** 185 ****
! 165 DRB1*01:01 LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.63 50.00
--- 185 ----
! 165 DRB1*01:01 LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.64 50.00
***************
*** 223 ****
! 203 DRB1*01:01 GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.47 32.00 <=WB
--- 223 ----
! 203 DRB1*01:01 GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.48 32.00 <=WB
***************
*** 301 ****
! 281 DRB1*01:01 CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.14 50.00
--- 301 ----
! 281 DRB1*01:01 CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.12 50.00
Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-a', 'DRB1_0101', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.pep', '-inptype', '1']
Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/DRB10101.fsa', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.fsa']
***
---
***************
*** 41 ****
! 21 USER_DEF SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.76
--- 41 ----
! 21 USER_DEF SIEDVEVAPPKAYEV ADHB_HUMAN 4 VEVAPPKAY 0.397 681.75
***************
*** 76 ****
! 56 USER_DEF LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.04 <=WB
--- 76 ----
! 56 USER_DEF LVTPLPVILGHEAAG ADHB_HUMAN 1 VTPLPVILG 0.548 133.03 <=WB
***************
*** 100 ****
! 80 USER_DEF TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.41
--- 100 ----
! 80 USER_DEF TTVKPGDKVIPLFTP ADHB_HUMAN 5 GDKVIPLFT 0.284 2316.43
***************
*** 144 ****
! 124 USER_DEF DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.15
--- 144 ----
! 124 USER_DEF DGTRRFTCRGKPIHH ADHB_HUMAN 4 RFTCRGKPI 0.366 951.16
***************
*** 185 ****
! 165 USER_DEF LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.63
--- 185 ----
! 165 USER_DEF LEKVCLIGCGFSTGY ADHB_HUMAN 4 CLIGCGFST 0.420 528.64
***************
*** 223 ****
! 203 USER_DEF GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.47 <=WB
--- 223 ----
! 203 USER_DEF GLSAVMGCKAAGAAR ADHB_HUMAN 4 VMGCKAAGA 0.603 73.48 <=WB
***************
*** 301 ****
! 281 USER_DEF CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.14
--- 301 ----
! 281 USER_DEF CHEACGTSVIVGVPP ADHB_HUMAN 0 CHEACGTSV 0.316 1640.12
Running netMHCIIpan with args: ['/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/netMHCIIpan', '-hlaseq', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/beta.dat', '-f', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/example.fsa', '-hlaseqA', '/Users/isaachodes/workspace/netmhc-bundle/netMHCIIpan-3.0/test/alpha.dat']
***
---
***************
*** 21 ****
! 1 USER_DEF TAGKVIKCKAAVLWE ADHB_HUMAN 4 VIKCKAAVL 0.342 1235.97
--- 21 ----
! 1 USER_DEF TAGKVIKCKAAVLWE ADHB_HUMAN 4 VIKCKAAVL 0.342 1235.95
***************
*** 122 ****
! 102 USER_DEF CKNPESNYCLKNDLG ADHB_HUMAN 1 KNPESNYCL 0.155 9376.47
--- 122 ----
! 102 USER_DEF CKNPESNYCLKNDLG ADHB_HUMAN 1 KNPESNYCL 0.155 9376.37
***************
*** 167 ****
! 147 USER_DEF QYTVVDENAVAKIDA ADHB_HUMAN 1 YTVVDENAV 0.244 3577.09
--- 167 ----
! 147 USER_DEF QYTVVDENAVAKIDA ADHB_HUMAN 1 YTVVDENAV 0.244 3577.05
***************
*** 188 ****
! 168 USER_DEF VCLIGCGFSTGYGSA ADHB_HUMAN 2 LIGCGFSTG 0.214 4915.49
--- 188 ----
! 168 USER_DEF VCLIGCGFSTGYGSA ADHB_HUMAN 2 LIGCGFSTG 0.214 4915.44
***************
*** 208 ****
! 188 USER_DEF VTPGSTCAVFGLGGV ADHB_HUMAN 6 CAVFGLGGV 0.156 9230.91
--- 208 ----
! 188 USER_DEF VTPGSTCAVFGLGGV ADHB_HUMAN 6 CAVFGLGGV 0.156 9230.81
.
----------------------------------------------------------------------
Ran 6 tests in 32.684s
OK
julia326
iskandr
JamieHeather
Using
netmhcconsresults in these errors, which come fromnetmhc-3.4:Tracing it down to
netmhc-3.4, it happens with these inputs:netmhc-3.4 -a HLA-B18:01 -l 8 <input_file>where the input file has these contents:Notably, right now this only happens on my Mac and does not happen on my Linux box or someone else's Mac.
@alex could you ping Morten with this error?