[BioRuby] Aptana JRuby BioRuby Test

Raoul Jean Pierre Bonnal raoul.bonnal at itb.cnr.it
Thu Mar 27 16:04:59 UTC 2008


Hello Guys, 
this is a the result of running bioruby tests using Aptana Studio build:
1.1.5.009212, Rad Rails 1.0 and JRuby ruby 1.8.6 (2008-02-22 rev 5944)
[i386-jruby1.1RC2].
I did the test on branch Biohackathon2008 :-)



Loaded suite .
Started
..............ID   AJ224122; SV 3; linear; genomic DNA; STD; PLN; 3827
BP.
XX
AC   AJ224122;
XX
DT   27-FEB-1998 (Rel. 54, Created)
DT   14-NOV-2006 (Rel. 89, Last updated, Version 6)
XX
DE   Arabidopsis thaliana DAG1 gene
XX
KW   BBFa gene; transcription factor.
XX
OS   Arabidopsis thaliana (thale cress)
OC   Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta;
OC   Spermatophyta; Magnoliophyta; eudicotyledons; core eudicotyledons;
rosids;
OC   eurosids II; Brassicales; Brassicaceae; Arabidopsis.
XX   

XX
FH   Key             Location/Qualifiers
FH
XX
SQ   Sequence 3827 BP; 1216 A; 1328 T; 693 C; 590 G; 0 other;
     aattaaaacg ccacgcaagg cgattctagg aaatcaaaac gacacgaaat gtggggtggg
60
     tgtttgggta ggaaagacag ttgtcaacat cagggatttg gattgaatca aaaaaaaagt
120
     ccttagattt cataaaagct aatcacgcct caaaactggg gcctatctct tcttttttgt
180
     cgcttcctgt cggtccttct ctatttcttc tccaacccct catttttgaa tatttacata
240
     acaaaccgtt ttactttctt tggtcaaaat tagacccaaa attctatatt agtttaagat
300
     atgtggtctg taatttattg ttgtattgat ataaaaatta gttataagcg attatatttt
360
     tatgctcaag taactggtgt tagttaacta tattccacca cgataacctg attacataaa
420
     atatgatttt aatcatttta gtaaaccata tcgcacgttg gatgattaat tttaacggtt
480
     taataacacg tgattaaatt atttttagaa tgattattta caaacggaaa agctatatgt
540
     gacacaataa ctcgtgcagt attgttagtt tgaaaagtgt atttggtttc ttatatttgg
600
     cctcgatttt cagtttatgt gctttttaca aagttttatt ttcgttatct gtttaacgcg
660
     acatttgttg tatggcttta ccgatttgag aataaaatca tattaccttt atgtagccat
720
     gtgtggtgta atatataata atggtccttc tacgaaaaaa gcagatcaca attgaaataa
780
     agggtgaaat ttggtgtccc ttttcttcgt cgaaataaca gaactaaata aaagaaagtg
840
     ttatagtata ttacgtccga agaataatcc atattcctga aatacagtca acatattata
900
     tatttagtac tttatataaa gttaggaatt aaatcatatg ttttatcgac catattaagt
960
     cacaacttta tcataaatta atctgtaatt agaattccaa gttcgccacc gaatttcgta
1020
     acctaatcta catataatag ataaaatata tatatgtaga gtaattatga tatctatgta
1080
     tgtagtcatg gtatatgaat tttgaaattg gcaaggtaac attgacggat cgtaacccaa
1140
     caaataatat taattacaaa atgggtgggc gggaatagta tacaactcat aattccactc
1200
     actttttgta ttattaggat atgaaataag agtaatcaac atgcataata aagatgtata
1260
     atttcttcat cttaaaaaac ataactacat ggtttaatac acaattttac cttttatcaa
1320
     aaaagtattt cacaattcac tcgcaaatta cgaaatgatg gctagtgctt caactccaaa
1380
     tttcgaatat tttaaatcac gatgtgtaga accttttatt tactggatac taatcactag
1440
     tttattgagc caaccaatta gttaaataga acaatcaata ttatagccag atattttttc
1500
     ctttaaaaat atttaaaaga ggggccagaa aagaaccaga gagggaggcc atgagacatt
1560
     attatcacta gtcaaaaaca acaaaccctc cttttgcttt ttcatataaa ttattatatt
1620
     ttattttgca ggtttcttct cttcttcttc ttcttcttct tcttcttcct cttggctgct
1680
     ttctttcatc atccataaag tgaaagctaa cgcatagaga gagccatatc gtcccaaaaa
1740
     aagcaaaagt ccaaaaaaaa acaactccaa aacattctct cttagctctt tactctttag
1800
     tttctctctc tctctctgcc tttctctttg ttgaagttca tggatgctac gaagtggact
1860
     caggtacgta aaaagatatc tctctgctat atctgtttgt ttgtagcttc tccccgactc
1920
     tcacgctctc tctctctctc tctctctctt tgtgtatctc tctactcaca taaatatata
1980
     catgtgtgtg tatgcatgtt tatatgtatg tatgaaacca gtagtggtta tacagatagt
2040
     ctatatagag atatcaatat gatgtgtttt aatttagact ttttatatat ccgtttgaaa
2100
     cttccgaagt tctcgaatgg agttaaggaa gttttgttct ctacaagttc aatttttctt
2160
     gtcattaatt ataaaactct gataactaat ggataaaaaa ggtatgcttt gttagttacc
2220
     ttttgttctt ggtgctcagg tcttaccatt tttttcctaa attttaatta gtctcctttc
2280
     tttaattaat tttatgttaa cgcactgacg atttaacgtt aacaaaaaaa cctagattct
2340
     ttttcttttc aatagagcat aattattact tcaatttcat ttatctcaca ctaaacccta
2400
     atcttggcga aattcctttt atatatataa atttaattaa tttttccaca atcttggcgg
2460
     aattcaggac tcggttttgc ttgttattgt tctctctttt aatttgacat ggttagggaa
2520
     tacttaaagt atgtcttaat tttatagggt tttcaagaaa tgataaacgt aaagccaatg
2580
     gagcaaatga tttctagcac caacaacaac acaccgcaac aacaaccaac attcatcgcc
2640
     accaacacaa ggccaaacgc caccgcatcc aatggtggct ccggaggaaa taccaacaac
2700
     acggctacga tggaaactag aaaggcgagg ccacaagaga aagtaaattg tccaagatgc
2760
     aactcaacaa acacaaagtt ctgttattac aacaactaca gtctcacgca accaagatac
2820
     ttctgcaaag gttgtcgaag gtattggacc gaaggtggct ctcttcgtaa cgtcccagtc
2880
     ggaggtagct caagaaagaa caagagatcc tctacacctt tagcttcacc ttctaatccc
2940
     aaacttccag atctaaaccc accgattctt ttctcaagcc aaatccctaa taagtcaaat
3000
     aaagatctca acttgctatc tttcccggtc atgcaagatc atcatcatca tggtatgtct
3060
     catttttttc atatgcccaa gatagagaac aacaatactt catcctcaat ctatgcttca
3120
     tcatctcctg tctcagctct tgagcttcta agatccaatg gagtctcttc aagaggcatg
3180
     aacacgttct tgcctggtca aatgatggat tcaaactcag tcctgtactc atctttaggg
3240
     tttccaacaa tgcctgatta caaacagagt aataacaacc tttcattctc cattgatcat
3300
     catcaaggga ttggacataa caccatcaac agtaaccaaa gagctcaaga taacaatgat
3360
     gacatgaatg gagcaagtag ggttttgttc cctttttcag acatgaaaga gctttcaagc
3420
     acaacccaag agaagagtca tggtaataat acatattgga atgggatgtt cagtaataca
3480
     ggaggatctt catggtgaaa aaaggttaaa aagagctcat gaactatcag ctttcttctc
3540
     tttttctgtt tttttctcct attttattat agtttttact ttgatgatct tttgtttttt
3600
     ctcacatggg gaactttact taaagttgtc agaacttagt ttacagattg tctttttatt
3660
     ccttctttct ggttttcctt ttttcctttt tttatcagtc tttttaaaat atgtatttca
3720
     taattgggtt tgatcattca tatttattag tatcaaaata gagtctatgt tcatgaggga
3780
     gtgttaaggg gtgtgagggt agaagaataa gtgaatacgg gggcccg
3827
//
................................................................................................................................................................Bio::Features is obsoleted. Some methods are added to given array to keep backward compatibility.
Bio::Features is obsoleted. Now, features are stored in an array.
Bio::Features is obsoleted. Now, features are stored in an array.
.Bio::Features is obsoleted. Some methods are added to given array to
keep backward compatibility.
.Bio::Features is obsoleted. Some methods are added to given array to
keep backward compatibility.
.Bio::Features is obsoleted. Some methods are added to given array to
keep backward compatibility.
Bio::Features is obsoleted. Now, features are stored in an array.
.....................................................Bio::References is
obsoleted. Some methods are added to given array to keep backward
compatibility.
Bio::References is obsoleted. Now, references are stored in an array.
.Bio::References is obsoleted. Some methods are added to given array to
keep backward compatibility.
......F.FFFF..F.....................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................................FFFF.................................................................................................................................................................................................................................................................................................................................................................................................................F.........................................................................................................................
Finished in 60.986000000000004 seconds.

  1) Failure:
test_depth_first_search(Bio::TestSampleGraph) [test/runner.rb:10]:
timestamps wrong.
<{"v"=>[1, 6],
 "w"=>[2, 5],
 "x"=>[7, 10],
 "y"=>[11, 16],
 "z"=>[8, 9],
 "q"=>[12, 15],
 "r"=>[17, 20],
 "s"=>[3, 4],
 "t"=>[13, 14],
 "u"=>[18, 19]}> expected but was
<{"q"=>[1, 16],
 "s"=>[2, 7],
 "v"=>[3, 6],
 "w"=>[4, 5],
 "t"=>[8, 15],
 "x"=>[9, 12],
 "z"=>[10, 11],
 "y"=>[13, 14],
 "r"=>[17, 20],
 "u"=>[18, 19]}>.

  2) Failure:
test_dump_list(Bio::TestSampleGraph) [test/runner.rb:10]:
<"v => w (1)\nw => s (1)\nx => z (1)\ny => q (1)\nz => x (1)\nq => w
(1), s (1), t (1)\nr => y (1), u (1)\ns => v (1)\nt => x (1), y (1)\nu
=> y (1)\n"> expected but was
<"q => s (1), t (1), w (1)\ns => v (1)\nt => x (1), y (1)\nw => s (1)\nr
=> u (1), y (1)\nu => y (1)\ny => q (1)\nv => w (1)\nx => z (1)\nz => x
(1)\n">.

  3) Failure:
test_dump_matrix(Bio::TestSampleGraph) [test/runner.rb:10]:
<"[# v, w, x, y, z, q, r, s, t, u\n [0, 1, 0, 0, 0, 0, 0, 0, 0, 0],\n
[0, 0, 0, 0, 0, 0, 0, 1, 0, 0],\n [0, 0, 0, 0, 1, 0, 0, 0, 0, 0],\n [0,
0, 0, 0, 0, 1, 0, 0, 0, 0],\n [0, 0, 1, 0, 0, 0, 0, 0, 0, 0],\n [0, 1,
0, 0, 0, 0, 0, 1, 1, 0],\n [0, 0, 0, 1, 0, 0, 0, 0, 0, 1],\n [1, 0, 0,
0, 0, 0, 0, 0, 0, 0],\n [0, 0, 1, 1, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 1,
0, 0, 0, 0, 0, 0]\n]"> expected but was
<"[# q, s, t, w, r, u, y, v, x, z\n [0, 1, 1, 1, 0, 0, 0, 0, 0, 0],\n
[0, 0, 0, 0, 0, 0, 0, 1, 0, 0],\n [0, 0, 0, 0, 0, 0, 1, 0, 1, 0],\n [0,
1, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 1, 1, 0, 0, 0],\n [0, 0,
0, 0, 0, 0, 1, 0, 0, 0],\n [1, 0, 0, 0, 0, 0, 0, 0, 0, 0],\n [0, 0, 0,
1, 0, 0, 0, 0, 0, 0],\n [0, 0, 0, 0, 0, 0, 0, 0, 0, 1],\n [0, 0, 0, 0,
0, 0, 0, 0, 1, 0]\n]">.

  4) Failure:
test_extract_subgraph_by_label(Bio::TestSampleGraph)
[test/runner.rb:10]:
<"v => w (1)\nw => s (1)\nq => w (1), s (1)\ns => v (1)\n"> expected but
was
<"q => s (1), w (1)\ns => v (1)\nw => s (1)\nv => w (1)\n">.

  5) Failure:
test_extract_subgraph_by_list(Bio::TestSampleGraph) [test/runner.rb:10]:
<"x => z (1)\ny => q (1)\nz => x (1)\nq => t (1)\nt => x (1), y (1)\n">
expected but was
<"q => t (1)\nt => x (1), y (1)\ny => q (1)\nx => z (1)\nz => x (1)\n">.

  6) Failure:
test_to_matrix(Bio::TestSampleGraph) [test/runner.rb:10]:
matrix wrong.
<Matrix[[0, 1, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 1, 0, 0],
[0, 0, 0, 0, 1, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 1, 0, 0, 0, 0], [0, 0,
1, 0, 0, 0, 0, 0, 0, 0], [0, 1, 0, 0, 0, 0, 0, 1, 1, 0], [0, 0, 0, 1, 0,
0, 0, 0, 0, 1], [1, 0, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0, 1, 1, 0, 0, 0, 0,
0, 0], [0, 0, 0, 1, 0, 0, 0, 0, 0, 0]]> expected but was
<Matrix[[0, 1, 1, 1, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 1, 0, 0],
[0, 0, 0, 0, 0, 0, 1, 0, 1, 0], [0, 1, 0, 0, 0, 0, 0, 0, 0, 0], [0, 0,
0, 0, 0, 1, 1, 0, 0, 0], [0, 0, 0, 0, 0, 0, 1, 0, 0, 0], [1, 0, 0, 0, 0,
0, 0, 0, 0, 0], [0, 0, 0, 1, 0, 0, 0, 0, 0, 0], [0, 0, 0, 0, 0, 0, 0, 0,
0, 1], [0, 0, 0, 0, 0, 0, 0, 0, 1, 0]]>.

  7) Failure:
test_list_falsenegative(Bio::TestPROSITE) [test/runner.rb:10]:
<["P18259",
 "Q13813",
 "Q55593",
 "Q00274",
 "P54466",
 "Q9HJA4",
 "P55687",
 "Q9W0K0",
 "Q42608",
 "P45873",
 "P45198",
 "P15828",
 "P18609",
 "Q51758",
 "P24151",
 "P23892",
 "P41510",
 "P22817",
 "P46457",
 "O15910",
 "P23515",
 "O59098",
 "P26560",
 "P26561",
 "P47551",
 "P22023",
 "P21503",
 "Q9VNB3",
 "P25147",
 "Q42675",
 "P21524",
 "P06882",
 "Q61647",
 "P42790",
 "Q10775",
 "O84877",
 "P51656",
 "P75548",
 "Q92839",
 "P51657",
 "P37274",
 "P34724",
 "P07751",
 "P00498",
 "P07886",
 "P26258",
 "O67284",
 "Q25410",
 "P46724",
 "P76097",
 "P16086",
 "P08032",
 "P14198",
 "P77916",
 "O60779",
 "P13688",
 "Q03834",
 "Q63912",
 "O68824",
 "P77932",
 "Q53547",
 "P77933",
 "P34529",
 "Q00126"]> expected but was
<["P14198",
 "P13688",
 "P23892",
 "P51656",
 "P51657",
 "P77916",
 "P77933",
 "P77932",
 "Q51758",
 "Q53547",
 "O68824",
 "P15828",
 "Q92839",
 "Q61647",
 "P46724",
 "P45873",
 "P00498",
 "P75548",
 "P22817",
 "P25147",
 "P22023",
 "Q55593",
 "Q25410",
 "Q03834",
 "P24151",
 "Q9VNB3",
 "P23515",
 "Q63912",
 "P34724",
 "P37274",
 "P42790",
 "Q10775",
 "Q42608",
 "P41510",
 "O84877",
 "Q9HJA4",
 "P21524",
 "O15910",
 "P46457",
 "Q9W0K0",
 "P08032",
 "P07751",
 "Q13813",
 "P16086",
 "P26258",
 "O60779",
 "P06882",
 "Q42675",
 "Q00126",
 "P07886",
 "P18609",
 "P26560",
 "P18259",
 "P26561",
 "Q00274",
 "P47551",
 "P55687",
 "O67284",
 "P21503",
 "P76097",
 "P45198",
 "O59098",
 "P34529",
 "P54466"]>.

  8) Failure:
test_list_falsepositive(Bio::TestPROSITE) [test/runner.rb:10]:
<["P41985",
 "P41986",
 "P17645",
 "Q60612",
 "Q60879",
 "P52592",
 "Q60882",
 "Q60883",
 "Q60884",
 "Q60885",
 "Q60886",
 "Q60887",
 "Q60888",
 "Q60889",
 "Q60890",
 "P49218",
 "Q60891",
 "Q60892",
 "P49220",
 "Q60893",
 "Q60894",
 "Q60895",
 "O70430",
 "O70432",
 "P51046",
 "P51047",
 "P51048",
 "P51049",
 "P51051",
 "P51052",
 "Q98913",
 "Q98914",
 "Q61616",
 "Q61618",
 "P79250",
 "P14803",
 "P49287",
 "Q28602",
 "P97267",
 "Q90305",
 "Q29006",
 "Q95252",
 "P34985",
 "Q90456",
 "Q95136",
 "Q95137",
 "Q62953",
 "Q95195"]> expected but was
<["P79250",
 "P97267",
 "Q29006",
 "Q60612",
 "Q61618",
 "P41985",
 "P41986",
 "O70430",
 "O70432",
 "Q95252",
 "Q95136",
 "Q61616",
 "Q95137",
 "Q95195",
 "P52592",
 "P51046",
 "P51047",
 "P51049",
 "Q90456",
 "P49218",
 "P51048",
 "P49287",
 "P51051",
 "P51052",
 "Q62953",
 "Q28602",
 "P14803",
 "Q60883",
 "Q60890",
 "Q60894",
 "P34985",
 "Q60882",
 "Q60884",
 "Q60886",
 "Q60887",
 "Q60888",
 "Q60893",
 "Q60895",
 "Q60891",
 "Q60879",
 "Q60889",
 "Q98913",
 "Q60892",
 "Q98914",
 "Q60885",
 "P17645",
 "Q90305",
 "P49220"]>.

  9) Failure:
test_list_potentialhit(Bio::TestPROSITE) [test/runner.rb:10]:
<["P41985",
 "P41986",
 "P17645",
 "Q60612",
 "Q60879",
 "P52592",
 "Q60882",
 "Q60883",
 "Q60884",
 "Q60885",
 "Q60886",
 "Q60887",
 "Q60888",
 "Q60889",
 "Q60890",
 "P49218",
 "Q60891",
 "Q60892",
 "P49220",
 "Q60893",
 "Q60894",
 "Q60895",
 "O70430",
 "O70432",
 "P51046",
 "P51047",
 "P51048",
 "P51049",
 "P51051",
 "P51052",
 "Q98913",
 "Q98914",
 "Q61616",
 "Q61618",
 "P79250",
 "P14803",
 "P49287",
 "Q28602",
 "P97267",
 "Q90305",
 "Q29006",
 "Q95252",
 "P34985",
 "Q90456",
 "Q95136",
 "Q95137",
 "Q62953",
 "Q95195"]> expected but was
<["P79250",
 "P97267",
 "Q29006",
 "Q60612",
 "Q61618",
 "P41985",
 "P41986",
 "O70430",
 "O70432",
 "Q95252",
 "Q95136",
 "Q61616",
 "Q95137",
 "Q95195",
 "P52592",
 "P51046",
 "P51047",
 "P51049",
 "Q90456",
 "P49218",
 "P51048",
 "P49287",
 "P51051",
 "P51052",
 "Q62953",
 "Q28602",
 "P14803",
 "Q60883",
 "Q60890",
 "Q60894",
 "P34985",
 "Q60882",
 "Q60884",
 "Q60886",
 "Q60887",
 "Q60888",
 "Q60893",
 "Q60895",
 "Q60891",
 "Q60879",
 "Q60889",
 "Q98913",
 "Q60892",
 "Q98914",
 "Q60885",
 "P17645",
 "Q90305",
 "P49220"]>.

 10) Failure:
test_list_truepositive(Bio::TestPROSITE) [test/runner.rb:10]:
<["O42427",
 "P11617",
 "P46090",
 "P30939",
 "P28336",
 "Q9Z2J6",
 "Q64326",
 "P46092",
 "P07550",
 "Q9UKL2",
 "P30940",
 "P46093",
 "Q61224",
 "Q63384",
 "P46094",
 "Q28309",
 "P22328",
 "P46095",
 "O77590",
 "O02813",
 "Q9R1C8",
 "P22329",
 "O93441",
 "O42300",
 "Q10904",
 "O43613",
 "Q9Z0D9",
 "P18130",
 "O42301",
 "O43614",
 "P22330",
 "P22331",
 "Q9GLJ8",
 "O15552",
 "O43193",
 "P22332",
 "O43194",
 "Q9WV26",
 "Q9TST4",
 "Q62053",
 "P58307",
 "O42307",
 "Q9TST5",
 "P58308",
 "Q9TST6",
 "P41983",
 "P30951",
 "P41984",
 "O02824",
 "O88626",
 "P91657",
 "P30953",
 "P18825",
 "O62709",
 "O42574",
 "P30954",
 "Q28585",
 "O88628",
 "P30955",
 "P28221",
 "Q9WU02",
 "P28222",
 "P32299",
 "P70310",
 "P28223",
 "O76099",
 "P04201",
 "P35894",
 "Q15722",
 "P35895",
 "O93459",
 "P14416",
 "P35897",
 "P35898",
 "P35899",
 "P49578",
 "O42451",
 "P47745",
 "Q9Y5N1",
 "O42452",
 "P50052",
 "P47746",
 "O97878",
 "O02835",
 "Q09502",
 "Q28596",
 "O00254",
 "P31355",
 "P47747",
 "O97879",
 "O02836",
 "P31356",
 "P30966",
 "P79436",
 "P47748",
 "P87365",
 "P08099",
 "Q9JL21",
 "P47749",
 "P87366",
 "O18481",
 "P16582",
 "P87367",
 "P30968",
 "O97880",
 "P47750",
 "P87368",
 "Q62758",
 "P30969",
 "Q28468",
 "O97881",
 "Q09638",
 "P09703",
 "P87369",
 "O95918",
 "Q9TUE1",
 "O97882",
 "P22909",
 "P09704",
 "O18485",
 "O42327",
 "P47751",
 "P47883",
 "P18841",
 "O55193",
 "O97883",
 "O18486",
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 "P25931",
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 "P56412",
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 "Q9GK74",
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 "P53454",
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 "P43117",
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 "O88319",
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 "O02781",
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 "P16395",
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 "P30518",
 "O13227",
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 "P79807",
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 "P79808",
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 "P56439",
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 "P20309",
 "O77723",
 "P56440",
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 "Q9UHM6",
 "Q9TT23",
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 "P35463",
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 "O14581",
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 "P08485",
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 "P17200",
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 "P43140",
 "P49285",
 "P32302",
 "P35343",
 "P43141",
 "P49286",
 "P32303",
 "P35344",
 "Q91178",
 "P32304",
 "Q9Y5X5",
 "P35345",
 "P08911",
 "P43142",
 "O08556",
 "P49288",
 "P35346",
 "P52702",
 "P32305",
 "P08912",
 "P11483",
 "P32306",
 "P52703",
 "Q9R0M1",
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 "P32307",
 "Q62463",
 "P35348",
 "O42294",
 "P30542",
 "P32308",
 "P30411",
 "P30543",
 "P32309",
 "Q9TU77",
 "Q02152",
 "Q02284",
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 "P35350",
 "P30545",
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 "P70031",
 "P30546",
 "P79148",
 "P30547",
 "P32310",
 "P16849",
 "P32311",
 "Q9JI35",
 "P30548",
 "P32312",
 "P30549",
 "Q9Y5Y4",
 "P30680",
 "P32313",
 "O08565",
 "Q28997",
 "P97266",
 "P11229",
 "Q28998",
 "Q9NYM4",
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 "P35356",
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 "P30551",
 "O77621",
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 "P30552",
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 "P22888",
 "P30553",
 "O19012",
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 "P30555",
 "O19014",
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 "P30556",
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 "P35361",
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 "P30559",
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 "Q01776",
 "P35364",
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 "P34975",
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 "P30560",
 "P35366",
 "P21556",
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 "P16177",
 "P34976",
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 "P34977",
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 "P33533",
 "P34978",
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 "P47900",
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 "P35370",
 "P56484",
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 "O19037",
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 "P15409",
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 "Q94741",
 "P97717",
 "P34994",
 "Q29154",
 "P97295",
 "Q90328",
 "P56498",
 "P32211",
 "Q92847",
 "P34995",
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 "P10608",
 "Q60476",
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 "Q13585",
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 "P37288",
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 "P55167",
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 "P21451",
 "Q9QZN9",
 "P79191",
 "P21452",
 "P51675",
 "Q28642",
 "P21453",
 "P51676",
 "Q60483",
 "P49892",
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 "P51677",
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 "Q9ES90",
 "Q9HC97",
 "P51678",
 "P17124",
 "P79748",
 "P51679",
 "O18793",
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 "P41231",
 "P28678",
 "P41232",
 "Q9Y2T5",
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 "P18599",
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 "P32229",
 "Q9XT82",
 "O35599",
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 "P51682",
 "P47800",
 "P28680",
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 "P28681",
 "P51683",
 "Q90214",
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 "P28683",
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 "P51685",
 "Q9H3N8",
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 "P21462",
 "P25089",
 "O00574",
 "P21463",
 "P28684",
 "P79756",
 "O54689",
 "P51686",
 "P47936",
 "O16018",
 "P51582",
 "O16019",
 "P22671",
 "Q9UM60",
 "P47937",
 "O77408",
 "Q9TTQ9",
 "Q95154",
 "P26824",
 "P25090",
 "Q95155",
 "O16020",
 "P52500",
 "Q95156",
 "Q28524",
 "O35210",
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 "P48302",
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 "P32237",
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 "P32238",
 "O02213",
 "P25095",
 "P32239",
 "O35214",
 "O35478",
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 "P20395",
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 "O77680",
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 "Q9PUI7",
 "P28564",
 "P49650",
 "P32245",
 "P28565",
 "P49651",
 "P32246",
 "P28566",
 "P49652",
 "Q98894",
 "P32247",
 "Q9H255",
 "Q98895",
 "P32248",
 "P32249",
 "P20272",
 "P43088",
 "Q95170",
 "P50128",
 "P32250",
 "P50391",
 "P70658",
 "P08172",
 "P50129",
 "P08173",
 "P32251",
 "P46616",
 "Q9QYN8",
 "P50130",
 "P51470",
 "P14763",
 "P51471",
 "P50132",
 "Q27987",
 "P49660",
 "P51472",
 "P51473",
 "O60412",
 "P51474",
 "P51475",
 "Q90373",
 "Q95179",
 "P51476",
 "P58406",
 "O88853",
 "P70536",
 "Q17094",
 "O88854",
 "Q11082",
 "P37067",
 "Q90245",
 "P79785",
 "P37068",
 "O13076",
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 "P46626",
 "Q91559",
 "P37069",
 "P46627",
 "P21917",
 "P23944",
 "O97967",
 "P46628",
 "P56971",
 "P43657",
 "O62809",
 "Q28553",
 "P21918",
 "P23945",
 "P20288",
 "O19091",
 "O15529",
 "P37070",
 "Q28422",
 "P29274",
 "P37071",
 "P29275",
 "Q9Z0Z6",
 "P29276",
 "Q25321",
 "Q18179",
 "P30372",
 "Q90252",
 "O14843",
 "Q9Z2I3",
 "Q25322",
 "Q08520",
 "Q28558",
 "P51488",
 "P41143",
 "P23265",
 "Q28691",
 "P51489",
 "P09241",
 "O18312",
 "P41144",
 "Q61212",
 "P23266",
 "Q9WV08",
 "P41145",
 "P46636",
 "P23267",
 "P56718",
 "P41146",
 "P21109",
 "P51490",
 "P79400",
 "Q9UPC5",
 "Q62035",
 "P56719",
 "P23269",
 "O14718",
 "P79798",
 "P51491",
 "O18315",
 "P41149",
 "P23270",
 "O60431",
 "P49681",
 "P23271",
 "P19327",
 "P30935",
 "P11613",
 "P49682",
 "P23272",
 "P41968",
 "O43603",
 "P19328",
 "Q63931",
 "P30936",
 "P49683",
 "P11614",
 "P23273",
 "P46089",
 "P28334",
 "P49684",
 "P30937",
 "P11615",
 "P23274",
 "P28335",
 "O13092",
 "O43869",
 "P97520",
 "Q01337",
 "P30938",
 "P49685",
 "P11616",
 "P23275",
 "Q01338"]> expected but was
<["O42385",
 "P08908",
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 "O08892",
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 "P28222",
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 "Q9WV08",
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 "Q9TT96",
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 "P47899",
 "P07700",
 "P34971",
 "Q28998",
 "P18090",
 "Q28927",
 "O42574",
 "Q28044",
 "P54833",
 "Q9TST5",
 "P07550",
 "Q28509",
 "O70431",
 "P04274",
 "P18762",
 "Q28997",
 "P10608",
 "P46626",
 "O02662",
 "Q9XT57",
 "Q60483",
 "Q9TST4",
 "P13945",
 "Q28524",
 "P25962",
 "P26255",
 "Q9XT58",
 "P43141",
 "O70526",
 "P30411",
 "P32299",
 "Q9GLX8",
 "Q28642",
 "P25023",
 "P35371",
 "P32247",
 "O54798",
 "O97967",
 "P47751",
 "O88680",
 "Q16581",
 "O09047",
 "O55197",
 "P49238",
 "Q9Z0D9",
 "P35411",
 "P30992",
 "P79175",
 "P21730",
 "P79188",
 "P30993",
 "P79240",
 "P79234",
 "Q9TUE1",
 "P97520",
 "Q98894",
 "Q98895",
 "O02777",
 "P21554",
 "P47746",
 "P56971",
 "P20272",
 "Q9PUI7",
 "P34972",
 "P47936",
 "Q9QZN9",
 "Q63931",
 "P32238",
 "O08786",
 "O97772",
 "P30551",
 "P70031",
 "P49682",
 "O88410",
 "P25930",
 "O62747",
 "P56498",
 "P30991",
 "Q28474",
 "P79394",
 "P70658",
 "P56491",
 "O08565",
 "Q28553",
 "P32302",
 "Q04683",
 "P34997",
 "O18983",
 "O00574",
 "Q9XT45",
 "O19024",
 "P32246",
 "P56482",
 "P51675",
 "P41597",
 "O18793",
 "P51683",
 "O55193",
 "Q9Z2I3",
 "P56492",
 "P51677",
 "P56483",
 "P51678",
 "O54814",
 "P51679",
 "P51680",
 "P56493",
 "O62743",
 "P56439",
 "P51681",
 "O97883",
 "P79436",
 "P51682",
 "P56440",
 "P56441",
 "O97881",
 "O97880",
 "O97882",
 "O08556",
 "O97878",
 "O97879",
 "P51684",
 "O54689",
 "P32248",
 "P47774",
 "P51685",
 "O97665",
 "P56484",
 "P51686",
 "Q9WUT7",
 "P46092",
 "Q9JL21",
 "P35350",
 "Q9NPB9",
 "P51676",
 "Q99788",
 "P97468",
 "O35786",
 "Q99527",
 "O08878",
 "P46094",
 "Q9R0M1",
 "P35406",
 "P53452",
 "P47800",
 "P24628",
 "P34973",
 "P20288",
 "P52702",
 "P53453",
 "P14416",
 "P13953",
 "P52703",
 "P35462",
 "P30728",
 "P19020",
 "P21917",
 "P51436",
 "P30729",
 "P53454",
 "P42288",
 "P21728",
 "O77680",
 "P50130",
 "O02664",
 "P18901",
 "P42289",
 "P21918",
 "P25115",
 "P42290",
 "P42291",
 "P41596",
 "Q24563",
 "P32249",
 "P21453",
 "O08530",
 "P48303",
 "Q28031",
 "Q92633",
 "Q61130",
 "P46628",
 "Q99500",
 "P21450",
 "P25101",
 "Q61614",
 "Q29010",
 "P26684",
 "P28088",
 "P56497",
 "Q90328",
 "O62709",
 "P24530",
 "Q28468",
 "P48302",
 "P35463",
 "P21451",
 "P79177",
 "P25090",
 "P79190",
 "O08790",
 "P79242",
 "P79236",
 "P79178",
 "P25089",
 "P79191",
 "P79243",
 "P79237",
 "P79176",
 "P21462",
 "P33766",
 "Q05394",
 "P35376",
 "P79763",
 "Q95179",
 "P47799",
 "P23945",
 "P32212",
 "P35378",
 "P49059",
 "P20395",
 "P35379",
 "P47211",
 "P56479",
 "Q62805",
 "O43603",
 "O88854",
 "O08726",
 "O60755",
 "O88853",
 "O88626",
 "P79266",
 "P30552",
 "P32239",
 "P56481",
 "P30796",
 "P46627",
 "P30553",
 "Q92847",
 "Q95254",
 "O08725",
 "P35409",
 "O43193",
 "O43194",
 "O14843",
 "O15529",
 "O15552",
 "Q9Y5Y4",
 "Q9Z2J6",
 "Q9Y2T5",
 "Q15743",
 "Q9TTQ9",
 "Q9NYM4",
 "P30731",
 "P46090",
 "P46089",
 "P35413",
 "P46093",
 "P50132",
 "P46095",
 "P51651",
 "P48145",
 "P49681",
 "P48146",
 "P49683",
 "Q64121",
 "P47775",
 "P35412",
 "P30951",
 "O18982",
 "P49685",
 "O97663",
 "P56412",
 "Q13304",
 "Q14330",
 "Q99678",
 "Q99679",
 "O00155",
 "O00270",
 "O75388",
 "Q91178",
 "Q9UPC5",
 "Q9R1K6",
 "Q9HC97",
 "Q9ES90",
 "Q93126",
 "Q93127",
 "P32236",
 "O42329",
 "O18821",
 "P30968",
 "Q01776",
 "P49922",
 "P30969",
 "P32237",
 "P30550",
 "P21729",
 "P52500",
 "P35894",
 "P35895",
 "P34987",
 "P35897",
 "P35898",
 "P35899",
 "O14626",
 "P30546",
 "P31389",
 "P35367",
 "P70174",
 "P31390",
 "P17124",
 "P47747",
 "P25021",
 "P97292",
 "P25102",
 "Q9JI35",
 "Q9Y5N1",
 "P58406",
 "Q9QYN8",
 "Q9H3N8",
 "P49019",
 "P55919",
 "P25024",
 "P55920",
 "P21109",
 "P70612",
 "Q28003",
 "O97571",
 "Q28422",
 "P25025",
 "Q28519",
 "P35343",
 "Q28807",
 "P35344",
 "P35407",
 "Q90334",
 "Q28005",
 "O02721",
 "Q90674",
 "P22888",
 "P30730",
 "P16582",
 "P16235",
 "Q28585",
 "P04201",
 "P30554",
 "P12526",
 "P41968",
 "P33033",
 "P32244",
 "Q9GLJ8",
 "P32245",
 "P56450",
 "O97504",
 "P70596",
 "P56451",
 "P33032",
 "P41149",
 "Q9TT23",
 "Q9MZV8",
 "P35345",
 "P41983",
 "O02769",
 "P49285",
 "P48039",
 "Q61184",
 "P49217",
 "O02781",
 "P48040",
 "P51050",
 "P49286",
 "P49288",
 "P49219",
 "Q13585",
 "O88495",
 "Q28558",
 "P35410",
 "P56442",
 "P47798",
 "O77616",
 "P56443",
 "P56444",
 "P56445",
 "P55167",
 "P56446",
 "P79166",
 "Q01726",
 "Q01727",
 "P56447",
 "Q9TUK4",
 "Q9TU05",
 "P56448",
 "O19037",
 "Q29154",
 "Q90252",
 "Q9GZQ6",
 "Q9EP86",
 "Q9Y5X5",
 "Q9EQD2",
 "P30547",
 "P25103",
 "P30548",
 "Q98982",
 "P14600",
 "P05363",
 "Q64077",
 "P21452",
 "P51144",
 "P30549",
 "P79218",
 "P16610",
 "P29371",
 "P47937",
 "O97512",
 "P16177",
 "P30098",
 "P28336",
 "O54799",
 "P24053",
 "P30989",
 "O88319",
 "P20789",
 "O95665",
 "P70310",
 "Q63384",
 "O02813",
 "Q9WVD0",
 "P25929",
 "Q04573",
 "O02835",
 "P21555",
 "P34992",
 "P79113",
 "Q9Z2D5",
 "Q9DDN6",
 "P49146",
 "Q9GK74",
 "P97295",
 "O02836",
 "P79211",
 "P50391",
 "Q61041",
 "Q63447",
 "Q61212",
 "P79217",
 "P25931",
 "Q15619",
 "P34982",
 "P47884",
 "P30953",
 "P47887",
 "Q9UM60",
 "O60431",
 "Q15612",
 "Q9GZK3",
 "O76000",
 "P58173",
 "O95371",
 "Q13607",
 "O95006",
 "Q9GZK4",
 "O95918",
 "Q15062",
 "O76002",
 "O76001",
 "Q9NQN1",
 "O43869",
 "Q9Y3N9",
 "P47883",
 "Q15615",
 "O95013",
 "Q9UP62",
 "Q13606",
 "Q9UGF5",
 "Q9UGF6",
 "O95007",
 "Q15622",
 "O76100",
 "O14581",
 "O76099",
 "O60412",
 "Q15620",
 "Q9H209",
 "Q9H207",
 "P30954",
 "Q25321",
 "O77408",
 "Q25322",
 "Q17232",
 "P22270",
 "Q25188",
 "Q9GZK7",
 "Q9UGF7",
 "P34984",
 "P23275",
 "P47892",
 "P34983",
 "P23269",
 "Q95154",
 "P37067",
 "P23274",
 "Q95155",
 "P37068",
 "Q95156",
 "P37069",
 "P23265",
 "Q95157",
 "P37070",
 "P23273",
 "P37071",
 "P23266",
 "P34986",
 "P23267",
 "P23270",
 "P23271",
 "P23272",
 "P30955",
 "Q9H1Y3",
 "Q9WUK7",
 "Q9UHM6",
 "Q9QXZ9",
 "P41143",
 "P32300",
 "P79291",
 "P33533",
 "P41144",
 "P41145",
 "P33534",
 "P34975",
 "P79350",
 "P97266",
 "P35372",
 "P42866",
 "Q95247",
 "P33535",
 "P47748",
 "P41146",
 "P35377",
 "P79292",
 "P35370",
 "P22269",
 "P06002",
 "P28678",
 "Q25157",
 "P35360",
 "O15973",
 "Q94741",
 "P08099",
 "P28679",
 "Q25158",
 "P35361",
 "Q26495",
 "P04950",
 "P28680",
 "P08255",
 "P29404",
 "P91657",
 "O01668",
 "P51471",
 "P51472",
 "P51490",
 "P32310",
 "P28682",
 "O13227",
 "P35357",
 "P03999",
 "P51491",
 "P87365",
 "Q63652",
 "O13092",
 "O42294",
 "P52202",
 "Q90245",
 "Q90214",
 "P41591",
 "Q17053",
 "Q9YGZ1",
 "O42300",
 "O42301",
 "P02699",
 "P56514",
 "P56515",
 "Q17292",
 "O18312",
 "O16017",
 "O18315",
 "O16018",
 "P32308",
 "P32309",
 "Q17296",
 "Q9YGZ8",
 "P22328",
 "O42327",
 "O42307",
 "O42328",
 "O42330",
 "Q90373",
 "P28681",
 "P51488",
 "O62791",
 "Q9YGZ4",
 "Q9YH05",
 "Q9YH04",
 "O93441",
 "P79756",
 "O62792",
 "Q9YGZ2",
 "P08100",
 "O42268",
 "P22671",
 "O42427",
 "Q9YH00",
 "Q9YGZ6",
 "Q9YGZ7",
 "P24603",
 "Q17094",
 "Q28886",
 "O62793",
 "P15409",
 "Q9YGZ9",
 "Q9YH01",
 "P79798",
 "P79807",
 "P79808",
 "P79809",
 "P79812",
 "P09241",
 "O18481",
 "O16019",
 "P87369",
 "O42452",
 "Q98980",
 "O62795",
 "O62794",
 "O18766",
 "P79848",
 "P35403",
 "P35356",
 "O42451",
 "O16020",
 "O18485",
 "O18486",
 "P49912",
 "P79863",
 "P51470",
 "P31355",
 "P56516",
 "P51489",
 "Q9YGZ3",
 "P79898",
 "P79901",
 "Q9YGZ0",
 "P79902",
 "Q9YH03",
 "P79903",
 "P79911",
 "P79914",
 "O93459",
 "O16005",
 "P02700",
 "Q9YGZ5",
 "Q9YH02",
 "P35362",
 "O42466",
 "Q9DGG4",
 "P31356",
 "O62796",
 "O62798",
 "P29403",
 "O42604",
 "Q9YGY9",
 "Q90215",
 "P22330",
 "P32311",
 "Q9R024",
 "P28683",
 "P35358",
 "P04001",
 "O35599",
 "O18911",
 "P87366",
 "O18910",
 "O35476",
 "O35478",
 "P22331",
 "P32312",
 "P51474",
 "P34989",
 "O13018",
 "P51475",
 "P51476",
 "O42266",
 "O42490",
 "P41592",
 "P22332",
 "O18914",
 "Q95170",
 "P32313",
 "P22329",
 "O18913",
 "O18912",
 "P04000",
 "P87367",
 "O12948",
 "P35359",
 "Q90309",
 "O61303",
 "P28684",
 "P87368",
 "P51473",
 "O14718",
 "O35214",
 "O43613",
 "P58307",
 "O97661",
 "P56718",
 "Q9TUP7",
 "O43614",
 "P58308",
 "O62809",
 "P56719",
 "Q9Y5P1",
 "Q9H255",
 "O88628",
 "Q9H343",
 "Q9H344",
 "P56449",
 "P30559",
 "P56494",
 "P97926",
 "P32306",
 "P70536",
 "Q28756",
 "Q9UKL2",
 "Q9H346",
 "P41231",
 "P35383",
 "P41232",
 "P51582",
 "P32250",
 "P43657",
 "Q15722",
 "P79928",
 "Q99677",
 "P48042",
 "P34996",
 "P47900",
 "P49652",
 "P49650",
 "P49651",
 "P21556",
 "P25105",
 "P35366",
 "Q62035",
 "P46002",
 "O00254",
 "P34995",
 "P35375",
 "P70597",
 "Q9XT82",
 "P43116",
 "Q62053",
 "Q62928",
 "P35408",
 "P32240",
 "Q28691",
 "P43114",
 "P37289",
 "P43088",
 "P43117",
 "P43118",
 "Q28905",
 "P79393",
 "P43119",
 "P43252",
 "P43253",
 "P11613",
 "P25106",
 "P56485",
 "O89039",
 "P23749",
 "P30872",
 "P30873",
 "P28646",
 "P34993",
 "P30874",
 "P30875",
 "P34994",
 "P30680",
 "P32745",
 "P30935",
 "P30936",
 "P31391",
 "P49660",
 "P30937",
 "P35346",
 "O08858",
 "P30938",
 "O42179",
 "Q95125",
 "P56486",
 "P21731",
 "P30987",
 "P34978",
 "Q61038",
 "Q00991",
 "P25116",
 "P30558",
 "P56488",
 "P26824",
 "P47749",
 "P30974",
 "P30975",
 "O46639",
 "O93603",
 "P34981",
 "P21761",
 "Q01717",
 "Q28596",
 "Q27987",
 "P14763",
 "P16473",
 "P47750",
 "P21463",
 "P56495",
 "P16849",
 "Q83207",
 "O12000",
 "Q9UKP6",
 "P49684",
 "P09703",
 "P09704",
 "P37288",
 "Q62463",
 "P30560",
 "P48043",
 "P47901",
 "Q9WU02",
 "P48974",
 "Q9J529",
 "P48044",
 "P30518",
 "P32307",
 "Q00788",
 "P32229",
 "Q08520",
 "Q19084",
 "P34311",
 "Q03566",
 "Q09502",
 "O02213",
 "Q09638",
 "Q09561",
 "Q11082",
 "Q18007",
 "Q10904",
 "Q18179",
 "Q18904"]>.

 11) Failure:
test_lite_example(Bio::TestContingencyTable) [test/runner.rb:10]:
<"2.4"> expected but was
<"2.400000000000001">.

1354 tests, 2769 assertions, 11 failures, 0 errors






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