Commit 35b70da4 authored by Thonier Florian's avatar Thonier Florian Committed by Mathieu Giraud

bugs/bug2107: sequences with spurious V k-mers and no J k-mers should not be labeled as 'only V'

Opens #2107.
parent 74dccbd7
>NB501645:5:HGWTMAFXX:1:11103:24987:2826
CATCTTTGTTCTCAAAATGTTGTTTTGTTTTGTTTTACCTTTATGTTCTTTCCCCTTTGTACAGATGCTATTCTTGGAATGTTGCCAGTTTTTCATGGGTAACAAGGAAGGAGAGGAAGGATAAGGTCATGGGGTACAGAGGGTGAAAATAAAAATTACAGATCTTCTTTAGTTCTTACAAAGACCTAAAGACTTGCCCTTTCCTACCAGGCTTGTTTTGGGTAGTT
>NB501645:5:HGWTMAFXX:1:11104:2130:12344
TCCTTGCACAGCCCGAAGTCTGTGATCTTAATGTGCCCGTCCTTGTCCAGCATGAGGTTCTCCAGCTAGGGGAAAGGTGGCCTCAGGTCAGTGCCGCCAGGCCCCCAGGGCCCTGCCCCCCTGCCTGCCCGCCAGCGCACCTTGAGGTCCCGGTACACCACGTTCTTCTCCGAGTGCAGGTAGTCCAGGGCTGACACAATCTCAGCGCCATAGAAGCGGGCCCGGTCCTCGGAG
>NB501645:5:HGWTMAFXX:1:11109:20085:20184
CTCTCAGGCTGGTCCTAGCAAATCAGACAGAGGGAGCTCCCAGGTCAGTGTAACCAGCACAGTTCATGTTGTCAACACCAACACACGCTCCCGGGAC
>NB501645:5:HGWTMAFXX:1:11205:26268:2021
GGCCTGCATCCTAATTGCAGGTAAAGGCACCTGGCTGACCATCAATGCTTACCCCATTGTAGTCATCGCCAGATGCCTCCACTTGGCCATCATAGCTCTTGTCCATGTCAAACCTATTGAGAAGCCTGCGGTCCAGCTGCAGGCCAGTACAATCCGCTGCAGCATAATTTGTCAGGTCAACCTTCACACCATATTTTGGCAGTTCGTGTACATATGCTGTGCAGACTATCATATCCCCCTCTGTACGGGCATAAGC
>NB501645:5:HGWTMAFXX:1:11206:9124:1240
CAGTTAGGGTCGTCAGTTGGTCTGAAACTGCATTTGGCCCCCTCCTCCATCCTCCCTGTCCGTCGTAGCTGCCACCCCCAGCGGCGGCGCTTCTTCCCGTGTTCAGGCGGCTCCCCCCCCCCGTACACGACTCCCAGAATCTGAGGCAGAGAGTGCTCCAGGCT
>NB501645:5:HGWTMAFXX:1:11103:11184:8622
ACACTGTACAAGGTACCCCTTTCTGGCTCTCCCATTTCCTGAGACCACAGAGAGAGGGGAGAAGCCTGGGATTGACAGAAGCTTCTGCCCACCTACTTTTCTTTCCTCAGATCATCCAGAAGTTCCTCAAGGGCCAGGACTTTATCTAATACCTCTGTGTGCTCCTCCTTGGTGCCTGGCGCATTACATTTTAC
>NB501645:5:HGWTMAFXX:1:11301:10796:19464
GGTATGGCTACACTGCCAACGCCAGGCCTGCTTAATTTAACTTAAGAATTTAATATGACTTAATATTAAAAGCTCACATTACCACAAAATACATACTTTCATGCATACGGTGACATTCAACATTCAATTGCCAGTGTTTATGTACTGTCTTTTGGTCAAGTTTCTTTAAAAAAGAAAAATGAAGAGGGAGGGAGAGAGAGAGAGAGAGAGAGGAAGAAAGAAAAGAAAAAAGAAAAATTGAAAGGAAAGGAAAG
>NB501645:5:HGWTMAFXX:1:11302:16611:12111
TTCCCATGCTGAGGCTTCCACTGATACCCAGGCTTCATCTGGGAAAAACATTTGAACTCCCAAGTTGGTGGGGCTGAGTCTCCCTGCATTGCCCCATGGAGAAGTGAGGAAGGCTCCCTTGGGCTGCAAGCTGTCTGCTTAGGAAGAACAGAGAAGGGGCCACTGTGAGAAGGATGTGGAGCCACAGAGCTGGCTGGAAAGGGGTCTTTTAAGGTTCAGAGTAAATGTAGCTATATTCCTCCTCCATCTCTCTCTTCATACAACT
>NB501645:5:HGWTMAFXX:1:11301:13978:13281
CCACTCTGAGCCTCAGATTCTTTGGTATAATACGGGGGATAATAATACCTCCACTTTGGGGTGGTTGTGATGACTCATTGAATGAAATGCAAAAATCTGTGTGAAATTGCCCAGCACACTGCCCAGAACTCAGTAGACATGCCTCACAAATGTTATTTCCTTTCACTGACCTCTTGTTTAATTTGAAGTTTTGTTAAGTGAATTTCTGTTAAGCAAGGGATCTCTGTTCTCAAATTACAGTAACTGCTACTT
>NB501645:5:HGWTMAFXX:1:21202:8901:19436
GTCTCGGCTCACTGCAACCTCCGCCTCCCAGGTTCAAGCAATTCTTCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCACGCGCCACCACACCCGGCTAATTTTTGTATTTTTAGTAGAGACAGGATTTCACCTTGTTGGCCAGGAT
>NB501645:5:HGWTMAFXX:1:11307:1925:5692
GATGGTCACTTAAAGAATCCTAGAAATTCCAATGTTCCTCAAGGGATTCAGGTTGCATTTTTTTTTATCTTGACGAGTCTTGCTCTGTCACCTAAGCTGGAGTGCAGTGGCATAATCTCGGCTCACAGCAACTTCCACCTCCAGGGTTCAAGTGATTCTCCTACCCTAGCCTCCTGAGTAGCTG
>NB501645:5:HGWTMAFXX:1:21301:16844:8800
ATAAATAACGTCTCGAAGAACAAAGGCCCAAGCTCCTCCTAAGCCACTTTTTATATCTTTCAGTAATAAACTAACAAACAGGTGATATATTTTAAGAATTCTGTGCTTCTTATAAACATTATTTGTTTCAGCTGCTTGCTCACATATGGCA
>NB501645:5:HGWTMAFXX:1:21210:4604:6108
AGCAGGAGCACATGTGGAGAGGGGCCTCCGAGGAAGCTGATTCGGTCAGTGCTGGGGTTTCCTTGCATATGTTTGCTCTGGGTACAGAGAGGACCCTGTGTAGTCAAAGGCAGCAGTGAGGTCTTGCCAAGCATGCCAGCGTGTCACACATC
>NB501645:5:HGWTMAFXX:2:11101:20294:3153
CTGCAAACTCTGCCTCCCAGGTTTACTTACACCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCACCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACTGTGTTAGCC
>NB501645:5:HGWTMAFXX:1:21305:26188:15905
GGAATTATCTGGTCCCTCAGTGCTTGCCTGCTGACCCAAAATGCTCTGGAAGTGTTTCTCAGCCATCTGTATTCTTTCCAACTAAAGGGTGGAAAAGGATCACCTACCCACTTCCTGAAAGCTTAGTGGGAAAGTAAGTAGAAAACTAAAACAAAGCCTGGTTCCAAGCATCCAGAAGGTACACCATTAGGTACACTGT
\ No newline at end of file
!LAUNCH: $VIDJIL_DIR/vidjil $VIDJIL_DEFAULT_OPTIONS -r 1 -y 0 -z 0 -g $VIDJIL_DIR/germline/homo-sapiens.g ./bug2107.fa
# Sequences are not reported as 'only V', but as 'too few V/J'
1: UNSEG only V .* 0
1: UNSEG too few V/J .* 15
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