Commit 1ef91e19 authored by Mathieu Giraud's avatar Mathieu Giraud

tests: tdd, AIRR fields 'vj_in_frame' and 'stop_codon'

see #3569
parent 0aa91600
......@@ -29,9 +29,9 @@ $ One clone has 8 reads, two clones have 5 reads
1:IGH 8
2:IGH 5
$ Two clones are productive, no clone is labeled as non-productive
2:\tT\t
0:\tF\t
$ Two clones are productive (productive, vj_in_frame, NOT stop_codon), no clone is labeled as non-productive
2:\tT\tT\tF\t
0:\tF\t[FT]\t[FT]\t
$ v_call for 2 clones (-z 2)
2:IGHV
......
......@@ -17,4 +17,17 @@ $ Cause of unproductivity
:clones[0].seg.junction.unproductive: stop-codon
0:clones[1].seg.junction.unproductive
:clones[2].seg.junction.unproductive: out-of-frame
:clones[3].seg.junction.unproductive: too-short
\ No newline at end of file
:clones[3].seg.junction.unproductive: too-short
!OUTPUT_FILE: out/productive_stop_outframe.tsv
!LAUNCH: echo
!OPTIONS: --mod Jr
$ Clone 001, AIRR: NOT productive, vdj_in_frame, stop_codon
1:001.*\tF\tT\tT\t
$ Clone 002, AIRR: productive, vdj_in_frame, NOT stop_codon
1:002.*\tT\tT\tF\t
$ Clone 003, AIRR: NOT productive, NOT vdj_in_frame, NULL stop_codon
1:003.*\tF\tF\t\t
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