Commit 4455193e authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

tests: add test

Fixes #2211.
parent 001637c2
!LAUNCH: $VIDJIL_DIR/vidjil -c segment $VIDJIL_DEFAULT_OPTIONS -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH,IGK,IGL $VIDJIL_DIR/data/multi-complete.fa ; cat out/multi-complete.vidjil | python $VIDJIL_DIR/tools/format_json.py -1
$ Segment the Ig recombinations
1:IGH SEG
1:IGK SEG
1:IGL SEG
$ Do not segment the TR recombinations
4:TR.* UNSEG
$ Report the unsegmented sequences in the json output
1: "germline": "zzz", "id": "TRA
1: "germline": "zzz", "id": "TRB
1: "germline": "zzz", "id": "TRG
1: "germline": "zzz", "id": "TRD
$ Count the unsegmented sequences in the json output
1: "zzz": .4.
$ Count the segmented sequences in the json output
1: "segmented": .3.
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