Commit 0222fdee authored by Mathieu Giraud's avatar Mathieu Giraud

tests: add and update tests

parent 09e34e08
Pipeline #71967 passed with stages
in 170 minutes and 40 seconds
{
"first-reads": 10,
"min-reads": "1",
"max-consensus": "1",
"cdr3": true
}
!LAUNCH: $VIDJIL_DIR/$EXEC $VIDJIL_DEFAULT_OPTIONS -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH --config ../data/config.vidjil $VIDJIL_DATA/Stanford_S22.fasta
$ Analyze 10 reads (--first-reads)
: in 10 reads
$ Report a clone with one read (--min-reads)
1: Clone #001 .* 1 read
$ Compute a CDR3 (--cdr3)
1:CARVGSSWS#MLLIIW
$ Report only one clone (--max-consensus)
1: Clone #
......@@ -13,3 +13,14 @@ $ Segment two reads on IgVC/IgJC (second -g option)
1: IgVC .* -> .* 1
1: IgJC .* -> .* 1
!LAUNCH: cat out/config.vidjil
$ Both germlines are in out/config.vidjil
1: /germline"
1: /homo-sapiens-isotypes.g"
$ Check that some options are correctly reported
1: "max-consensus": "100"
1: "plain-index": false
1: "cdr3": false
......@@ -17,4 +17,4 @@ $ Display advanced options
: custom Cost
$ Correct number of options
52:^..-
53:^..-
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