Commit 715109cb authored by Mathieu Giraud's avatar Mathieu Giraud
Browse files

tests: there may be >3 clones here

see #4665
parent 48d9c8ad
!LAUNCH: $VIDJIL_DIR/$EXEC -c clones -z 2 -3 -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH $VIDJIL_DATA/Stanford_S22.fasta > /dev/null ; cat out/Stanford_S22.tsv
$ There are four lines, all with tabs
4:
4:\t
$ There are at least four lines, all with tabs
>4:
>4:\t
$ The required AIRR fields are present
:v_call d_call j_call
......@@ -22,12 +22,12 @@ $ Optional AIRR fields
$ Custom AIRR fields
:warnings
$ Three clones on IGH
3:IGH
$ At least three clones on IGH
>3:IGH
$ One clone has 8 reads, two clones have 5 reads
1:IGH 8
2:IGH 5
>2:IGH 5
$ Two clones are productive (productive, vj_in_frame, NOT stop_codon), no clone is labeled as non-productive
2:\tT\tT\tF\t
......
!LAUNCH: $VIDJIL_DIR/$EXEC -z 0 -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH $VIDJIL_DATA/Stanford_S22.fasta ; cat out/Stanford_S22.vidjil
$ There are three clones in the .vidjil
3:"id"
$ There are at least three clones in the .vidjil
>3:"id"
$ Correct output message
1:Vidjil web application
......@@ -22,8 +22,8 @@ $ There is no deprecated .vdj.fa file
!LAUNCH: rm out/Stanford_S22.tsv ; $LAUNCHER $VIDJIL_DIR/$EXEC $EXTRA -z 0 -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH $VIDJIL_DATA/Stanford_S22.fasta > /dev/null ; touch out/Stanford_S22.tsv ; cat out/Stanford_S22.tsv
$ The AIRR .tsv file has four lines
4:
$ The AIRR .tsv file has at least four lines
>4:
!LAUNCH: rm out/Stanford_S22.tsv ; $LAUNCHER $VIDJIL_DIR/$EXEC $EXTRA --no-airr -z 0 -g $VIDJIL_DIR/germline/homo-sapiens.g:IGH $VIDJIL_DATA/Stanford_S22.fasta > /dev/null ; touch out/Stanford_S22.tsv ; cat out/Stanford_S22.tsv
......
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