Commit 35082058 authored by Mathieu Giraud's avatar Mathieu Giraud

tests: testing options -a, -o, -u, -U, -v

parent a65617f5
!LAUNCH: ../../vidjil -d -r 5 -o out2 -u -U -v -G ../../germline/IGH ../../data/Stanford_S22.fasta ; tail out2/Stanford_S22.segmented.vdj.fa out2/Stanford_S22.unsegmented.fa
# Testing uncommon and debug options
$ verbose (-v)
2:auditioned sequences
$ segmented.fa (-U)
1:>lcl.FLN1FA001BCDD7.1. .* seed
$ unsegmented.fa (-u)
1:>lcl.FLN1FA002PX5D6.1.
!LAUNCH: ../../vidjil -d -r 5 -a -G ../../germline/IGH ../../data/Stanford_S22.fasta ; cat out/seq/clone.fa-2
# Testing detailed clone output (-a)
$ Detailed clone output (out/seq/clone.fa-2), germline
1:>IGHV1-8.01
1:>IGHD3-22.01
1:>IGHJ6.03
$ Detailed clone output (out/seq/clone.fa-2), reads
1:>lcl.FLN1FA002TBW9H.1
1:>lcl.FLN1FA002TAWKB.1
1:>lcl.FLN1FA001EFSW3.1
1:>lcl.FLN1FA001ENA4H.1
1:>lcl.FLN1FA001B2WWF.1
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