Commit a36f0231 authored by Mathieu Giraud's avatar Mathieu Giraud

should-vdj-to-tap.py: launch vidjil with '-# #', keeeping spaces in fasta header

.should-vdj tests can now be given with spaces instead of underscores.
parent 86f6adc1
......@@ -28,7 +28,7 @@ from collections import defaultdict
import os
import argparse
VIDJIL_FINE = '{directory}/vidjil -X 50 -c segment -i -g {directory}/germline %s > %s'
VIDJIL_FINE = '{directory}/vidjil -X 50 -# "#" -c segment -i -g {directory}/germline %s > %s'
VIDJIL_KMER = '{directory}/vidjil -b out -c windows -uU -2 -i -g {directory}/germline %s > /dev/null ; cat out/out.segmented.vdj.fa out/out.unsegmented.vdj.fa > %s'
parser = argparse.ArgumentParser(formatter_class=argparse.RawTextHelpFormatter)
......
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