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vidjil
vidjil
Commits
7305d28a
Commit
7305d28a
authored
Jun 18, 2015
by
Mikaël Salson
Browse files
should-vdj-to-tap: Process at most 50 sequences in a file, with FineSegmenter
parent
1b52f8c5
Changes
1
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algo/tests/should-vdj-to-tap.py
View file @
7305d28a
...
...
@@ -26,7 +26,7 @@ from subprocess import Popen, PIPE, STDOUT
import
os
import
argparse
VIDJIL_FINE
=
'{directory}/vidjil -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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