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Python API: small option improvements

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This commit is contained in:
Celine Mercier
2019-09-21 12:08:36 +02:00
parent 9e72c8d16a
commit f0f7edf152
3 changed files with 18 additions and 7 deletions
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10
python/obitools3/commands/alignpairedend.pyx
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@ -45,17 +45,17 @@ def addOptions(parser):
type=float,
help="Minimum score for keeping alignments")
group.add_argument('-A', '--true-ali',
action="store_true", dest="alignpairedend:trueali",
default=False,
help="Performs gap free end alignment of sequences instead of using kmers to compute alignments (slower).")
# group.add_argument('-A', '--true-ali',
# action="store_true", dest="alignpairedend:trueali",
# default=False,
# help="Performs gap free end alignment of sequences instead of using kmers to compute alignments (slower).")
group.add_argument('-k', '--kmer-size',
action="store", dest="alignpairedend:kmersize",
metavar="#",
default=3,
type=int,
help="K-mer size for kmer comparisons, between 1 and 4 (not when using -A option; default: 3)")
help="K-mer size for kmer comparisons, between 1 and 4 (default: 3)")
la = QSolexaReverseAssemble()