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Add contigs in VCF header #25

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mfoll opened this issue Sep 25, 2015 · 1 comment · Fixed by #29
Closed

Add contigs in VCF header #25

mfoll opened this issue Sep 25, 2015 · 1 comment · Fixed by #29
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enhancement
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v0.2

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mfoll commented Sep 25, 2015

bcftools view wants it to subset samples (see samtools/bcftools#326)
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mfoll commented Sep 25, 2015

I forgot to think about the case of gzipped fasta in c8206fc... Need to first unzip it in this case. See http://unix.stackexchange.com/questions/77296/is-there-a-tool-that-combines-zcat-and-cat-transparently

@mfoll mfoll added this to the v0.2 milestone Sep 28, 2015
@mfoll mfoll self-assigned this Sep 28, 2015
mfoll added a commit that referenced this issue Sep 28, 2015
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Added fasta ref in collect_vcf to get contig size
b94648b 
fixes #25
@mfoll mfoll mentioned this issue Sep 28, 2015
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@mfoll mfoll closed this as completed in #29 Sep 28, 2015
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Add contigs in VCF header and solves a few bugs IARCbioinfo/needlestack
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