vg call throwing error from tabix
jcoliver opened this issue · 2 comments
REFFASTA="/home/data/reference/GRCh38_full_plus_hs38d1_analysis_set_minus_alts.fa"
VCFFILE="/home/devsci4/Graph_Genomes_CSHL/examples/vgInput.vcf.gz"
VGOUTFILE="/home/devsci4/Graph_Genomes_CSHL/examples/vgoutput.vg"
vg/bin/vg construct -r $REFFASTA -v $VCFFILE > $VGOUTFILE
Returns:
[tabix++] the index file is older than the vcf file. Please use '-f' to overwrite or reindex.
tabix –p vcd $VCFFILE
?
—Nancy
From: Jeff Oliver <notifications@github.commailto:notifications@github.com>
Reply-To: NCBI-Hackathons/Graph_Genomes_CSHL <reply@reply.github.commailto:reply@reply.github.com>
Date: Wednesday, October 26, 2016 at 5:36 PM
To: NCBI-Hackathons/Graph_Genomes_CSHL <Graph_Genomes_CSHL@noreply.github.commailto:Graph_Genomes_CSHL@noreply.github.com>
Subject: [NCBI-Hackathons/Graph_Genomes_CSHL] vg call throwing error from tabix (#9)
REFFASTA="/home/data/reference/GRCh38_full_plus_hs38d1_analysis_set_minus_alts.fa"
VCFFILE="/home/devsci4/Graph_Genomes_CSHL/examples/vgInput.vcf.gz"
VGOUTFILE="/home/devsci4/Graph_Genomes_CSHL/examples/vgoutput.vg"
vg/bin/vg construct -r $REFFASTA -v $VCFFILE > $VGOUTFILE
Returns:
[tabix++] the index file is older than the vcf file. Please use '-f' to overwrite or reindex.
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