comparison VCFToolsStats/vcfToolsStats.sh @ 0:3e19d0dfcf3e draft

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author dereeper
date Mon, 23 Mar 2015 05:57:27 -0400
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-1:000000000000 0:3e19d0dfcf3e
1 #!/bin/bash
2
3 tool_path=$(dirname $0)
4
5 filein=$1
6 fileout_label=$2
7 fileout_annot=$3
8 fileout_het=$4
9 fileout_imiss=$5
10 fileout_sum=$6
11 filelog=$7
12
13
14
15 perl $tool_path/VCFToolsStats.pl --input $filein --out $fileout_label
16
17 cp $fileout_label.annotation $fileout_annot ; rm $fileout_label.annotation
18 cp $fileout_label.het $fileout_het ; rm $fileout_label.het
19 cp $fileout_label.imiss $fileout_imiss ; rm $fileout_label.imiss
20 cp $fileout_label.TsTv.summary $fileout_sum ; rm $fileout_label.TsTv.summary
21
22 cp vcftools.log $filelog
23 rm vcftools.log