Mercurial > repos > ulfschaefer > filter_vcf
changeset 4:5dfc843979c2 draft
Uploaded
| author | ulfschaefer |
|---|---|
| date | Fri, 11 Dec 2015 10:07:49 -0500 |
| parents | 879d0f13a737 |
| children | 33669ce539f6 |
| files | filter_vcf.sh |
| diffstat | 1 files changed, 15 insertions(+), 0 deletions(-) [+] |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/filter_vcf.sh Fri Dec 11 10:07:49 2015 -0500 @@ -0,0 +1,15 @@ +#!/bin/bash + +OUTPUT=$1 +shift +VCF=$1 +shift +FILTERS=$@ + +FILTERS=$(echo -n $FILTERS | sed 's/ /,/g') +DIR="$( cd "$( dirname "${BASH_SOURCE[0]}" )" && pwd )" +export PATH=$PATH:$DIR +CMD="filter_vcf.py --vcf $VCF --filters $FILTERS --output $OUTPUT" + +echo "CMD: "$CMD +eval $CMD