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view filter_vcf.sh @ 1:c7c10abccd6e draft

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author ulfschaefer
date Wed, 20 Apr 2016 06:55:39 -0400
parents 99ff94f3d11f
children
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#!/bin/bash

echo $@

OUTPUT=$1
shift
VCF=$1
shift
FILTERS=$@

FILTERS=$(echo -n $FILTERS | sed 's/ /,/g')

CMD="phenix.py filter_vcf --vcf $VCF --filters $FILTERS --output $OUTPUT"

echo "CMD: "$CMD
eval $CMD