<commit_before>#!/bin/bash

OUTDIR=data/variant_discovery_toil
LOGDIR=log/variant_discovery_toil

mkdir -p $OUTDIR
mkdir -p $LOGDIR
date
cwltoil --logDebug --outdir ./${OUTDIR} workflows/exomeseq-02-variantdiscovery.cwl samples/exomeseq-02-variantdiscovery.json > >(tee $LOGDIR/exomeseq-out-$(date +"%Y%m%d-%k%M%S").log) 2> >(tee $LOGDIR/exomeseq-err-$(date +"%Y%m%d-%k%M%S").log >&2)
date
<commit_msg>Add virtualenv sourcing to run-toil-exomeseq-variantdiscovery<commit_after>#!/bin/bash

OUTDIR=data/variant_discovery_toil
LOGDIR=log/variant_discovery_toil

mkdir -p $OUTDIR
mkdir -p $LOGDIR
date
. /home/ubuntu/toil/bin/activate
cwltoil --logDebug --outdir ./${OUTDIR} workflows/exomeseq-02-variantdiscovery.cwl samples/exomeseq-02-variantdiscovery.json > >(tee $LOGDIR/exomeseq-out-$(date +"%Y%m%d-%k%M%S").log) 2> >(tee $LOGDIR/exomeseq-err-$(date +"%Y%m%d-%k%M%S").log >&2)
date

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