Mercurial > repos > jpayne > cfsan_qaqc

view qa_core/qa_core.sh @ 0:dafec28bd37e

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planemo upload
author jpayne
date Tue, 08 May 2018 18:54:20 -0400
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#!/bin/bash

#export MODULEPATH=/etc/modulefiles:/opt/mellanox/bupc/2.2/modules:/sw/Modules/
#export GIT_SSH_COMMAND="ssh -i /home/justin.payne/.ssh/deploy_key_dev"

module load qa-core
module load kraken
module load git
#module load fastqc
module load pandas
module load SeqSero

GIT_SSH_COMMAND="ssh -qi /sw/apps/qa-core/deploy_key_dev" git -C /sw/apps/qa-core/ pull origin deployment --quiet 2>&1>/dev/null
TEMP=/isilon/gpfs_scratch python /sw/apps/qa-core/gims_core.py $1 -p 8