Mercurial > repos > jpayne > cfsan_qaqc
annotate qa_core/qa_core.sh @ 1:d1f1b65cff7a
planemo upload
| author | jpayne |
|---|---|
| date | Tue, 08 May 2018 20:46:10 -0400 |
| parents | dafec28bd37e |
| children |
| rev | line source |
|---|---|
| jpayne@0 | 1 #!/bin/bash |
| jpayne@0 | 2 |
| jpayne@0 | 3 #export MODULEPATH=/etc/modulefiles:/opt/mellanox/bupc/2.2/modules:/sw/Modules/ |
| jpayne@0 | 4 #export GIT_SSH_COMMAND="ssh -i /home/justin.payne/.ssh/deploy_key_dev" |
| jpayne@0 | 5 |
| jpayne@0 | 6 module load qa-core |
| jpayne@0 | 7 module load kraken |
| jpayne@0 | 8 module load git |
| jpayne@0 | 9 #module load fastqc |
| jpayne@0 | 10 module load pandas |
| jpayne@0 | 11 module load SeqSero |
| jpayne@0 | 12 |
| jpayne@0 | 13 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 |
| jpayne@0 | 14 TEMP=/isilon/gpfs_scratch python /sw/apps/qa-core/gims_core.py $1 -p 8 |