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Update bind-paths

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Kevin Brick 2021-12-20 11:29:09 -05:00 committed by GitHub
parent afb6fbb767
commit 82c7d553a7
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1 changed files with 6 additions and 2 deletions
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conf/nihbiowulf.config
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@ -34,5 +34,9 @@ singularity {
enabled = true enabled = true
autoMounts = true autoMounts = true
envWhitelist='https_proxy,http_proxy,ftp_proxy,DISPLAY,SLURM_JOBID' envWhitelist='https_proxy,http_proxy,ftp_proxy,DISPLAY,SLURM_JOBID'
runOptions = ' -B /lscratch -B /fdb/igenomes/ --env TMPDIR="/lscratch/$SLURM_JOBID" '
//As names change, the bind paths required may change too. To chack that everything is being captured:
//Run '. /usr/local/current/singularity/app_conf/sing_binds' to populate $SINGULARITY_BINDPATH
//Check that each folder in $SINGULARITY_BINDPATH is listed with -B in the runOptions below. If not, add it.
runOptions = ' -B /gs10 -B /gs11 -B /gs12 -B /gs4 -B /gs6 -B /gs7 -B /gs8 -B /gs9 -B /vf -B /spin1 -B /data -B /fdb -B /lscratch -B /fdb/igenomes/ --env TMPDIR="/lscratch/$SLURM_JOBID" '
} }