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Commit 7274abde authored by not populated not populated's avatar not populated not populated
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Fixed SLURM to SBATCH, short project id generation

parent a99e6627
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1 merge request!3Ultra 2 SOP/doc updates
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submit_trio_wes_project_checksums.sh
+ 8
− 6
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#!/bin/bash #!/bin/bash
#SLURM --cpus-per-task=1 #SBATCH --cpus-per-task=1
#SLURM --mem=2GB #SBATCH --mem=2GB
#SLURM --time=6:00:00 #SBATCH --time=6:00:00
#SLURM --job-name=trio_whole_exome_project_checksums #SBATCH --job-name=trio_whole_exome_project_checksums
#SLURM --output=trio_whole_exome_project_checksums.%A.out #SBATCH --output=trio_whole_exome_project_checksums.%A.out
#SLURM --error=trio_whole_exome_project_checksums.%A.err #SBATCH --error=trio_whole_exome_project_checksums.%A.err
# Expects environment variables to be set # Expects environment variables to be set
# PROJECT_ID - e.g. 12345_LastnameFirstname # PROJECT_ID - e.g. 12345_LastnameFirstname
...@@ -15,6 +15,8 @@ source $CONFIG_SH ...@@ -15,6 +15,8 @@ source $CONFIG_SH
# calculate checksums on all files for this project except the families directory # calculate checksums on all files for this project except the families directory
SHORT_PROJECT_ID=`echo $PROJECT_ID | cut -f 1 -d '_'`
cd $OUTPUT_DIR/${SHORT_PROJECT_ID}_${VERSION} cd $OUTPUT_DIR/${SHORT_PROJECT_ID}_${VERSION}
rm md5sum.txt 2> /dev/null rm md5sum.txt 2> /dev/null
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