Merge pull request #166 from RoanKanninga/master

added searching in all prm when searching for ConcordanceCheck ngs vcfs
molgenis · Feb 13, 2020 · 26c36d3 · 26c36d3
2 parents ae9c5e2 + 6db2a1a
commit 26c36d3
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/bin/ConcordanceMakeSamplesheet.sh b/bin/ConcordanceMakeSamplesheet.sh
@@ -176,7 +176,7 @@ module load "${bedToolsVersion}"
 module list
 
 concordanceDir="/groups/${NGSGROUP}/${TMP_LFS}/concordance/"
-ngsVcfDirPRM="/groups/${NGSGROUP}/${PRM_LFS}/concordance/ngs/"
+ngsVcfDirPRM="/groups/${NGSGROUP}/prm0*/concordance/ngs/"
 arrayVcfDirPRM="/groups/${ARRAYGROUP}/${PRM_LFS}/concordance/array/"
 
 for vcfFile in $(ssh "${HOSTNAME_PRM}" "find ${ngsVcfDirPRM} \( -type f -o -type l \) -name *final.vcf.gz")