Merge branch 'master' of github.com:bcantarel/school

medforomics · Sep 21, 2020 · 6f0a174 · 6f0a174
2 parents 96d9ecc + 6515c45
commit 6f0a174
Showing 1 changed file with 1 addition and 1 deletion.
diff --git a/goalConsensus.nf b/goalConsensus.nf
@@ -323,7 +323,7 @@ process pindel {
   file("${caseid}.pindel.genefusion.txt") into pindelgf
   script:
   """
-  bash ${repoDir}/process_scripts/variants/svcalling.sh -r $index_path -p $caseid -l ${index_path}/itd_genes.bed -a pindel -c $capturebed -g $params.snpeff_vers -f
+  bash ${repoDir}/process_scripts/variants/svcalling.sh -r $index_path -p $caseid -l ${index_path}/itd_genes.bed -a pindel -c ${index_path}/goal_core497.bed -g $params.snpeff_vers -f
   """
 }