configure tmpdir for bd rhapsody

openpipelines-bio · Jun 21, 2021 · 118ee50 · 118ee50
1 parent dc226d1
commit 118ee50
Showing 1 changed file with 3 additions and 0 deletions.
diff --git a/src/mapping/bd_rhapsody_wta/script.sh b/src/mapping/bd_rhapsody_wta/script.sh
@@ -121,5 +121,8 @@ fi
 
 cd $par_output
 
+# enable tempdir
+export TMPDIR=$(mktemp -d "$VIASH_TEMP/cwl-bd_rhapsody_wta-XXXXXX")
+
 echo "> cwl-runner$pars --no-container \"$resources_dir/rhapsody_wta_1.9.1_nodocker.cwl\" config.yml"
 eval cwl-runner$pars --no-container "$resources_dir/rhapsody_wta_1.9.1_nodocker.cwl" config.yml