Merge branch 'drop-report-aggregation' into fix-cloud

PGScatalog · Feb 28, 2024 · fbf9b84 · fbf9b84
2 parents 0af97f8 + cc18006
commit fbf9b84
Showing 1 changed file with 4 additions and 2 deletions.
diff --git a/modules/local/score_report.nf b/modules/local/score_report.nf
@@ -33,8 +33,10 @@ process SCORE_REPORT {
     def args = task.ext.args ?: ''
     run_ancestry = params.run_ancestry ? true : false
     """
-    export DENO_DIR=\$(mktemp -d)
-    export XDG_CACHE_HOME=\$(mktemp -d)
+    cp $projectDir/assets/report/report.qmd .
+    mkdir quartotempdir
+    export DENO_DIR=\$(mktemp -d --tmpdir=quartotempdir)
+    export XDG_CACHE_HOME=\$(mktemp -d --tmpdir=quartotempdir)
 
     echo $workflow.commandLine > command.txt
     echo "keep_multiallelic: $params.keep_multiallelic" > params.txt