use bkill -d to mark the LSF job as done

cgoina · cgoina · commit 5478c635203e · 2026-02-10T12:42:10.000-05:00
diff --git a/modules/nextflow/src/main/groovy/nextflow/executor/LsfExecutor.groovy b/modules/nextflow/src/main/groovy/nextflow/executor/LsfExecutor.groovy
@@ -189,7 +189,7 @@ class LsfExecutor extends AbstractGridExecutor implements TaskArrayExecutor {
     }
 
     @Override
-    protected List<String> getKillCommand() { ['bkill'] }
+    protected List<String> getKillCommand() { ['bkill', '-d'] }
 
     @Override
     protected List<String> queueStatusCommand( queue ) {

Original file line number	Diff line number	Diff line change
`@@ -189,7 +189,7 @@ class LsfExecutor extends AbstractGridExecutor implements TaskArrayExecutor {`
`189`	`189`	`}`
`190`	`190`
`191`	`191`	`@Override`
`192`		`- protected List<String> getKillCommand() { ['bkill'] }`
	`192`	`+ protected List<String> getKillCommand() { ['bkill', '-d'] }`
`193`	`193`
`194`	`194`	`@Override`
`195`	`195`	`protected List<String> queueStatusCommand( queue ) {`