{"action":"created","comment":{"url":"https://api.github.com/repos/broadinstitute/cromwell/pulls/comments/35259280","id":35259280,"diff_hunk":"@@ -179,20 +183,31 @@ class JesBackend extends Backend with LazyLogging {\n       taskOutput.name -> rawValue\n     }.toMap\n \n-    status match {\n-      case Run.Success(created, started, finished) =>\n-        val taskOutputEvaluationFailures = outputMappings.filter {_._2.isFailure}\n-        if (taskOutputEvaluationFailures.isEmpty) {\n-          val unwrappedMap = outputMappings.collect { case (name, Success(wdlValue) ) => name -> wdlValue }\n-          Success(unwrappedMap)\n-        } else {\n-          val message = taskOutputEvaluationFailures.collect { case (name, Failure(e))  => s\"$name: $e\" }.mkString(\"\\n\")\n-          Failure(new Throwable(s\"Workflow ${workflowDescriptor.id}: $message\"))\n-        }\n-      case Run.Failed(created, started, finished, errorCode, errorMessage) =>\n-        Failure(new Throwable(s\"Workflow ${workflowDescriptor.id}: errorCode $errorCode for command: $commandLine. Message: $errorMessage\"))\n+    val warnAboutStderrLength: BigInteger = if(!call.failOnStderr) {\n+      BigInteger.valueOf(0)\n+    } else {\n+      JesConnection.storage.objectSize(GoogleCloudStoragePath(stdErrJesOutput(callGcsPath).gcs))","path":"src/main/scala/cromwell/engine/backend/jes/JesBackend.scala","position":68,"original_position":68,"commit_id":"b8aab6837b16c0cef3189eab812ad571d7bf5c1d","original_commit_id":"b8aab6837b16c0cef3189eab812ad571d7bf5c1d","user":{"login":"nh13","id":846274,"avatar_url":"https://avatars.githubusercontent.com/u/846274?v=3","gravatar_id":"","url":"https://api.github.com/users/nh13","html_url":"https://github.com/nh13","followers_url":"https://api.github.com/users/nh13/followers","following_url":"https://api.github.com/users/nh13/following{/other_user}","gists_url":"https://api.github.com/users/nh13/gists{/gist_id}","starred_url":"https://api.github.com/users/nh13/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/nh13/subscriptions","organizations_url":"https://api.github.com/users/nh13/orgs","repos_url":"https://api.github.com/users/nh13/repos","events_url":"https://api.github.com/users/nh13/events{/privacy}","received_events_url":"https://api.github.com/users/nh13/received_events","type":"User","site_admin":false},"body":"above we have ```stderr``` and here we have ```stdErr```.  I would prefer the former, but want consistency.","created_at":"2015-07-22T20:25:43Z","updated_at":"2015-07-22T20:25:43Z","html_url":"https://github.com/broadinstitute/cromwell/pull/112#discussion_r35259280","pull_request_url":"https://api.github.com/repos/broadinstitute/cromwell/pulls/112","_links":{"self":{"href":"https://api.github.com/repos/broadinstitute/cromwell/pulls/comments/35259280"},"html":{"href":"https://github.com/broadinstitute/cromwell/pull/112#discussion_r35259280"},"pull_request":{"href":"https://api.github.com/repos/broadinstitute/cromwell/pulls/112"}}},"pull_request":{"url":"https://api.github.com/repos/broadinstitute/cromwell/pulls/112","id":40607352,"html_url":"https://github.com/broadinstitute/cromwell/pull/112","diff_url":"https://github.com/broadinstitute/cromwell/pull/112.diff","patch_url":"https://github.com/broadinstitute/cromwell/pull/112.patch","issue_url":"https://api.github.com/repos/broadinstitute/cromwell/issues/112","number":112,"state":"open","locked":false,"title":"failOnStderr for JES backend","user":{"login":"cjllanwarne","id":13006282,"avatar_url":"https://avatars.githubusercontent.com/u/13006282?v=3","gravatar_id":"","url":"https://api.github.com/users/cjllanwarne","html_url":"https://github.com/cjllanwarne","followers_url":"https://api.github.com/users/cjllanwarne/followers","following_url":"https://api.github.com/users/cjllanwarne/following{/other_user}","gists_url":"https://api.github.com/users/cjllanwarne/gists{/gist_id}","starred_url":"https://api.github.com/users/cjllanwarne/starred{/owner}{/repo}","subscriptions_url":"https://api.github.com/users/cjllanwarne/subscriptions","organizations_url":"https://api.github.com/users/cjllanwarne/orgs","repos_url":"https://api.github.com/users/cjllanwarne/repos","events_url":"https://api.github.com/users/cjllanwarne/events{/privacy}","received_events_url":"https://api.github.com/users/cjllanwarne/received_events","type":"User","site_admin":false},"body":"JES half of the failOnStderr ticket.\r\n@geoffjentry <--- 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