Dear BraTS team, My submission (ID: 9714089) is INVALID. Could you please help to clarify the issue as show in the log file? STDERR: 2021-08-12T17:25:47.027314886Z 880ad9c3806b 2021-08-12 17:25:47,023 MainThread INFO cwltool: Resolved '/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validation-phase-workflow.cwl' to 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validation-phase-workflow.cwl' STDERR: 2021-08-12T17:25:52.804031406Z 880ad9c3806b 2021-08-12 17:25:52,803 MainThread WARNING cwltool: Workflow checker warning: STDERR: 2021-08-12T17:25:52.804066554Z brats-dream-challenge-infra-main/validation-phase-workflow.cwl:55:9: Source 'filepath' of type STDERR: 2021-08-12T17:25:52.804070770Z ["null", "File"] may be STDERR: 2021-08-12T17:25:52.804074775Z incompatible STDERR: 2021-08-12T17:25:52.804078305Z brats-dream-challenge-infra-main/validation-phase-workflow.cwl:135:9: with sink 'input_file' of STDERR: 2021-08-12T17:25:52.804081757Z type "File" STDERR: 2021-08-12T17:25:52.804085325Z brats-dream-challenge-infra-main/validation-phase-workflow.cwl:55:9: Source 'filepath' of type STDERR: 2021-08-12T17:25:52.804088636Z ["null", "File"] may be STDERR: 2021-08-12T17:25:52.804092186Z incompatible STDERR: 2021-08-12T17:25:52.804095362Z brats-dream-challenge-infra-main/validation-phase-workflow.cwl:75:9: with sink 'input_file' of STDERR: 2021-08-12T17:25:52.804099277Z type "File" STDERR: 2021-08-12T17:25:54.284486504Z 880ad9c3806b 2021-08-12 17:25:54,284 MainThread INFO toil: Running Toil version 4.1.0-5ad5e77d98e1456b4f70f5b00e688a43cdce2ebe. STDERR: 2021-08-12T17:25:55.499922970Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpf0qoq702/worker_log.txt STDERR: 2021-08-12T17:25:55.871159959Z 880ad9c3806b 2021-08-12 17:25:55,870 MainThread INFO toil.leader: 0 jobs are running, 0 jobs are issued and waiting to run STDERR: 2021-08-12T17:25:55.872129651Z 880ad9c3806b 2021-08-12 17:25:55,871 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_get_submission.cwl/instance-7496wems with job batch system ID: 1 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:25:55.872373137Z 880ad9c3806b 2021-08-12 17:25:55,872 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks-Workflows/cwl-tool-synapseclient/v1.4/cwl/synapse-get-tool.cwl#synapse-get' synapse kind-https_raw.githubusercontent.com_Sage-Bionetworks-Workflows_cwl-tool-synapseclient_v1.4_cwl_synapse-get-tool.cwl_synapse-get/instance-b6nxo5qx with job batch system ID: 2 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:25:55.872613604Z 880ad9c3806b 2021-08-12 17:25:55,872 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/set_permissions.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_set_permissions.cwl/instance-xe_28_sn with job batch system ID: 3 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:25:57.588393460Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmp94q0x71w/worker_log.txt STDERR: 2021-08-12T17:25:57.640620620Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmptk8y8o0m/worker_log.txt STDERR: 2021-08-12T17:25:57.805110013Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmptocgox_q/worker_log.txt STDERR: 2021-08-12T17:27:17.187257189Z 880ad9c3806b 2021-08-12 17:27:17,185 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_get_submission.cwl/instance-7496wems STDERR: 2021-08-12T17:27:21.875557261Z 880ad9c3806b 2021-08-12 17:27:21,875 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks-Workflows/cwl-tool-synapseclient/v1.4/cwl/synapse-get-tool.cwl#synapse-get' synapse kind-https_raw.githubusercontent.com_Sage-Bionetworks-Workflows_cwl-tool-synapseclient_v1.4_cwl_synapse-get-tool.cwl_synapse-get/instance-b6nxo5qx STDERR: 2021-08-12T17:27:21.876323597Z 880ad9c3806b 2021-08-12 17:27:21,876 MainThread INFO toil.leader: Issued job 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validate.cwl' validate.py kind-file_var_lib_docker_volumes_workflow_orchestrator_shared__data_48eaffea-7939-42d3-9abe-0ee5e60ac783_brats-dream-challenge-infra-main_validate.cwl/instance-k_z0d6lu with job batch system ID: 4 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:27:22.995866915Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpplr0l92h/worker_log.txt STDERR: 2021-08-12T17:27:24.071249233Z 880ad9c3806b 2021-08-12 17:27:24,070 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/set_permissions.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_set_permissions.cwl/instance-xe_28_sn STDERR: 2021-08-12T17:27:55.046189711Z 880ad9c3806b 2021-08-12 17:27:55,045 MainThread INFO toil.leader: Job ended: 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validate.cwl' validate.py kind-file_var_lib_docker_volumes_workflow_orchestrator_shared__data_48eaffea-7939-42d3-9abe-0ee5e60ac783_brats-dream-challenge-infra-main_validate.cwl/instance-k_z0d6lu STDERR: 2021-08-12T17:27:55.047298720Z 880ad9c3806b 2021-08-12 17:27:55,047 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl' python3 kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_validate_email.cwl/instance-le1x71pg with job batch system ID: 5 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:27:55.047667184Z 880ad9c3806b 2021-08-12 17:27:55,047 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_annotate_submission.cwl/instance-qio1gmus with job batch system ID: 6 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:27:56.253762843Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmp9z6dxodx/worker_log.txt STDERR: 2021-08-12T17:27:56.350686282Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpf7c_nzgo/worker_log.txt STDERR: 2021-08-12T17:28:51.348859315Z 880ad9c3806b 2021-08-12 17:28:51,348 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_annotate_submission.cwl/instance-qio1gmus STDERR: 2021-08-12T17:28:57.572837660Z 880ad9c3806b 2021-08-12 17:28:57,572 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl' python3 kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_validate_email.cwl/instance-le1x71pg STDERR: 2021-08-12T17:28:57.573462575Z 880ad9c3806b 2021-08-12 17:28:57,573 MainThread INFO toil.leader: Issued job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 with job batch system ID: 7 and cores: 1, disk: 1.0 G, and memory: 100.0 M STDERR: 2021-08-12T17:28:58.757578387Z INFO:toil.worker:Redirecting logging to /var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpzhpmx8j6/worker_log.txt STDERR: 2021-08-12T17:28:59.214559986Z 880ad9c3806b 2021-08-12 17:28:59,214 MainThread INFO toil.leader: Job ended: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 STDERR: 2021-08-12T17:28:59.215366363Z 880ad9c3806b 2021-08-12 17:28:59,215 MainThread WARNING toil.leader: The job seems to have left a log file, indicating failure: 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 STDERR: 2021-08-12T17:28:59.215911297Z 880ad9c3806b 2021-08-12 17:28:59,215 MainThread WARNING toil.leader: Log from job kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 follows: STDERR: 2021-08-12T17:28:59.215921646Z =========> STDERR: 2021-08-12T17:28:59.215925651Z INFO:toil.worker:---TOIL WORKER OUTPUT LOG--- STDERR: 2021-08-12T17:28:59.215944040Z INFO:toil:Running Toil version 4.1.0-5ad5e77d98e1456b4f70f5b00e688a43cdce2ebe. STDERR: 2021-08-12T17:28:59.215947549Z Failed to evaluate expression: STDERR: 2021-08-12T17:28:59.215950646Z Expression evaluation error: STDERR: 2021-08-12T17:28:59.215953839Z Expecting value: line 1 column 1 (char 0) STDERR: 2021-08-12T17:28:59.215956992Z script was: STDERR: 2021-08-12T17:28:59.215959998Z 01 "use strict"; STDERR: 2021-08-12T17:28:59.215963236Z 02 var inputs = { STDERR: 2021-08-12T17:28:59.215966263Z 03 "status": "INVALID", STDERR: 2021-08-12T17:28:59.215969369Z 04 "previous_annotation_finished": true, STDERR: 2021-08-12T17:28:59.215972363Z 05 "previous_email_finished": true STDERR: 2021-08-12T17:28:59.215975848Z 06 }; STDERR: 2021-08-12T17:28:59.215979196Z 07 var self = null; STDERR: 2021-08-12T17:28:59.215981926Z 08 var runtime = { STDERR: 2021-08-12T17:28:59.215984932Z 09 "cores": 1, STDERR: 2021-08-12T17:28:59.215988012Z 10 "ram": 100.0, STDERR: 2021-08-12T17:28:59.215991097Z 11 "tmpdirSize": 1024, STDERR: 2021-08-12T17:28:59.215994224Z 12 "outdirSize": 0.95367431640625, STDERR: 2021-08-12T17:28:59.215997341Z 13 "tmpdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/tmp37cz588j", STDERR: 2021-08-12T17:28:59.216001462Z 14 "outdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpzhpmx8j6/35897871-296b-49f0-9b78-ff814cb2b4f6/tp0enn11y/tmp-outvl566qr7" STDERR: 2021-08-12T17:28:59.216005948Z 15 }; STDERR: 2021-08-12T17:28:59.216008682Z 16 (function(){ STDERR: 2021-08-12T17:28:59.216011781Z 17 if(inputs.status == "INVALID"){ STDERR: 2021-08-12T17:28:59.216014894Z 18 throw 'invalid submission'; STDERR: 2021-08-12T17:28:59.216017849Z 19 } else { STDERR: 2021-08-12T17:28:59.216020527Z 20 return {finished: true}; STDERR: 2021-08-12T17:28:59.216023558Z 21 } STDERR: 2021-08-12T17:28:59.216026341Z 22 })() STDERR: 2021-08-12T17:28:59.216029605Z stdout was: '' STDERR: 2021-08-12T17:28:59.216032769Z stderr was: 'invalid submission' STDERR: 2021-08-12T17:28:59.216036002Z STDERR: 2021-08-12T17:28:59.216038989Z WARNING:cwltool:Failed to evaluate expression: STDERR: 2021-08-12T17:28:59.216042893Z Expression evaluation error: STDERR: 2021-08-12T17:28:59.216046153Z Expecting value: line 1 column 1 (char 0) STDERR: 2021-08-12T17:28:59.216049233Z script was: STDERR: 2021-08-12T17:28:59.216052205Z 01 "use strict"; STDERR: 2021-08-12T17:28:59.216055051Z 02 var inputs = { STDERR: 2021-08-12T17:28:59.216058226Z 03 "status": "INVALID", STDERR: 2021-08-12T17:28:59.216065303Z 04 "previous_annotation_finished": true, STDERR: 2021-08-12T17:28:59.216068592Z 05 "previous_email_finished": true STDERR: 2021-08-12T17:28:59.216071758Z 06 }; STDERR: 2021-08-12T17:28:59.216074952Z 07 var self = null; STDERR: 2021-08-12T17:28:59.216077911Z 08 var runtime = { STDERR: 2021-08-12T17:28:59.216081326Z 09 "cores": 1, STDERR: 2021-08-12T17:28:59.216084510Z 10 "ram": 100.0, STDERR: 2021-08-12T17:28:59.216088010Z 11 "tmpdirSize": 1024, STDERR: 2021-08-12T17:28:59.216091179Z 12 "outdirSize": 0.95367431640625, STDERR: 2021-08-12T17:28:59.216094415Z 13 "tmpdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/tmp37cz588j", STDERR: 2021-08-12T17:28:59.216098736Z 14 "outdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpzhpmx8j6/35897871-296b-49f0-9b78-ff814cb2b4f6/tp0enn11y/tmp-outvl566qr7" STDERR: 2021-08-12T17:28:59.216102766Z 15 }; STDERR: 2021-08-12T17:28:59.216105669Z 16 (function(){ STDERR: 2021-08-12T17:28:59.216108655Z 17 if(inputs.status == "INVALID"){ STDERR: 2021-08-12T17:28:59.216111978Z 18 throw 'invalid submission'; STDERR: 2021-08-12T17:28:59.216114909Z 19 } else { STDERR: 2021-08-12T17:28:59.216117788Z 20 return {finished: true}; STDERR: 2021-08-12T17:28:59.216120859Z 21 } STDERR: 2021-08-12T17:28:59.216123953Z 22 })() STDERR: 2021-08-12T17:28:59.216127440Z stdout was: '' STDERR: 2021-08-12T17:28:59.216130361Z stderr was: 'invalid submission' STDERR: 2021-08-12T17:28:59.216133020Z STDERR: 2021-08-12T17:28:59.216135771Z Traceback (most recent call last): STDERR: 2021-08-12T17:28:59.216138696Z File "/usr/local/lib/python3.6/site-packages/toil/worker.py", line 366, in workerScript STDERR: 2021-08-12T17:28:59.216142130Z job._runner(jobGraph=jobGraph, jobStore=jobStore, fileStore=fileStore, defer=defer) STDERR: 2021-08-12T17:28:59.216145389Z File "/usr/local/lib/python3.6/site-packages/toil/job.py", line 1392, in _runner STDERR: 2021-08-12T17:28:59.216148225Z returnValues = self._run(jobGraph, fileStore) STDERR: 2021-08-12T17:28:59.216151644Z File "/usr/local/lib/python3.6/site-packages/toil/job.py", line 1329, in _run STDERR: 2021-08-12T17:28:59.216155161Z return self.run(fileStore) STDERR: 2021-08-12T17:28:59.216158753Z File "/usr/local/lib/python3.6/site-packages/toil/cwl/cwltoil.py", line 937, in run STDERR: 2021-08-12T17:28:59.216162209Z raise cwltool.errors.WorkflowException(status) STDERR: 2021-08-12T17:28:59.216165599Z cwltool.errors.WorkflowException: permanentFail STDERR: 2021-08-12T17:28:59.216168562Z ERROR:toil.worker:Exiting the worker because of a failed job on host 880ad9c3806b STDERR: 2021-08-12T17:28:59.216175118Z WARNING:toil.jobGraph:Due to failure we are reducing the remaining retry count of job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 with ID kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 to 0 STDERR: 2021-08-12T17:28:59.216179847Z <========= STDERR: 2021-08-12T17:28:59.216844681Z 880ad9c3806b 2021-08-12 17:28:59,216 MainThread WARNING toil.leader: Job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 with ID kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 is completely failed STDERR: 2021-08-12T17:29:10.594254072Z 880ad9c3806b 2021-08-12 17:29:10,593 MainThread INFO toil.leader: Finished toil run with 7 failed jobs. STDERR: 2021-08-12T17:29:10.594352300Z 880ad9c3806b 2021-08-12 17:29:10,594 MainThread INFO toil.leader: Failed jobs at end of the run: 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validate.cwl' validate.py kind-file_var_lib_docker_volumes_workflow_orchestrator_shared__data_48eaffea-7939-42d3-9abe-0ee5e60ac783_brats-dream-challenge-infra-main_validate.cwl/instance-k_z0d6lu 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl' python3 kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_validate_email.cwl/instance-le1x71pg 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_get_submission.cwl/instance-7496wems 'CWLWorkflow' kind-CWLWorkflow/instance-bz9w10d5 'https://raw.githubusercontent.com/Sage-Bionetworks-Workflows/cwl-tool-synapseclient/v1.4/cwl/synapse-get-tool.cwl#synapse-get' synapse kind-https_raw.githubusercontent.com_Sage-Bionetworks-Workflows_cwl-tool-synapseclient_v1.4_cwl_synapse-get-tool.cwl_synapse-get/instance-b6nxo5qx 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_annotate_submission.cwl/instance-qio1gmus STDERR: 2021-08-12T17:29:10.609418131Z Traceback (most recent call last): STDERR: 2021-08-12T17:29:10.609444848Z File "/usr/local/bin/toil-cwl-runner", line 8, in STDERR: 2021-08-12T17:29:10.609448998Z sys.exit(main()) STDERR: 2021-08-12T17:29:10.609452127Z File "/usr/local/lib/python3.6/site-packages/toil/cwl/cwltoil.py", line 1691, in main STDERR: 2021-08-12T17:29:10.609455455Z outobj = toil.start(wf1) STDERR: 2021-08-12T17:29:10.609458525Z File "/usr/local/lib/python3.6/site-packages/toil/common.py", line 829, in start STDERR: 2021-08-12T17:29:10.609485421Z return self._runMainLoop(rootJobGraph) STDERR: 2021-08-12T17:29:10.609488930Z File "/usr/local/lib/python3.6/site-packages/toil/common.py", line 1120, in _runMainLoop STDERR: 2021-08-12T17:29:10.609500761Z jobCache=self._jobCache).run() STDERR: 2021-08-12T17:29:10.609504101Z File "/usr/local/lib/python3.6/site-packages/toil/leader.py", line 269, in run STDERR: 2021-08-12T17:29:10.609507704Z raise FailedJobsException(self.config.jobStore, self.toilState.totalFailedJobs, self.jobStore) STDERR: 2021-08-12T17:29:10.609512733Z toil.leader.FailedJobsException: The job store 'file:/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/tmpknf566ie' contains 7 failed jobs: 'file:///var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/brats-dream-challenge-infra-main/validate.cwl' validate.py kind-file_var_lib_docker_volumes_workflow_orchestrator_shared__data_48eaffea-7939-42d3-9abe-0ee5e60ac783_brats-dream-challenge-infra-main_validate.cwl/instance-k_z0d6lu, 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87, 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/validate_email.cwl' python3 kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_validate_email.cwl/instance-le1x71pg, 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/get_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_get_submission.cwl/instance-7496wems, 'CWLWorkflow' kind-CWLWorkflow/instance-bz9w10d5, 'https://raw.githubusercontent.com/Sage-Bionetworks-Workflows/cwl-tool-synapseclient/v1.4/cwl/synapse-get-tool.cwl#synapse-get' synapse kind-https_raw.githubusercontent.com_Sage-Bionetworks-Workflows_cwl-tool-synapseclient_v1.4_cwl_synapse-get-tool.cwl_synapse-get/instance-b6nxo5qx, 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/annotate_submission.cwl' challengeutils kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_annotate_submission.cwl/instance-qio1gmus STDERR: 2021-08-12T17:29:10.609519897Z Log from job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 follows: STDERR: 2021-08-12T17:29:10.609523670Z =========> STDERR: 2021-08-12T17:29:10.609527047Z INFO:toil.worker:---TOIL WORKER OUTPUT LOG--- STDERR: 2021-08-12T17:29:10.609530411Z INFO:toil:Running Toil version 4.1.0-5ad5e77d98e1456b4f70f5b00e688a43cdce2ebe. STDERR: 2021-08-12T17:29:10.609533700Z Failed to evaluate expression: STDERR: 2021-08-12T17:29:10.609536825Z Expression evaluation error: STDERR: 2021-08-12T17:29:10.609602893Z Expecting value: line 1 column 1 (char 0) STDERR: 2021-08-12T17:29:10.609606127Z script was: STDERR: 2021-08-12T17:29:10.609609108Z 01 "use strict"; STDERR: 2021-08-12T17:29:10.609612184Z 02 var inputs = { STDERR: 2021-08-12T17:29:10.609615238Z 03 "status": "INVALID", STDERR: 2021-08-12T17:29:10.609618421Z 04 "previous_annotation_finished": true, STDERR: 2021-08-12T17:29:10.609621711Z 05 "previous_email_finished": true STDERR: 2021-08-12T17:29:10.609624847Z 06 }; STDERR: 2021-08-12T17:29:10.609630798Z 07 var self = null; STDERR: 2021-08-12T17:29:10.609633822Z 08 var runtime = { STDERR: 2021-08-12T17:29:10.609636843Z 09 "cores": 1, STDERR: 2021-08-12T17:29:10.609639875Z 10 "ram": 100.0, STDERR: 2021-08-12T17:29:10.609643024Z 11 "tmpdirSize": 1024, STDERR: 2021-08-12T17:29:10.609646182Z 12 "outdirSize": 0.95367431640625, STDERR: 2021-08-12T17:29:10.609649356Z 13 "tmpdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/tmp37cz588j", STDERR: 2021-08-12T17:29:10.609653462Z 14 "outdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpzhpmx8j6/35897871-296b-49f0-9b78-ff814cb2b4f6/tp0enn11y/tmp-outvl566qr7" STDERR: 2021-08-12T17:29:10.609657587Z 15 }; STDERR: 2021-08-12T17:29:10.609660536Z 16 (function(){ STDERR: 2021-08-12T17:29:10.609675269Z 17 if(inputs.status == "INVALID"){ STDERR: 2021-08-12T17:29:10.609678496Z 18 throw 'invalid submission'; STDERR: 2021-08-12T17:29:10.609681436Z 19 } else { STDERR: 2021-08-12T17:29:10.609684289Z 20 return {finished: true}; STDERR: 2021-08-12T17:29:10.609687191Z 21 } STDERR: 2021-08-12T17:29:10.609690012Z 22 })() STDERR: 2021-08-12T17:29:10.609692827Z stdout was: '' STDERR: 2021-08-12T17:29:10.609695652Z stderr was: 'invalid submission' STDERR: 2021-08-12T17:29:10.609698556Z STDERR: 2021-08-12T17:29:10.609701393Z WARNING:cwltool:Failed to evaluate expression: STDERR: 2021-08-12T17:29:10.609704302Z Expression evaluation error: STDERR: 2021-08-12T17:29:10.609707189Z Expecting value: line 1 column 1 (char 0) STDERR: 2021-08-12T17:29:10.609710193Z script was: STDERR: 2021-08-12T17:29:10.609713094Z 01 "use strict"; STDERR: 2021-08-12T17:29:10.609716581Z 02 var inputs = { STDERR: 2021-08-12T17:29:10.609719493Z 03 "status": "INVALID", STDERR: 2021-08-12T17:29:10.609722468Z 04 "previous_annotation_finished": true, STDERR: 2021-08-12T17:29:10.609725560Z 05 "previous_email_finished": true STDERR: 2021-08-12T17:29:10.609728540Z 06 }; STDERR: 2021-08-12T17:29:10.609731370Z 07 var self = null; STDERR: 2021-08-12T17:29:10.609734153Z 08 var runtime = { STDERR: 2021-08-12T17:29:10.609737047Z 09 "cores": 1, STDERR: 2021-08-12T17:29:10.609751390Z 10 "ram": 100.0, STDERR: 2021-08-12T17:29:10.609754579Z 11 "tmpdirSize": 1024, STDERR: 2021-08-12T17:29:10.609757448Z 12 "outdirSize": 0.95367431640625, STDERR: 2021-08-12T17:29:10.609760677Z 13 "tmpdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/tmp37cz588j", STDERR: 2021-08-12T17:29:10.609767179Z 14 "outdir": "/var/lib/docker/volumes/workflow_orchestrator_shared/_data/48eaffea-7939-42d3-9abe-0ee5e60ac783/node-fe5b2277-1b53-4ad9-9298-2602e0b72dfd-16349ee66b573b0d6cff3dbc6912349f/tmpzhpmx8j6/35897871-296b-49f0-9b78-ff814cb2b4f6/tp0enn11y/tmp-outvl566qr7" STDERR: 2021-08-12T17:29:10.609771256Z 15 }; STDERR: 2021-08-12T17:29:10.609774126Z 16 (function(){ STDERR: 2021-08-12T17:29:10.609777118Z 17 if(inputs.status == "INVALID"){ STDERR: 2021-08-12T17:29:10.609780281Z 18 throw 'invalid submission'; STDERR: 2021-08-12T17:29:10.609783293Z 19 } else { STDERR: 2021-08-12T17:29:10.609786264Z 20 return {finished: true}; STDERR: 2021-08-12T17:29:10.609789261Z 21 } STDERR: 2021-08-12T17:29:10.609792285Z 22 })() STDERR: 2021-08-12T17:29:10.609795279Z stdout was: '' STDERR: 2021-08-12T17:29:10.609798124Z stderr was: 'invalid submission' STDERR: 2021-08-12T17:29:10.609801057Z STDERR: 2021-08-12T17:29:10.609803946Z Traceback (most recent call last): STDERR: 2021-08-12T17:29:10.609807038Z File "/usr/local/lib/python3.6/site-packages/toil/worker.py", line 366, in workerScript STDERR: 2021-08-12T17:29:10.609810414Z job._runner(jobGraph=jobGraph, jobStore=jobStore, fileStore=fileStore, defer=defer) STDERR: 2021-08-12T17:29:10.609813642Z File "/usr/local/lib/python3.6/site-packages/toil/job.py", line 1392, in _runner STDERR: 2021-08-12T17:29:10.609828092Z returnValues = self._run(jobGraph, fileStore) STDERR: 2021-08-12T17:29:10.609831369Z File "/usr/local/lib/python3.6/site-packages/toil/job.py", line 1329, in _run STDERR: 2021-08-12T17:29:10.609834597Z return self.run(fileStore) STDERR: 2021-08-12T17:29:10.609837602Z File "/usr/local/lib/python3.6/site-packages/toil/cwl/cwltoil.py", line 937, in run STDERR: 2021-08-12T17:29:10.609840806Z raise cwltool.errors.WorkflowException(status) STDERR: 2021-08-12T17:29:10.609843861Z cwltool.errors.WorkflowException: permanentFail STDERR: 2021-08-12T17:29:10.609846834Z ERROR:toil.worker:Exiting the worker because of a failed job on host 880ad9c3806b STDERR: 2021-08-12T17:29:10.609850603Z WARNING:toil.jobGraph:Due to failure we are reducing the remaining retry count of job 'https://raw.githubusercontent.com/Sage-Bionetworks/ChallengeWorkflowTemplates/v3.1/cwl/check_status.cwl' kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 with ID kind-https_raw.githubusercontent.com_Sage-Bionetworks_ChallengeWorkflowTemplates_v3.1_cwl_check_status.cwl/instance-_2ff1o87 to 0 STDERR: 2021-08-12T17:29:10.609855135Z <========= Thank you in advance.