Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions.

[muhyunkim12]

Hello, i'm using smrtlink with cromwell and analysis is going well but at specific time some issues came along and analysis started to fail but i think this is related to cromwell (honestly idk) please help..

2023-03-06 17:17:21,391 INFO - MaterializeWorkflowDescriptorActor [UUID(7e3f9b56)]: Parsing workflow as WDL 1.0 2023-03-06 17:17:22,096 INFO - MaterializeWorkflowDescriptorActor [UUID(7e3f9b56)]: Call-to-Backend assignments: pb_assembly_hifi.phasing_run -> Local, pb_assembly_hifi.build_db -> Local, pb_assembly_hifi.phasing_prepare -> Local, pb_assembly_hifi.purge_dups_map_merge -> Local, pb_assembly_hifi.polish_merge -> Local, pb_assembly_hifi.phasing_merge -> Local, prepare_input.dataset_filter -> Local, pb_assembly_hifi.generate_config -> Local, pb_assembly_hifi.purge_dups -> Local, pb_assembly_hifi.report_assembly2 -> Local, pb_assembly_hifi.separate_p_from_a -> Local, pb_assembly_hifi.ovl_filter -> Local, pb_assembly_hifi.polish_run -> Local, pb_assembly_hifi.cleanup_files -> Local, pb_assembly_hifi.polish_prepare -> Local, pb_assembly_hifi.ovl_asym_merge -> Local, pb_assembly_hifi.ovl_asym_run -> Local, pb_assembly_hifi.ovl_asym_prepare -> Local, pb_assembly_hifi.purge_dups_map_run -> Local, pb_assembly_hifi.assemble -> Local, pb_assembly_hifi.purge_dups_map_prepare -> Local 2023-03-06 17:17:22,218 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,221 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:24,401 INFO - WorkflowExecutionActor-7e3f9b56-790b-481b-a8d9-f24e88883ed5 [UUID(7e3f9b56)]: Starting pb_assembly_hifi.generate_config 2023-03-06 17:17:28,549 INFO - 13f1ea7a-4f35-41ea-9afa-f8fc84d083b0-SubWorkflowActor-SubWorkflow-prepare_input:-1:1 [UUID(13f1ea7a)]: Starting prepare_input.dataset_filter 2023-03-06 17:17:30,919 WARN - BackgroundConfigAsyncJobExecutionActor [UUID(7e3f9b56)pb_assembly_hifi.generate_config:NA:1]: Unrecognized runtime attribute keys: cpu, memory 2023-03-06 17:17:30,919 WARN - BackgroundConfigAsyncJobExecutionActor [UUID(13f1ea7a)prepare_input.dataset_filter:NA:1]: Unrecognized runtime attribute keys: cpu, memory

[natechols]

Please contact PacBio tech support for help with problems running Cromwell in SMRT Link. -Nat (PacBio software team)

On Mon, Mar 6, 2023 at 6:27 PM muhyunkim12 @.***> wrote:

Hello, i'm using smrtlink with cromwell and analysis is going well but at specific time some issues came along and analysis started to fail but i think this is related to cromwell (honestly idk) please help..

2023-03-06 17:17:21,391 INFO - MaterializeWorkflowDescriptorActor [UUID(7e3f9b56)]: Parsing workflow as WDL 1.0 2023-03-06 17:17:22,096 INFO - MaterializeWorkflowDescriptorActor [UUID(7e3f9b56)]: Call-to-Backend assignments: pb_assembly_hifi.phasing_run -> Local, pb_assembly_hifi.build_db -> Local, pb_assembly_hifi.phasing_prepare -> Local, pb_assembly_hifi.purge_dups_map_merge -> Local, pb_assembly_hifi.polish_merge -> Local, pb_assembly_hifi.phasing_merge -> Local, prepare_input.dataset_filter -> Local, pb_assembly_hifi.generate_config -> Local, pb_assembly_hifi.purge_dups -> Local, pb_assembly_hifi.report_assembly2 -> Local, pb_assembly_hifi.separate_p_from_a -> Local, pb_assembly_hifi.ovl_filter -> Local, pb_assembly_hifi.polish_run -> Local, pb_assembly_hifi.cleanup_files -> Local, pb_assembly_hifi.polish_prepare -> Local, pb_assembly_hifi.ovl_asym_merge -> Local, pb_assembly_hifi.ovl_asym_run -> Local, pb_assembly_hifi.ovl_asym_prepare -> Local, pb_assembly_hifi.purge_dups_map_run -> Local, pb_assembly_hifi.assemble -> Local, pb_assembly_hifi.purge_dups_map_prepare -> Local 2023-03-06 17:17:22,218 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,219 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,220 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:22,221 WARN - Local [UUID(7e3f9b56)]: Key/s [cpu, memory] is/are not supported by backend. Unsupported attributes will not be part of job executions. 2023-03-06 17:17:24,401 INFO - WorkflowExecutionActor-7e3f9b56-790b-481b-a8d9-f24e88883ed5 [UUID(7e3f9b56)]: Starting pb_assembly_hifi.generate_config 2023-03-06 17:17:28,549 INFO - 13f1ea7a-4f35-41ea-9afa-f8fc84d083b0-SubWorkflowActor-SubWorkflow-prepare_input 👎1 [UUID(13f1ea7a)]: Starting prepare_input.dataset_filter 2023-03-06 17:17:30,919 WARN - BackgroundConfigAsyncJobExecutionActor [UUID(7e3f9b56)pb_assembly_hifi.generate_config:NA:1]: Unrecognized runtime attribute keys: cpu, memory 2023-03-06 17:17:30,919 WARN - BackgroundConfigAsyncJobExecutionActor [UUID(13f1ea7a)prepare_input.dataset_filter:NA:1]: Unrecognized runtime attribute keys: cpu, memory

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