Hi all,
We run the five-dollar-genome and then we got an error about failing to transfer file. It is not clear why? and how to solve it.
You can see the error message we received.
message: Task to_bam_workflow.BaseRecalibrator:15:1 failed. Job exit code 1. Check gs://fc-21bc010c-0149-41c7-aeb1-3cab7efbd77c/3fce21c5-4663-41c7-88b4-8a711899d271/germline_single_sample_workflow/59ca93f7-1bd7-4a37-88f9-3a86204dfbc0/call-to_bam_workflow/to_bam_workflow/cb7f30d2-9903-4152-b708-4928d063d2a6/call-BaseRecalibrator/shard-15/BaseRecalibrator-15-stderr.log for more information. PAPI error code 5. Message: 10: Failed to delocalize files: failed to copy the following files: "/mnt/local-disk/CPT51_Tumour.recal_data.csv -> gs://fc-21bc010c-0149-41c7-aeb1-3cab7efbd77c/3fce21c5-4663-41c7-88b4-8a711899d271/germline_single_sample_workflow/59ca93f7-1bd7-4a37-88f9-3a86204dfbc0/call-to_bam_workflow/to_bam_workflow/cb7f30d2-9903-4152-b708-4928d063d2a6/call-BaseRecalibrator/shard-15/CPT51_Tumour.recal_data.csv (cp failed: gsutil -q -m cp -L /var/log/google-genomics/out.log /mnt/local-disk/CPT51_Tumour.recal_data.csv gs://fc-21bc010c-0149-41c7-aeb1-3cab7efbd77c/3fce21c5-4663-41c7-88b4-8a711899d271/germline_single_sample_workflow/59ca93f7-1bd7-4a37-88f9-3a86204dfbc0/call-to_bam_workflow/to_bam_workflow/cb7f30d2-9903-4152-b708-4928d063d2a6/call-BaseRecalibrator/shard-15/CPT51_Tumour.recal_data.csv, command failed: CommandException: No URLs matched: /mnt/local-disk/CPT51_Tumour.recal_data.csv\nCommandException: 1 file/object could not be transferred.\n)"