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December 21, 2022 15:47
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add a script to collect all target files
a unique way of naming files so it is clear which one belongs to which process
-- grabbing the last 5 "/"-dilemeted fields seems unique enough + creating
/full_pathto include full paths if needediterate through the bucket dir to grab the files
-- downloading folders locally is inefficient. Each folder is +100GB.
-- instead I am only grabbing the files I want after generating their paths through
gsutil ls gs://BUCKET/.../**/monitoring.log-- copying files over takes about 15 min
automatically copy
pull_monitor_logs.shscript to/sharedadd
summary.logexample cmd:
bash /shared/pull_monitor_logs.sh --gs-path griffith-lab-test-layth/cromwell-executions/immuno --wf-id b6ef294d-080b-41cb-924e-ea53f6c54a2a