Update: July 26, 2019
This section of the forum is now closed; we are working on a new support model for WDL that we will share here shortly. For Cromwell-specific issues, see the Cromwell docs and post questions on Github.

Entire Google Cloud Storage bucket as File input?

Hello, is it possible to specify an entire bucket as the input to a Task?

task my_task {
  File bucket_path = "gs://test_data/raw_sequencing_output/fastq/"


I'm getting this error trying to do so:

Caused by: cromwell.backend.impl.jes.statuspolling.JesApiQueryManager$GoogleJsonException: paths used as inputs cannot be directories as they are the source of a 'cp' call. Got "gs://test_data/raw_sequencing_output/fastq/"

Is there any way this can be done?

Best Answer


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