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Command line utilities for running workflows

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PyPI Python License Docs

Command line utilities for running workflows on Terra or Cromwell including:

  • Run a Terra method, and bulk add/delete methods on Terra.
  • Submit WDL workflow jobs to a sever running Cromwell, as well as check jobs’ status, abort jobs, and get logs.
  • Replace local file paths with remote Cloud (Google Cloud or Amazon AWS) bucket URIs, and automatically upload referenced files to Cloud buckets.
  • Parse monitoring log files to determine optimal instance type and disk space.

Important tools used by Altocumulus:

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