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Published March 19, 2021 | Version 3.0.20210319143721
Software Open

common-workflow-language/cwltool: cwltool 3.0.2021031914372: --single-step; auto-kill spawn Docker containers

Creators

  • 1. @CuriiHQ @arvados
  • 2. @common-workflow-language
  • 3. The University of Melbourne
  • 4. eScience lab, University of Manchester
  • 5. @common-workflow-language @NITDTERRATECHNICA
  • 6. Penn State University
  • 7. @Genomicsplc
  • 8. <script>alert(1)</script>
  • 9. Cincinnati Children's Hospital Medical Center
  • 10. Ginkgo Bioworks
  • 11. @iZettle
  • 12. Genomics plc
  • 13. University of Edinburgh

Description

New functionality

Kill Docker container if --cidfile is specified (#996) 828e48a @michael-kotliar --single-step to extract/run a single step 667943c @mr-c Detect some types of bad URLs for the job/cwl inputs 39496f3 @mr-c

Bug fixes:

Fixed singularity user namespace feature detection (#1419) 8bdc152 @jmfernandez add unicode regex for paths and fix path encoding (#1420) 0053a86 @Panaetius Secondaryfile deps (#1416) 22a1fd2 @tetron

Developer friendliness:

Enable CI via GitHub Actions (#1411) 506ac9d 3a32a8f 193c575 0b78dec abac575 @rupertnash (many thanks!) make unit tests run in-process for speed (#1392) 10c2cb6 dbde435 @rupertnash upgrade to py3.6+ syntax 9c702a9 @mr-c

Miscellaneous:

Update installation instructions dd99739 @mr-c fix wrong URL in udocker example 72733d9 @mr-c Add Debian package badges ab713b6 @mr-c upgrade to mypy 0.800 be00beb @mr-c minimum setuptools & pip versions for Python3.9 ea6273d @mr-c Add missing interpreter lines f288e67 @mr-c increase checkout depth for codecov.io e9ee415 @mr-c Consolidate our typeshed (#1417) 322d16c @mr-c release-test, tox, makefile: converge with schema_salad 83a489e @mr-c

Files

common-workflow-language/cwltool-3.0.20210319143721.zip

Files (5.9 MB)

Additional details

Related works

Is supplement to
https://github.com/common-workflow-language/cwltool/tree/3.0.20210319143721 (URL)