NLeSC/scriptcwl

Issues

• Saving workflow fails because print_pack is called with too many arguments

  #116 opened 4 years ago by dsmits
  2

• Upgrade cwltool

  #118 opened 4 years ago by dsmits
  0

• Importing WorkflowGenerator from scriptcwl does not work

  #115 opened 5 years ago by michaelbenayoun
  2

• Wildcard/regex input filename argument handling example ?

  #114 opened 6 years ago by nyue
  1

• Integrate cwldep?

  #113 opened 6 years ago by jvdzwaan
  0

• Warn when saving step in working dir

  #112 opened 6 years ago by jvdzwaan
  0

• Make CWL types constants for tab-completion

  #111 opened 6 years ago by jvdzwaan
  0

• Update cwltool

  #108 opened 6 years ago by jvdzwaan
  0

• Add documentation about running cwltool from jupyter notebooks

  #90 opened 7 years ago by jvdzwaan
  1

• Question about using scriptcwl

  #104 opened 6 years ago
  2

• Validate workflows created in tests

  #109 opened 6 years ago by jvdzwaan
  0

• Possible to add inputs of type array or record?

  #110 opened 6 years ago by allanbolipata
  2

• Improve save interface

  #87 opened 6 years ago by jvdzwaan
  0

• Remove inline saving of workflows

  #92 opened 6 years ago by jvdzwaan
  1

• scatter_method is optional when scattering over a single parameter

  #103 opened 6 years ago by jvdzwaan
  0

• Add MultipleInputFeatureRequirement

  #105 opened 6 years ago by jvdzwaan
  0

• Add option to return cwl string instead of writing it to file directly

  #86 opened 6 years ago by jvdzwaan
  0

• parse commandline flags/options when validating workflow

  #102 opened 6 years ago by SpheMakh
  2

• filenames with underscores raise a ValueError exception

  #100 opened 6 years ago by SpheMakh
  0

• Have a list of step outputs as an input

  #101 opened 6 years ago by SpheMakh
  0

• Add workflow input with CommandInputEnumSchema

  #99 opened 6 years ago by jvdzwaan
  1

• Pass on EnvVarRequirement

  #98 opened 6 years ago by jvdzwaan
  1

• Add motivation/design principles to documentation

  #97 opened 7 years ago by jvdzwaan
  0

• Warn when adding a workflow input with the same name as a previously added workflow input

  #96 opened 7 years ago by jvdzwaan
  1

• First load tools, then workflows to prevent warnings

  #94 opened 7 years ago by jvdzwaan
  1

• step with multiple outputs

  #95 opened 7 years ago by KerstenBreuer
  2

• Default value for boolean is incorrect

  #93 opened 7 years ago by jvdzwaan
  1

• Optionally add prefix when loading steps from directory

  #91 opened 7 years ago by jvdzwaan
  0

• Add wf.run()

  #89 opened 7 years ago by jvdzwaan
  0

• Expose to_dot() from cwltool to vizualize workflow in jupyter notebooks

  #88 opened 7 years ago by jvdzwaan
  0

• Recursive inline saving

  #84 opened 7 years ago by jvdzwaan
  4

• Adding a (sub)workflow twice leads to name clashes when saving inline

  #85 opened 7 years ago by jvdzwaan
  2

• Add wf.set_documentation() to documentation

  #81 opened 7 years ago by jvdzwaan
  0

• Duplicate ids when saving steps inline

  #82 opened 7 years ago by jvdzwaan
  0

• Saving workflow with inline steps fails when shebang is missing from stepfile

  #83 opened 7 years ago by jvdzwaan
  1

• Add more examples of workflows created with scriptcwl

  #80 opened 7 years ago by jvdzwaan
  1

• Create a conda package for scriptcwl

  #45 opened 7 years ago by arnikz
  6

• Work on use cases to test and improve scriptcwl

  #41 opened 7 years ago by arnikz
  0

• add method add_inputs to workflow generator

  #77 opened 7 years ago by jvdzwaan
  0

• Fixing pytest and paths for windows

  #74 opened 7 years ago by bldevries-escience
  0

• How to save workflows with steps from multiple directories?

  #38 opened 7 years ago by jvdzwaan
  4

• Warning messages on YAML C library during installation

  #44 opened 7 years ago by arnikz
  4

• Ignore example files in codacy

  #73 opened 7 years ago by jvdzwaan
  0

• add_multiply_example.cwl contains local paths

  #71 opened 7 years ago by rvanharen
  0

• Make understandable introductory workflow example to use in documentation

  #60 opened 7 years ago by jvdzwaan
  1

• Figure out cwl-runner (and add to documentation)

  #57 opened 7 years ago by jvdzwaan
  1

• Documentation: tips and tricks for working with cwl workflows

  #36 opened 7 years ago by jvdzwaan
  0

• importing scriptcwl gives lots of debug messages

  #43 opened 7 years ago by rvanharen
  1

• output_to_input() is difficult to understand

  #48 opened 7 years ago by LourensVeen
  1

• Clean up setup.py

  #37 opened 7 years ago by jvdzwaan
  0