user_guide

The CWL v1.0 - v1.2 user guide

https://github.com/common-workflow-language/user_guide

Science Score: 64.0%

This score indicates how likely this project is to be science-related based on various indicators:

  • CITATION.cff file
    Found CITATION.cff file
  • codemeta.json file
    Found codemeta.json file
  • .zenodo.json file
    Found .zenodo.json file
  • DOI references
  • Academic publication links
    Links to: zenodo.org
  • Committers with academic emails
    13 of 109 committers (11.9%) from academic institutions
  • Institutional organization owner
  • JOSS paper metadata
  • Scientific vocabulary similarity
    Low similarity (8.8%) to scientific vocabulary

Keywords

common-workflow-language cwl workflow workflows

Keywords from Contributors

bootstrapping prediction auroc carpentries-incubator data-leakage english lesson pre-alpha training ansible
Last synced: 4 months ago · JSON representation ·

Repository

The CWL v1.0 - v1.2 user guide

Basic Info
  • Host: GitHub
  • Owner: common-workflow-language
  • License: other
  • Language: Common Workflow Language
  • Default Branch: main
  • Homepage: http://www.commonwl.org/user_guide/
  • Size: 18.5 MB
Statistics
  • Stars: 43
  • Watchers: 29
  • Forks: 66
  • Open Issues: 94
  • Releases: 5
Topics
common-workflow-language cwl workflow workflows
Created over 8 years ago · Last pushed 4 months ago
Metadata Files
Readme Contributing License Code of conduct Citation Authors Zenodo

README.md

DOI for the latest version

CI Tests

Translation status

This is the source of the official user guide for the Common Workflow Language standards.

Releases are published at https://www.commonwl.org/user_guide/ from the release branch.

Preview of the next release is published at https://common-workflow-languageuser-guide.readthedocs.io/en/latest/ based upon the default branch (main) using the Read The Docs (RTD) service.

Original source: https://github.com/common-workflow-language/common-workflow-language/blob/a2a8a08b8c8d56f8f2ca6284ca4e9cbf23d19346/v1.0/UserGuide.yml

Contributing

We welcome all contributions to improve the materials! Maintainers will do their best to help you if you have any questions, concerns, or experience any difficulties along the way. To edit the user guide:

We'd like to ask you to familiarize yourself with our Contribution Guide.

Authors

A list of contributors to these materials can be found in AUTHORS

Citation

To cite these materials, please consult with CITATION

Owner

  • Name: Common Workflow Language
  • Login: common-workflow-language
  • Kind: organization

Citation (CITATION.md)

# Citation

To cite the Common Workflow Language project in a scholary work, please use:

Michael R. Crusoe, Sanne Abeln, Alexandru Iosup, Peter Amstutz, John Chilton, Nebojša Tijanić,
Hervé Ménager, Stian Soiland-Reyes, Bogdan Gavrilović, Carole Goble, and The CWL Community. 2022.
Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language.
Commun. ACM 65, 6 (June 2022), 54–63. https://doi.org/10.1145/3486897

```
@article{10.1145/3486897,
author = {Crusoe, Michael R. and Abeln, Sanne and Iosup, Alexandru and Amstutz, Peter and Chilton, John and Tijani\'{c}, Neboj\v{s}a and M\'{e}nager, Herv\'{e} and Soiland-Reyes, Stian and Gavrilovi\'{c}, Bogdan and Goble, Carole and Community, The CWL},
title = {Methods Included: Standardizing Computational Reuse and Portability with the Common Workflow Language},
year = {2022},
issue_date = {June 2022},
publisher = {Association for Computing Machinery},
address = {New York, NY, USA},
volume = {65},
number = {6},
issn = {0001-0782},
url = {https://doi.org/10.1145/3486897},
doi = {10.1145/3486897},
abstract = {Standardizing computational reuse and portability with the Common Workflow Language.},
journal = {Commun. ACM},
month = {may},
pages = {54–63},
numpages = {10}
}
```

To cite just the CWL standards themselves, please use the following inclusive of the DOI:

Amstutz, Peter; Crusoe, Michael R; Tijanić, Nebojša; Chapman, Brad;
Chilton, John; Heuer, Michael; Kartashov, Andrey; Kern, John; Leehr, Dan;
Ménager, Hervé; Nedeljkovich, Maya; Scales, Matt; Soiland-Reyes, Stian;
Stojanovic, Luka (2016): Common Workflow Language, v1.0. Specification,
Common Workflow Language working group. https://w3id.org/cwl/v1.0/
https://dx.doi.org/10.6084/m9.figshare.3115156.v2

```
@data{cwl,
  doi = {10.6084/m9.figshare.3115156.v2},
  url = {https://doi.org/10.6084/m9.figshare.3115156.v2},
  author = {Peter Amstutz; Michael R. Crusoe; Nebojša Tijanić; Brad Chapman;
John Chilton; Michael Heuer; Andrey Kartashov; John Kern; Dan Leehr;
Hervé Ménager; Maya Nedeljkovich; Matt Scales; Stian Soiland-Reyes;
Luka Stojanovic
 },
  publisher = {Figshare},
  institution = {Common Workflow Language working group},
  title = {Common Workflow Language, v1.0},
  year = {2016}
}
```

[//]: # (the above is from https://github.com/common-workflow-language/common-workflow-language/blob/main/CITATION.cff)

Our preferred DOI for the "CWL User Guide" is http://doi.org/10.5281/zenodo.840129

The latest DOI for the "CWL User Guide" is:
[![DOI](https://zenodo.org/badge/89621457.svg)](https://zenodo.org/badge/latestdoi/89621457)

GitHub Events

Total
  • Issue comment event: 1
  • Push event: 5
  • Pull request review event: 3
  • Pull request event: 11
  • Fork event: 1
  • Create event: 1
Last Year
  • Issue comment event: 1
  • Push event: 5
  • Pull request review event: 3
  • Pull request event: 11
  • Fork event: 1
  • Create event: 1

Committers

Last synced: 7 months ago

All Time
  • Total Commits: 1,038
  • Total Committers: 109
  • Avg Commits per committer: 9.523
  • Development Distribution Score (DDS): 0.852
Past Year
  • Commits: 7
  • Committers: 2
  • Avg Commits per committer: 3.5
  • Development Distribution Score (DDS): 0.143
Top Committers
Name Email Commits
Michael R. Crusoe m****e@g****m 154
Toby Hodges t****s@e****e 107
François Michonneau f****u@g****m 97
Greg Wilson g****n@t****m 95
Raniere Silva r****e@r****m 67
Weblate (bot) n****y@w****g 56
Bruno P. Kinoshita k****w 50
Maxim Belkin m****n@g****m 49
Tomoya Tanjo t****o@g****m 27
Abigail Cabunoc a****c@o****a 25
Raniere Silva r****e@i****r 24
stamper t****s@g****m 20
Manabu ISHII m****b@g****m 20
Ngumih Fien 7****e 19
Katrin Leinweber 9****r 15
dependabot[bot] 4****] 13
Stian Soiland-Reyes s****n@a****g 9
Robin Long r****1@h****k 9
Adrian Sharma s****n@g****m 9
Chris Erdmann c****s@c****g 8
Smyja a****9@g****m 6
Levai Mackenzie Ágbàrà 9****7 6
Konstantin Taletskiy k****n@t****m 6
Rémi Emonet r****t@r****e 5
khaiyra 4****a 4
rmccole r****e@g****u 4
Piotr Banaszkiewicz p****r@b****g 4
Oreoluwa Akinola 1****e 4
David Mawdsley d****y@m****k 4
zoe-translates z****a@c****m 4
and 79 more...

Issues and Pull Requests

Last synced: 9 months ago

All Time
  • Total issues: 41
  • Total pull requests: 158
  • Average time to close issues: about 1 year
  • Average time to close pull requests: 16 days
  • Total issue authors: 10
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  • Average comments per issue: 2.8
  • Average comments per pull request: 0.95
  • Merged pull requests: 133
  • Bot issues: 0
  • Bot pull requests: 13
Past Year
  • Issues: 5
  • Pull requests: 24
  • Average time to close issues: 13 days
  • Average time to close pull requests: 6 days
  • Issue authors: 5
  • Pull request authors: 4
  • Average comments per issue: 0.8
  • Average comments per pull request: 0.21
  • Merged pull requests: 20
  • Bot issues: 0
  • Bot pull requests: 7
Top Authors
Issue Authors
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Pull Request Authors
  • weblate (64)
  • mr-c (22)
  • dependabot[bot] (22)
  • tobyhodges (16)
  • tom-tan (14)
  • manabuishii (12)
  • sharmatime (10)
  • Fienne (4)
  • rmccole (4)
  • jasonlam0627 (3)
  • Mackenzie-OO7 (3)
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  • alexiswl (1)
Top Labels
Issue Labels
for miscellaneous page (3) good first issue (1)
Pull Request Labels
dependencies (22) python (16) github_actions (6)

Dependencies

.github/workflows/codeql.yml actions
  • actions/checkout v3 composite
  • github/codeql-action/analyze v2 composite
  • github/codeql-action/autobuild v2 composite
  • github/codeql-action/init v2 composite
.github/workflows/documentation-links.yaml actions
  • readthedocs/actions/preview v1 composite
.github/workflows/gh-pages.yaml actions
  • actions/cache v3 composite
  • actions/checkout v3 composite
  • actions/setup-python v4 composite
  • peaceiris/actions-gh-pages v3 composite
.github/workflows/ci-tests.yml actions
  • actions/checkout v3 composite
  • actions/setup-python v4 composite
pyproject.toml pypi