Commit 75460763 authored by Michael R. Crusoe's avatar Michael R. Crusoe 🏳️‍🌈
Browse files

New upstream version 3.14.0

parent bd1ef3f6
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.gitignore

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*.pyc
/src/*.egg-info
/build
/dist
/docs/_build
__pycache__
.eggs/
.cache/
/test-report.xml
/test-report-*.xml
/venv/
/src/toil/test/cwl/spec
/cwltool_deps/
/docs/generated_rst/
/docker/Dockerfile
/docker/toil-*.tar.gz
/src/toil/version.py

.travis.yml

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language: python
python:
  - "2.7"
install:
  - make prepare
  - make develop extras=[aws,google] # adding extras to avoid import errors
script:
  - TOIL_TEST_QUICK=True make test_offline

CODE_OF_CONDUCT.md

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# Contributor Covenant Code of Conduct

## Our Pledge

In the interest of fostering an open and welcoming environment, we as contributors and maintainers pledge to making participation in our project and our community a harassment-free experience for everyone, regardless of age, body size, disability, ethnicity, gender identity and expression, level of experience, nationality, personal appearance, race, religion, or sexual identity and orientation.

## Our Standards

Examples of behavior that contributes to creating a positive environment include:

* Using welcoming and inclusive language
* Being respectful of differing viewpoints and experiences
* Gracefully accepting constructive criticism
* Focusing on what is best for the community
* Showing empathy towards other community members

Examples of unacceptable behavior by participants include:

* The use of sexualized language or imagery and unwelcome sexual attention or advances
* Trolling, insulting/derogatory comments, and personal or political attacks
* Public or private harassment
* Publishing others' private information, such as a physical or electronic address, without explicit permission
* Other conduct which could reasonably be considered inappropriate in a professional setting

## Our Responsibilities

Project maintainers are responsible for clarifying the standards of acceptable behavior and are expected to take appropriate and fair corrective action in response to any instances of unacceptable behavior.

Project maintainers have the right and responsibility to remove, edit, or reject comments, commits, code, wiki edits, issues, and other contributions that are not aligned to this Code of Conduct, or to ban temporarily or permanently any contributor for other behaviors that they deem inappropriate, threatening, offensive, or harmful.

## Scope

This Code of Conduct applies both within project spaces and in public spaces when an individual is representing the project or its community. Examples of representing a project or community include using an official project e-mail address, posting via an official social media account, or acting as an appointed representative at an online or offline event. Representation of a project may be further defined and clarified by project maintainers.

## Enforcement

Instances of abusive, harassing, or otherwise unacceptable behavior may be reported by contacting the project team at bd2k-genomics@googlegroups.com. The project team will review and investigate all complaints, and will respond in a way that it deems appropriate to the circumstances. The project team is obligated to maintain confidentiality with regard to the reporter of an incident. Further details of specific enforcement policies may be posted separately.

Project maintainers who do not follow or enforce the Code of Conduct in good faith may face temporary or permanent repercussions as determined by other members of the project's leadership.

## Attribution

This Code of Conduct is adapted from the [Contributor Covenant][homepage], version 1.4, available at [http://contributor-covenant.org/version/1/4][version]

[homepage]: http://contributor-covenant.org
[version]: http://contributor-covenant.org/version/1/4/

CONTRIBUTING.md

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Contribution Guidelines
=======================

Before proposing a pull request, please read our [Contributor's Guide][1].

  [1]: https://toil.readthedocs.io/en/latest/contributing/contributing.html#contributing "Toil Contributor's Guide"

LICENSE.txt

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Copyright (C) 2011-15 by UCSC Computational Genomics Lab

Contributors: Benedict Paten, Hannes Schmidt, John Vivian,
Christopher Ketchum, Joel Armstrong and co-authors (benedictpaten@gmail.com)

Licensed under the Apache License, Version 2.0 (the "License");
you may not use this file except in compliance with the License.
You may obtain a copy of the License at

    http://www.apache.org/licenses/LICENSE-2.0

Unless required by applicable law or agreed to in writing, software
distributed under the License is distributed on an "AS IS" BASIS,
WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
See the License for the specific language governing permissions and
limitations under the License.
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