Merge pull request #175 from MaxUlysse/master_ISSUE_TEMPLATE

fix: add guidelines to PRs and issues

.github/CONTRIBUTING.md

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+# nf-core/modules: Contributing Guidelines
+
+Hi there!
+Many thanks for taking an interest in improving nf-core/modules.
+
+We try to manage the required tasks for nf-core/modules using GitHub issues, you probably came to this page when creating one.
+Please use the pre-filled template to save time.
+
+However, don't be put off by this template - other more general issues and suggestions are welcome!
+Contributions to the code are even more welcome ;)
+
+> If you need help using or modifying nf-core/modules then the best place to ask is on the nf-core Slack [#modules](https://nfcore.slack.com/channels/modules) channel ([join our Slack here](https://nf-co.re/join/slack)).
+
+## Contribution workflow
+
+If you'd like to write some code for nf-core/modules, the standard workflow is as follows:
+
+1. Check that there isn't already an issue about your idea in the [nf-core/modules issues](https://github.com/nf-core/modules/issues) to avoid duplicating work
+    * If there isn't one already, please create one so that others know you're working on this
+2. [Fork](https://help.github.com/en/github/getting-started-with-github/fork-a-repo) the [nf-core/modules repository](https://github.com/nf-core/modules) to your GitHub account
+3. When adding a module file, follow the [guidelines](https://github.com/nf-core/modules#adding-a-new-module-file)
+4. Ensure that [tests are working locally](https://github.com/nf-core/modules#running-tests-locally)
+5. Submit a Pull Request against the `master` branch and wait for the code to be reviewed and merged
+
+If you're not used to this workflow with git, you can start with some [docs from GitHub](https://help.github.com/en/github/collaborating-with-issues-and-pull-requests) or even their [excellent `git` resources](https://try.github.io/).
+
+## Tests
+
+When you create a pull request with changes, [GitHub Actions](https://github.com/features/actions) will run automatic tests.
+Typically, pull-requests are only fully reviewed when these tests are passing, though of course we can help out before then.
+
+### Module tests
+
+Each `nf-core/module` should be set up with a minimal set of test-data.
+`GitHub Actions` then runs the module on this data to ensure that it exits successfully.
+If there are any failures then the automated tests fail.
+These tests are run both with the latest available version of `Nextflow` and also the minimum required version that is stated in the pipeline code.
+
+## Getting help
+
+For further information/help, please consult the [nf-core/modules README](https://github.com/nf-core/modules) and don't hesitate to get in touch on the nf-core Slack [#modules](https://nfcore.slack.com/channels/modules) channel ([join our Slack here](https://nf-co.re/join/slack)).
+
+
+### Images and figures
+
+For overview images and other documents we follow the nf-core [style guidelines and examples](https://nf-co.re/developers/design_guidelines).

.github/ISSUE_TEMPLATE/bug_report.md

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+---
+name: Bug report
+about: Report something that is broken or incorrect
+title: "[BUG]"
+---
+
+<!--
+# nf-core/module bug report
+
+Hi there!
+
+Thanks for telling us about a problem with the modules.
+Please delete this text and anything that's not relevant from the template below:
+-->
+
+## Check Documentation
+
+I have checked the following places for your error:
+
+- [ ] [nf-core website: troubleshooting](https://nf-co.re/usage/troubleshooting)
+- [ ] [nf-core/module documentation](https://github.com/nf-core/modules/blob/master/README.md)
+
+## Description of the bug
+
+<!-- A clear and concise description of what the bug is. -->
+
+## Steps to reproduce
+
+Steps to reproduce the behaviour:
+
+1. Command line: <!-- [e.g. `nextflow run ...`] -->
+2. See error: <!-- [Please provide your error message] -->
+
+## Expected behaviour
+
+<!-- A clear and concise description of what you expected to happen. -->
+
+## Log files
+
+Have you provided the following extra information/files:
+
+- [ ] The command used to run the module
+- [ ] The `.nextflow.log` file <!-- this is a hidden file in the directory where you launched the module -->
+
+## System
+
+- Hardware: <!-- [e.g. HPC, Desktop, Cloud...] -->
+- Executor: <!-- [e.g. slurm, local, awsbatch...] -->
+- OS: <!-- [e.g. CentOS Linux, macOS, Linux Mint...] -->
+- Version <!-- [e.g. 7, 10.13.6, 18.3...] -->
+
+## Nextflow Installation
+
+- Version: <!-- [e.g. 19.10.0] -->
+
+## Container engine
+
+- Engine: <!-- [e.g. Conda, Docker, Singularity or Podman] -->
+- version: <!-- [e.g. 1.0.0] -->
+- Image tag: <!-- [e.g. nfcore/module:2.6] -->
+
+## Additional context
+
+<!-- Add any other context about the problem here. -->

.github/ISSUE_TEMPLATE/config.yml

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+blank_issues_enabled: false
+contact_links:
+  - name: Join nf-core
+    url: https://nf-co.re/join
+    about: Please join the nf-core community here
+  - name: "Slack #modules channel"
+    url: https://nfcore.slack.com/channels/modules
+    about: Discussion about nf-core/modules

.github/ISSUE_TEMPLATE/feature_request.md

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+---
+name: Feature request
+about: Suggest an idea for nf-core/modules
+title: "[FEATURE]"
+---
+
+<!--
+# nf-core/modules feature request
+
+Hi there!
+
+Thanks for suggesting a new feature for the modules!
+Please delete this text and anything that's not relevant from the template below:
+-->
+
+## Is your feature request related to a problem? Please describe
+
+<!-- A clear and concise description of what the problem is. -->
+
+<!-- e.g. [I'm always frustrated when ...] -->
+
+## Describe the solution you'd like
+
+<!-- A clear and concise description of what you want to happen. -->
+
+## Describe alternatives you've considered
+
+<!-- A clear and concise description of any alternative solutions or features you've considered. -->
+
+## Additional context
+
+<!-- Add any other context about the feature request here. -->

.github/PULL_REQUEST_TEMPLATE.md

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+<!--
+# nf-core/modules pull request
+
+Many thanks for contributing to nf-core/modules!
+
+Please fill in the appropriate checklist below (delete whatever is not relevant).
+These are the most common things requested on pull requests (PRs).
+
+Remember that PRs should be made against the master branch.
+
+Learn more about contributing: [CONTRIBUTING.md](https://github.com/nf-core/modules/tree/master/.github/CONTRIBUTING.md)
+-->
+
+## PR checklist
+
+- [ ] This comment contains a description of changes (with reason).
+- [ ] If you've fixed a bug or added code that should be tested, add tests!
+- [ ] If you've added a new tool - have you followed the module conventions in the [contribution docs](https://github.com/nf-core/modules/tree/master/.github/CONTRIBUTING.md)
+- [ ] If necessary, include test data in your PR.
+- [ ] Remove all TODO statements.
+- [ ] Emit the `<SOFTWARE>.version.txt` file.
+- [ ] Follow the naming conventions.
+- [ ] Follow the parameters requirements.
+- [ ] Follow the input/output options guidelines.
+- [ ] Add a resource `label`
+- [ ] Use BioConda and BioContainers if possible to fulfil software requirements.
+- Ensure that the test works with either Docker / Singularity. Conda CI tests can be quite flaky:
+    - [ ] `PROFILE=docker pytest --tag <MODULE> --symlink --wt 2 --keep-workflow-wd`
+    - [ ] `PROFILE=singularity pytest --tag <MODULE> --symlink --wt 2 --keep-workflow-wd`
+    - [ ] `PROFILE=conda pytest --tag <MODULE> --symlink --wt 2 --keep-workflow-wd`