CI
35f315e911
Build pipeline: viash-hub.biobox.main-xrs9m
Source commit: 52f44f5049
Source message: Add agat sp add introns (#104)
* add help
* add config
* add run script
* add test data and expected output + script to fetch them
* add tests
* update changelog
* Update src/agat/agat_sp_add_introns/config.vsh.yaml
Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
* Update src/agat/agat_sp_add_introns/config.vsh.yaml
Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
* Update src/agat/agat_sp_add_introns/config.vsh.yaml
Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
* # create temporary directory and clean up on exit
* add set -e to test
* fix create temporary directory
* fix create temporary directory
* add set -eo pipefail to test
* add set -eo pipefail to script
* remove file added by mistake
* update --config description
* cleanup changelog
* cleanup changelog
* minor changes to config
* reduce test data size
---------
Co-authored-by: Robrecht Cannoodt <rcannood@gmail.com>
Co-authored-by: Dries Schaumont <5946712+DriesSchaumont@users.noreply.github.com>
Co-authored-by: Emma Rousseau <emmarou1@icloud.com>
🌱📦 biobox
A collection of bioinformatics tools for working with sequence data.
Objectives
- Reusability: Facilitating the use of components across various projects and contexts.
- Reproducibility: Ensuring that components are reproducible and can be easily shared.
- Best Practices: Adhering to established standards in software development and bioinformatics.
Contributing
We encourage contributions from the community. To contribute:
- Fork the Repository: Start by forking this repository to your account.
- Develop Your Component: Create your Viash component, ensuring it aligns with our best practices (detailed below).
- Submit a Pull Request: After testing your component, submit a pull request for review.
Contribution Guidelines
The contribution guidelines describes which steps you should follow to contribute a component to this repository.
- Find a component to contribute
- Add config template
- Fill in the metadata
- Find a suitable container
- Create help file
- Create or fetch test data
- Add arguments for the input files
- Add arguments for the output files
- Add arguments for the other arguments
- Add a Docker engine
- Write a runner script
- Create test script
- Create a
/var/software_versions.txtfile
See the CONTRIBUTING file for more details.
Support and Community
For support, questions, or to join our community:
- Issues: Submit questions or issues via the GitHub issue tracker.
- Discussions: Join our discussions via GitHub Discussions.
License
This repository is licensed under an MIT license. See the LICENSE file for details.