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DRAFT: Add nanomonsv/parse code
Adding a new module for nanomonsv/parse. This is an SV caller for tumour/normal data from ONT sequencing.
I have opened a PR for new test data https://github.com/nf-core/test-datasets/pull/664
Tests are passing with docker and the data locally currently.
PR checklist
Closes #2319
- [x] This comment contains a description of changes (with reason).
- [x] If you've fixed a bug or added code that should be tested, add tests!
- [x] If you've added a new tool - have you followed the module conventions in the contribution docs
- [x] If necessary, include test data in your PR.
- [x] Remove all TODO statements.
- [x] Emit the
versions.ymlfile. - [x] Follow the naming conventions.
- [ ] Follow the parameters requirements.
- [ ] Follow the input/output options guidelines.
- [x] Add a resource
label - [x] 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:
- [x]
PROFILE=docker pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware - [ ]
PROFILE=singularity pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware - [x]
PROFILE=conda pytest --tag <MODULE> --symlink --keep-workflow-wd --git-aware
- [x]
I need to update the path to the test-data. It currently points to my fork.
@nf-core-bot fix linting