update test full profile

[atrigila]

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 pipeline conventions in the contribution docs
• If necessary, also make a PR on the nf-core/phaseimpute branch on the nf-core/test-datasets repository.
• Make sure your code lints (nf-core pipelines lint).
• Ensure the test suite passes (nextflow run . -profile test,docker --outdir <OUTDIR>).
• Check for unexpected warnings in debug mode (nextflow run . -profile debug,test,docker --outdir <OUTDIR>).
• Usage Documentation in docs/usage.md is updated.
• Output Documentation in docs/output.md is updated.
• CHANGELOG.md is updated.
• README.md is updated (including new tool citations and authors/contributors).

[nf-core-bot]

Warning

Newer version of the nf-core template is available.

Your pipeline is using an old version of the nf-core template: 3.5.2.
Please update your pipeline to the latest version.

For more documentation on how to update your pipeline, please see the nf-core documentation and Synchronisation documentation.

[LouisLeNezet]

I'm not sure about this modification.
Stitch and quilt are quite slow.
This will increase quite a lot the credit consumption on seqera.
Do we really need it ?

[atrigila]

We can inspect results, and if they are slow, then we have an opportunity to improve how inputs are processed when reaching these tools. Sarek launches even different tests with different tools on cloud: https://github.com/nf-core/sarek/blob/master/.github/workflows/cloudtest.yml. I can ask core or the community how they handle this so we can be sure :)

[LouisLeNezet]

I can ask core or the community how they handle this so we can be sure :)

If we could have someone experienced with big test to help us this would be great.
I never worked on cloud environment, and I don't want our test to be too expensive.

[LouisLeNezet]

If we can monitor it and stop it before it cost too much, it's all good for me.
I agree it would be nice to have a test with all the tools !