Dereplicate

[chriswyatt1]

PR checklist

Closes #6232

• [x ] This comment contains a description of changes (with reason).
• [ NA] 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
• [x ] If necessary, include test data in your PR.
• [x ] Remove all TODO statements.
• [x ] Emit the versions.yml file.
• [x ] Follow the naming conventions.
• [x ] Follow the parameters requirements.
• [x ] 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:
  • For modules:
    • [x ] nf-core modules test <MODULE> --profile docker
    • [x ] nf-core modules test <MODULE> --profile singularity
    • [NO ] nf-core modules test <MODULE> --profile conda

[chriswyatt1]

Need to get raw data on test datasets, I cannot find any thing similar.
It needs to be a fasta file with headers that are repeated, so that it can combine them with a count

[SPPearce]

Could we make a fasta file on the fly, inside the test itself then?

[SPPearce]

For instance:

Channel.of(
   'ACGTCGT',
   'ACGTCGT',
   'ACGTCGT'
    )
   .collectFile(name: 'test.fasta', newLine: true)

[chriswyatt1]

Thanks Simon. I did try the way you suggested in your last comment. But it could not find test.fasta in the test when I ran it. Didn't manage to work it out, but found some acceptable into data from nf-core datasets, so ran from that instead.