Simon Pearce

Closing this until someone flags it as an issue again.

I would suggest that we go through the files in here, and provided they are being used in a module, we move them into a seperate category in the main...

There are currently about 50(!) modules with data in here: ``` adapterremoval/adapterremoval_adapterlist.txt ampcombi/ampcombi2/sample_1_ampcombi.tsv ampcombi/ampcombi2/sample_2_ampcombi.tsv ampcombi/general_amps.fasta ampcombi/general_amps.xlsx ampcombi/test_faa.tar.gz ampcombi/test_faa/sample_1.faa ampcombi/test_faa/sample_2.faa ampcombi/test_faa_0.2/sample_1.faa ampcombi/test_faa_0.2/sample_2.faa ampcombi/test_files.tar.gz ampcombi/test_gbk_0.2/sample_1.gbff ampcombi/test_gbk_0.2/sample_2.gbff amrfinderplus/test_output.tsv angsd/HapMapChrX.gz antismash/css.tar.gz antismash/detection.tar.gz antismash/modules.tar.gz baftest/test.baf.txt.gz...

Ideally the scsplit tool is put into bioconda, which would make the docker and singularity containers automatically. That would mean that scsplit would be present in the $PATH in all...

> > uld make the docker and singularity containers automatically. That would mean that scsplit would be present in the $PATH in all three container engines. > > If you...

@IreneRobles , @wxicu , are either of you still interested in this?

Can we automatically swap the test datasets paths too?

> @SPPearce can you elaborate / open an issue about this please? (Or point to an existing one) We have swapped the file paths used in tests from: `file(params.test_data['sarscov2']['genome']['genome_fasta'], checkIfExists:...

> Happy to try tackling some of the issues here. Is the plan to tackle this module by module?, or try to script some of the changes, before bulk checking...

If you ask on the nf-core slack `github-invitations` channel you can be added to the organisation and then the tests will run.