standardize the samplesheet for ampliseq to the other nf-core pipelines

[jenmuell]

Description of feature

The samplesheet of ampliseq looks different to the other nf-core pipelines. I would propose the standardization of the headers of the samplesheet in ampliseq for:

• sampleID to sample
• forwardReads to fastq_1
• reverseReads to fastq_2
• coordinate/adapt the testdata to support the old and new samplesheet layout

Maybe it would be good to have an adaption from tab to csv as well since with nf-core schema it already supports them.

[d4straub]

Thanks!

Maybe it would be good to have an adaption from tab to csv as well since with nf-core schema it already supports them.

--input should already accept tsv, csv, yml as detailed in https://nf-co.re/ampliseq/2.11.0/docs/usage/#samplesheet-input

[jenmuell]

Yes it does. I have tested it just to be sure before I implemented the autogeneration of the samplesheet in fetchngs as csv