Logic for variable input types

[chriswyatt1]

It should work for genome only if there are only genome, or genome_annotation if only genomes with annotations.

But we also need to test how the pipeline deals with mixed input. It run both subworkflows, and potentially all genomes separately.

[FernandoDuarteF]

I need to fix input validation for genome only samplesheet.

[chriswyatt1]

We need various input data samplesheets for the test data.

Then these data also need to be on nf-core test datasets