The

test_full

-profile doesn’t run out-of-the-box:

nextflow run nf-core/scrnaseq -r 2.7.1 -profile test_full,singularity --outdir results
...
ERROR ~ Must provide a genome fasta file ('--fasta') and a gtf file ('--gtf') if no index is given!. Expression: (star_index || (genome_fasta && gtf)). Values: star_index = [], genome_fasta = [], gtf = []

So I added

--genome GRCh38

, but it still didn’t work. Then I removed the initialisation of

fasta

and

gtf

to

null

which was introduced in v2.7.1. And the

test_full

-profil ran OK.

Can you create an issue about it?

Perhaps related to the above, the test results are missing on the webpage.

I assumed that the megatests failed

The initialisations might have been introduced to silence the following kind of warning:

WARN: Access to undefined parameter `gtf` -- Initialise it to a default value eg. `params.gtf = some_value`
WARN: Access to undefined parameter `fasta` -- Initialise it to a default value eg. `params.fasta = some_value`

Actually I don't even see a failed #C050H771L2H for scrnaseq