GATK4_CREATESEQUENCEDICTIONARY memory misspecification

[mjakobs]

Hi team, thanks for releasing sarek version 3.2.1!

While running the test profile (nextflow run nf-core/sarek -r 3.2.1 -profile test,singularity --outdir results -c my.config) I found that GATK4_CREATESEQUENCEDICTIONARY fails with Error: A JNI error has occurred, please check your installation and try again. It appears the module accidentally specifies 6MB memory rather than 6GB for this task.
Relevant code:
https://github.com/nf-core/sarek/blob/6c0d335e17fb4406f527540631da7b26a5fe1464/modules/nf-core/gatk4/createsequencedictionary/main.nf#LL22C1-L30C72

Proposed downstream fix would be to change the module. In the meantime, adding the following to my config file has worked for me:

withName: 'GATK4_CREATESEQUENCEDICTIONARY' {
        memory       = { 6.GB * task.attempt }
    }

[asp8200]

I suspect that there is a similar problem in GATK4_COMPOSESTRTABLEFILE.

[maxulysse]

It's due to nf-core/modules#3027,
There are actually more modules to fix, thanks a lot @mjakobs for spotting that

[maxulysse]

@asp8200 that's exactly the one I noticed too, I'm looking through all, and making a PR rn

[maxulysse]

Will be fixed on the modules side by nf-core/modules#3502

[maxulysse]

and will be closed by #1087