Friederike Hanssen

@nf-core-bot fix linting

The docs lied to me and need to pass an int into the script afterall..... so reverting to previous changes but will also require a module update so turning this...

back to this one: first step: bumping the control freec version, so we can use the new makeGraph script and hopefully solve some issues

HI! I am running into the same thing. Anyone figured out what the cause could be? :)

Thank you :) I will try to downgrade the R version

works 🚀 thanks a lot :)

Just FYI: using this installation mafbarplot is not working anymore. (`could not find function "mafbarplot"`) which worked fine with the latest install from bioconda.

Hi @ariadnaaterrades ! Can you please post some more details: command run, samplesheet, any other configs/param files you are using, and the nextflow log?

Hey! Apologies for the late reply, I was OOO, but back now. So strelka is run with the following command for tumor-only samples: https://github.com/nf-core/sarek/blob/master/modules/nf-core/modules/strelka/germline/main.nf So with the "germline" module which...

- [ ] https://github.com/nf-core/sarek/issues/1124 - [ ] [FreeBayes](https://github.com/nf-core/sarek/issues/453) - [ ] Deepvariant - [ ] Strelka2