Paul STRETENOWICH

Hi Simon, Using the `--no-db` option seems to solve the problem for the `prepare` step and the `index` step but for the mapping step it is freezing again. It is...

Hi Emilio, Yes, the `mergeBam` issue is related to [#48](https://github.com/guigolab/grape-nf/issues/48), that's why I haven't given you much more information about. About `markDup`, if I run `.command.run` out of the pipeline...

Hi Emilio, When I use the pipeline I run it with slurm but when I tried manually it was without slurm. In both cases it was with the singularity image....

Hi Emilio, Testing with `markdup` profile on test dataset worked without issue. Thanks, Paul

Hi Emilio, After updating nextflow it seems to solve the issue only if I run it locally, when I'm using slurm I still have the samne issue. **EDIT:** The update...

Hi Emilio, Just to update you, I'm installing all the tools required for the pipeline to run and I will test without using singularity as you suggested. I will tell...

Hi Emilio, I moved to another cluster and that specific issue is not happening. It might be related to the infrastructure of the first cluster I tried. I'm waiting for...

Hi, I have the same behaviour. Any fix planned for that? Thanks! Paul