Miriam Ferreiro Pantín comments

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                                            Miriam Ferreiro Pantín

Execution time does not change even if some QC tools are skipped

Hi @drpatelh, first of all thanks for answer and sorry for delay! I ran the pipeline again with all and some tools and the times have varied a little but...

Mutect2 error with Sarek 3.4.0

Ok, I'll try what you tell me. Thanks!

Mutect2 error with Sarek 3.4.0

Hi @FriederikeHanssen and sorry for the delay in replying. The rerun did not work, I chose to run Mutect2 separately, with a pipeline that we have prepared. I wrote to...

Error when write a file running Mutect2 with Sarek

Ok, thanks for you response. Could you tell me how I can run the dev-branch version through Singularity on the HPC? I have never done it.

Error when write a file running Mutect2 with Sarek

Ok, I'm trying. As soon as the execution has finished I will comment the results. Thanks.

Error when write a file running Mutect2 with Sarek

Hi! The execution of dev version also gives an similar error. ``` `Error executing process > 'NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_VARIANT_CALLING_SOMATIC_MUTECT2:MUTECT2_PAIRED (B1R3_vs_G1)' Caused by: Process `NFCORE_SAREK:SAREK:BAM_VARIANT_CALLING_SOMATIC_ALL:BAM_VARIANT_CALLING_SOMATIC_MUTECT2:MUTECT2_PAIRED (B1R3_vs_G1)` terminated with an error exit status (1)...