Closed psuarezana closed 5 months ago
Hi @psuarezana,
We do not provide any Nexftflow version of ASCAT so what you use is probably part of a pipeline we do not own/monitor. What version of ASCAT are you using?
This sounds like an older version of ASCAT (before April 2023) where !is.na(homsegs)
was used and was fixer later with: https://github.com/VanLoo-lab/ascat/commit/c4c10f8bc5deecc0b0e18f46dd271934e554d73e. I recommend you have a fresh installation of ASCAT and try again. This will fix the warnings, maybe the error as well, but at least you will have the latest version of ASCAT. If the error still persists, please provide the full log and plots so I can understand where it crashes and what is going on.
Cheers,
Tom.
Hello! I'am running the module ASCAT from nextflow and I have the following error:
So I checked the output of the function that segment the data:
The length for the
ascat.bc$Tumor_LogR_segmented
is 59 (I don't know if this result is the expected one or not) and obviously something is wrong with the outputascat.bc$Tumor_BAF_segmented
because it only has one value. Does anyone know what this could be due to?Also, I add here the commands that have been used as input:
Thank you in advance,
Ana