Error "ParGenes failed to analyze all MSAs" in running the Pargenes

[danie...@gmail.com]

Hi everyone,

I ran the Pargenes on an HPC for an analysis of about 2300 genes. However, I got the error message "ParGenes failed to analyze all MSAs". I have run the Pargens successfully in another dataset on the same HPC and same conda environment. How can I fix the error I got?  The command I used and the error message can be found at the end. Thank you for your time!

All the best,

Xin

[Alexandros Stamatakis]

Dear Xin,

There are two likely scenarios:

1. You ran out of wall click time

2. There might have been issues with parsing one or several of the
alignments due to formatting issues.

I would check 2 first.

Alexis

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Alexandros (Alexis) Stamatakis

ERA Chair, Institute of Computer Science, Foundation for Research and
Technology - Hellas
Research Group Leader, Heidelberg Institute for Theoretical Studies
Full Professor, Dept. of Informatics, Karlsruhe Institute of Technology

www.biocomp.gr (Crete lab)
www.exelixis-lab.org (Heidelberg lab)