search

maxplanck-ie / snakepipes

Customizable workflows based on snakemake and python for the analysis of NGS data
http://snakepipes.readthedocs.io
381 stars 85 forks source link

mRNA-seq: sambamba markdup fails because "too many open files" #1010

Open caballero opened 5 months ago

caballero commented 5 months ago

Running the mRNA-seq pipeline is failing because it open too many files in filesystem, user ulimit is set as 1024 by default

Problem could be more than one process is running in the same node