I was running Bloocoo-1.0.4 (part of GATB) on two gzip'd fastq files. The documentation says that I can provide the two files in a comma separate list like "read1.fq.gz,read2.fq.gz". This apparently worked at the beginning as I could see a large .h5 file. However, later in the process, I got an error:
EXCEPTION: error opening file: read1.fastq.gz,read2.fastq.gz () Command exited with non-zero status 1
Could this be a bug? I have not tried to reproduce the potential issue on smaller examples. Just in case this is a known issue.