Running local files through trimmomatic fails if file does not end with ".fastq" (e.g. ."fq")

[JohnHadish]

Description of the bug

Line 36 in the trimmomatic file casues failure if files do not end with .fastq e.g. .fq. This is only a testing line, and does not influence the rest of the module. It should just be removed in the next version.

    echo "#TRACE fastq_lines=`cat *.fastq | wc -l`"

Command used and terminal output

No response

Relevant files

No response

System information

No response

[bentsherman]

Fell free to remove all of those #TRACE messages. I added them as part of my dissertation research, but I don't know why I didn't just use a separate branch. Sorry for any annoyance they've caused.

[spficklin]

Thank you @bentsherman! Nice to see you around via text!