remove module load?

[erikenbody]

Hi there,

Thanks for making this interesting and useful tool! I have found on our cluster that the lines that check if R, bedtools, and samtools are installed wrecks some havoc on getting this to run. Specifically it loads the default version of R, when packages are not all installed for whatever that default version is, and the different capitalization of bedtools (vs BEDTools).

Anyway, just wonder if simpler to assume these are installed as dependencies rather than having these hard set module load calls? I commented them all out to get my jobs to run. Just thought I'd make this suggestion if I am not unique here.

It would, for example, save time when I go to pull the latest update, to not have to comment these out :)

e.g. this:

has_module=$(check_module)
if [[ $has_module -gt 0 ]]; then
        echo "No modules available.."
else
	module load bedtools
	module load samtools
	module load R
fi

thanks!

[arangrhie]

Hi @erikenbody , sorry to hear your struggle.
I'll remove the modules in the next release.

[erikenbody]

No struggle, just a suggestion! congrats on the pub :)