Tools: Permission problem running scripts in bin

[orzechoj]

I just installed the pipeline with nf-core download rnaseq --singularity -r 1.2, and running it I get the following errors:

......./nf-core-rnaseq-1.2/workflow/bin/markdown_to_html.r: Permission denied

....../nf-core-rnaseq-1.2/workflow/bin/mqc_features_stat.py: Permission denied

......./nf-core-rnaseq-1.2/workflow/bin/dupRadar.r: Permission denied

A simple chmod a+x ......./nf-core-rnaseq-1.2/workflow/bin/seems to fix this. I don't know if this is the right place to report this bug, or under https://github.com/nf-core/tools

[ewels]

Transferred to tools because I think that this is a problem with specifically the nf-core download command. Thanks for letting us know!

[ewels]

ok, after a little digging it seems that this is a known bug in the Python zipfile module: https://bugs.python.org/issue15795 - I'll see if I can fix it by making all downloaded files executable.

[ewels]

Fixed in dev 👍