Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Add pod5 container #585

Open
wants to merge 3 commits into
base: master
Choose a base branch
from
Open

Add pod5 container #585

wants to merge 3 commits into from

Conversation

eperezme
Copy link

@eperezme eperezme commented Oct 9, 2024

Submitting a Container

Check BioContainers' Dockerfile specifications

Checklist

  1. Misc
  • My tool exists in BioConda but doesn't have a container
  • The image can be built
  1. Metadata
  • LABEL base_image
  • LABEL version
  • LABEL software.version
  • LABEL about.summary
  • LABEL about.home
  • LABEL about.license
  • MAINTAINER
  1. Extra (optionals)
  • I have written tests in test-cmds.txt
  • LABEL extra.identifier
  • LABEL about.documentation
  • LABEL about.license_file
  • LABEL about.tags

Check BioContainers' Dockerfile metadata

@mboudet
Copy link
Contributor

mboudet commented Oct 9, 2024

I believe there is already a docker image for pod5 (and a conda package)

https://bioconda.github.io/recipes/pod5/README.html#package-pod5
https://quay.io/repository/biocontainers/pod5?tab=tags

Is there any issue with this image?

Edit: Ah, the 'procps' package maybe?

@eperezme
Copy link
Author

eperezme commented Oct 9, 2024

There was some error with the vbz_h5py_plugin:
POD5 has encountered an error: 'No module named 'vbz_h5py_plugin"

Edit: I also had to install on my pc the pod5 package throught pip bc the conda package was giving me errors

@mboudet
Copy link
Contributor

mboudet commented Oct 9, 2024

Might be worth to raise the issue with the package maintainer, as conda should include all required dependencies..
I'd rather not have a separate docker image for the same software just because of a bug.

(if they do not want to fix it, I'll merge this PR)

Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

Successfully merging this pull request may close these issues.

2 participants