Installation issues about sample-sheet HOT 8 CLOSED

I'm very interested in user-feedback because I would like to release a formal v1.0 at some point this year which may include API breaking changes.

Feel free to ping me with ideas for enhancements, gripes, or other common uses you would like to see in this library.

from sample-sheet.

Thanks for reaching out!

Because I'm hosting on bioconda I think I'm explicitly relying on their setup instructions here:

https://bioconda.github.io/user/install.html#set-up-channels

I can definitely make the README.md much more clear by referencing the Bioconda docs but also providing an install command that has the channels in the correct order!

Thanks for pointing out.

Your second bug is very odd. What command was used to install?

Was it just a pip install sample-sheet?

from sample-sheet.

No, I was running pip install . with my own package which included sample-sheet as a dependency. pip install sample-sheet locally worked just fine, however.

from sample-sheet.

Ah I see the bug. I can patch. Thanks for reporting!

from sample-sheet.

I'll try to get to later today.

from sample-sheet.

Thanks!

from sample-sheet.

Hi @mivade, thanks for reaching out!

🤞 I think I fixed both of your bugs.

1. The main README and hosted documentation have more accurate instructions for installing from Bioconda.
2. I changed setup.py to use file reading methods that do not rely on pathlib.Path.

The new release 0.9.1 is up on PyPi and can be installed with:

❯ pip install sample-sheet

I am still waiting on Bioconda to revision up the conda-hosted package:

bioconda/bioconda-recipes#16196

Although there are no changes in the library from 0.9.0 to 0.9.1 the following should work regardless:

# After setting up Bioconda channels correctly: https://bioconda.github.io/user/install.html#set-up-channels
❯ conda install sample-sheet

Instead:

❯ conda install -c bioconda -c conda-forge -c defaults sample-sheet

from sample-sheet.

@clintval thank you for your quick updates! I've confirmed that the updated version fixes the pip install issue.

from sample-sheet.