Normalize version fields to strings in import scripts

[arash77]

Introduce a normalization function to convert version fields to strings across various import scripts, ensuring consistent data formatting. This change enhances data integrity when processing tool and package metadata.
Closes research-software-ecosystem/content#1190

[mihai-sysbio]

Thanks @arash77 this is a neat contribution. It's mixed together with formatting though, which albeit a great idea, it muddles what is the fix vs purely formatting. Is there a way you could split the two aspects? And if an adoption of PEP8 is desired in this repo, how about a GH Action that applies it automatically?

[arash77]

I will exclude the formatting from this PR. I can create a separate PR to talk about how an automated formatting could be applied.

[Copilot]

Pull request overview

This pull request introduces a new common utility module for normalizing version fields from numeric types to strings across various metadata import scripts, addressing data integrity issues when processing tool and package metadata.

Changes:

• Added common/metadata.py module with normalize_version_to_string and normalize_version_fields functions
• Updated four import scripts (galaxytool-import, biotools-import, bioconductor-import, bioconda-import) to use the new normalization functions

Reviewed changes

Copilot reviewed 5 out of 5 changed files in this pull request and generated 5 comments.

Show a summary per file

File	Description
common/metadata.py	New utility module providing functions to normalize version fields (integers/floats) to strings with support for nested paths and list structures
galaxytool-import/galaxytool-import.py	Integrated version normalization for Suite_version, Latest_suite_conda_package_version, and Related_Workflows latest_version fields
biotools-import/import.py	Added version field normalization for both top-level version field and nested version fields within version arrays
bioconductor-import/import.py	Applied normalization to the Version field in package metadata
bioconda-import/bioconda_importer.py	Normalized package.version field in conda package data

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[hmenager]

LGTM! Thanks @arash77 !

[mihai-sysbio]

To test this PR, I have forked the content repo and modified the workflow import data to refer to the @arash77 branch normalise-version-fields, see https://github.com/mihai-sysbio/rsec-content/commit/590f10d8e069b1a4e29a3164eb817e455a2c44ee
With that in place, I was able to run the workflow manually https://github.com/mihai-sysbio/rsec-content/actions/runs/22862087561 . There was a merge error reported in the end, but I believe that is only due to a mismatch of hardcoded branches somewhere.
I did confirm that the update, e.g., normalised the Bioconda version of MultiQC into a string, so all good.

My action plan is to merge this now, trigger the import data workflow manually in the content repo and see that the merge goes through. Finally, I will see that the changes get nicely propagated to the Atlas.

[mihai-sysbio]

Confirming everything seemed to work in production, great job @arash77 🙌🏻