PEtab-dev / PEtab-dev/libpetab-python
v2: Update validator
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validation
- Dominant language
- Python
- Stars
- 18
- Forks
- 9
- PR merge metrics
- No merged PRs in 30d
Description
So far, validation in petab.v2 is too lax and validator errors aren't too pretty and are often truncated.
- Readable error message
- include sufficient context in error messages
- Check for missing columns in files
- Consider using strict mode for validating files, but be more relaxed when programmatically constructing PEtab objects
- Decide whether we need to be able to de-serialize (somewhat) incorrect PEtab problems
Contributor guide
First steps
- Read the whole issue, then the project's contributing guide.
- Comment on the issue to say you are picking it up — it saves two people doing the same work.
- Fork the repository and make your change on a branch.
- Open a pull request that references the issue number.
Research direction
The issue identifies validation in petab.v2 but names no files or tests. Start by locating the v2 validator and its validation tests, then separate missing-column checks from the strict-mode and deserialization decisions. Done requires an agreed scope and completion of the selected checklist items without truncated or context-poor errors.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- backend, testing-qa
- Issue type
- Feature
- Difficulty
- 5/5
- Estimated time
- Over a week
- Activity status
- Stale
- Clarity
- Needs clarification
- Newbie friendliness
- 30/100