INCATools / INCATools/ontology-access-kit
`validate-mappings`: `NotImplementedError: ... NoneType`
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bug
- Dominant language
- Python
- Stars
- 198
- Forks
- 35
- Avg merge
- 3d 4h
- Merged PRs (30d)
- 1
Description
Overview
I'm trying to use runoak validate-mappings on a SSSOM file, but I'm getting an error message, and it doesn't contain enough information to help me diagnose the problem.
The error
NotImplementedError: Cannot execute this using None of type <class 'NoneType'>
Replicability
- Download and unzip unmapped_icd11foundation_lex_exact.tsv.zip
- Run
runoak validate-mappings ~/Desktop/unmapped_icd11foundation_lex_exact.tsv - Observe the error message
Additional information
Using latest version of OAK, oaklib==0.6.4
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
Start by downloading unmapped_icd11foundation_lex_exact.tsv.zip and reproducing the failure with runoak validate-mappings. Trace the validate-mappings CLI entry point to where the NoneType error is raised. Done means the command reports enough context to diagnose the invalid or unsupported mapping input.
Written by the indexing model from the issue text.
Assessment
- Tech stack
- python
- Domain
- cli
- Issue type
- Bug
- Difficulty
- 3/5
- Estimated time
- 1-2 days
- Activity status
- Stale
- Clarity
- Mostly clear
- Newbie friendliness
- 35/100