csv testing and bug fixes

[joshmoore]

This primarily adds the test cases mentioned under linkml/linkml#947. In debugging, there were a number of locations where an explicit None check helped with determining what was wrong which I've included. Please let me know if those should be separated out.

Note: this is currently failing both for all attributes as well as all slots with:

>           self.objectB = Object(**as_dict(self.objectB))
E           TypeError: tests.test_loaders_dumpers.models.table.Object() argument after ** must be a mapping, not str

[sierra-moxon]

Hi @joshmoore - sorry this took so long to review; I'd like to take a look and get it resolved. Unfortunately, I don't have permission here to resolve the conflicts. (thank you for giving maintainers access to the PR - I am not sure why I can't resolve the conflicts with that permission but the button is unavailable to me). Can you resolve the conflicts here? Then I can walk through and get the tests passing. Thanks in advance!

[joshmoore]

@sierra-moxon, no worries (though odd): done.

[nlharris]

It looks like this has gone stale while waiting to be reviewed

[joshmoore]

Please let me know if there's something needed from my side.

[codecov]

Codecov Report

❌ Patch coverage is 6.25000% with 15 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.52%. Comparing base (ff268a3) to head (1f9636f).
⚠️ Report is 11 commits behind head on main.

Files with missing lines	Patch %	Lines
linkml_runtime/loaders/rdflib_loader.py	7.69%	10 Missing and 2 partials ⚠️
linkml_runtime/utils/yamlutils.py	0.00%	3 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##             main     #205      +/-   ##
==========================================
- Coverage   77.65%   77.52%   -0.14%     
==========================================
  Files          52       52              
  Lines        4480     4493      +13     
  Branches      973      978       +5     
==========================================
+ Hits         3479     3483       +4     
- Misses        779      788       +9     
  Partials      222      222              

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[amc-corey-cox]

This seems good to me.