Add confidence fill conditional in lexmatch compare

[matentzn]

resolves #583

Overview

Currently the filter_redundant_rows() in the sssom-py package fails when:

1. There is a confidence column and
2. No single value is set / all values are nan

This needs a fix in the sssom-py package.

In the meantime, this is a workaround.

Pre-merge checklist

Documentation

Was the documentation added/updated under docs/?

• [ ] Yes
• [x] No, updates to the docs were not necessary after careful consideration

QC

Was the full pipeline run before submitting this PR using sh run.sh make build-mondo-ingest on this branch (after docker pull obolibrary/odkfull:dev), and no errors occurred?

• [ ] Yes
• [ ] No, there are no functional (code-related) changes to the pipeline in the PR, so no re-run is necessary

Build PR:

• 582

New Packages

Were any new Python packages added?

• [ ] Yes, requirements.txt.full was updated and an ODK issue submitted
• [x] No

Were any other non-Python packages added?

• [ ] Yes, Dockerfile updated and an ODK issue submitted
• [x] No

PR Review and Conversations Resolved

Has the PR been sufficiently reviewed by at least 1 team member of the Mondo Technical team and all threads resolved?

• [ ] Yes

Related

• https://github.com/mapping-commons/sssom-py/issues/546

• 578

[joeflack4]

Not needed. The PR in sssom-py https://github.com/mapping-commons/sssom-py/pull/548 should eliminate the need for this.

That is good to know! I'm actually surprised though that this PR wasn't automatically closed, as #582 includes it and has already been merged. I double checked to make sure that this commit was included there and it is.

In any case gonna close this now.