JP-3613: Update error arrays to match NaN in data

[melanieclarke]

Resolves JP-3613

Closes #8460

Update the error and variance arrays to NaN whenever science data is set to NaN. Impacts the flat field step and products up through the cal file, for all NIRSpec modes.

Checklist for maintainers

• added entry in CHANGES.rst within the relevant release section
• updated or added relevant tests
• updated relevant documentation
• added relevant milestone
• added relevant label(s)
• ran regression tests, post a link to the Jenkins job below.
  How to run regression tests on a PR
• Make sure the JIRA ticket is resolved properly

[codecov]

Codecov Report

Attention: Patch coverage is 0% with 18 lines in your changes are missing coverage. Please review.

Project coverage is 56.52%. Comparing base (6580914) to head (d3d39a3).
Report is 10 commits behind head on master.

❗ Current head d3d39a3 differs from pull request most recent head 1e4b0c2. Consider uploading reports for the commit 1e4b0c2 to get more accurate results

Files	Patch %	Lines
jwst/flatfield/flat_field.py	0.00%	18 Missing ⚠️

Additional details and impacted files

@@            Coverage Diff             @@
##           master    #8463      +/-   ##
==========================================
+ Coverage   56.38%   56.52%   +0.14%     
==========================================
  Files         387      387              
  Lines       38716    38803      +87     
==========================================
+ Hits        21830    21935     +105     
+ Misses      16886    16868      -18     

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[melanieclarke]

Regression tests started here:
https://plwishmaster.stsci.edu:8081/job/RT/job/JWST-Developers-Pull-Requests/1422/

[melanieclarke]

I'm pretty sure the only relevant changes in the regression tests are new NaNs in intermediate error arrays, but there have been a lot of changes on master today - I can rerun when things settle down.

[melanieclarke]

Regression tests restarted here:
https://plwishmaster.stsci.edu:8081/job/RT/job/JWST-Developers-Pull-Requests/1428/

[melanieclarke]

Regression tests look right to me now: there are new NaNs in error and variance arrays in intermediate products between flat_field and cal for NIRSpec. The s2d and x1d files are not affected, since the pixels were already DO_NOT_USE.

There are still a few unrelated failures: some changes from PR #8461, a failure in nirspec_mos_spec3 to be fixed in #8464, a failure in a miri_lrs wcs test.

[hbushouse]

Code changes look fine and agree that regtest results are as expected.