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Support build-time/runtime dependencies; add CSV stage-out - #99

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Support build-time/runtime dependencies; add CSV stage-out#99
pont-us wants to merge 10 commits into
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pont-us/98-build-deps

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@pont-us

@pont-us pont-us commented Sep 4, 2026

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Closes #98. Closes #100.

Initial implementation of #98. Basic functionality tested
but still needs more testing, evaluation, and documentation.
@codecov

codecov Bot commented Sep 4, 2026

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Codecov Report

❌ Patch coverage is 60.31746% with 25 lines in your changes missing coverage. Please review.
✅ Project coverage is 94.41%. Comparing base (ed2fd49) to head (4b98ee7).
⚠️ Report is 1 commits behind head on main.

Files with missing lines Patch % Lines
xcengine/core.py 44.82% 14 Missing and 2 partials ⚠️
xcengine/util.py 55.00% 7 Missing and 2 partials ⚠️
Additional details and impacted files
@@            Coverage Diff             @@
##             main      #99      +/-   ##
==========================================
- Coverage   97.83%   94.41%   -3.43%     
==========================================
  Files           6        6              
  Lines         647      698      +51     
  Branches       77       89      +12     
==========================================
+ Hits          633      659      +26     
- Misses          9       30      +21     
- Partials        5        9       +4     

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- Add a code snippet to make sure that the notebook's parent directory
  is on the Python path during parameter extraction.

- Make sure that files copied into container are owned by mambauser.

- Don't strip root directory when copying includes into container image.
Emphasize that the parameters cell should be the first code cell
whenever possible.
Recent additions to the parameter-extraction code try to add the
notebook path's parent directory to the Python path, which naturally
fails if the notebook path is a URL rather than a local path. This
commit ensures that a parent "directory" really is a directory before
trying to put it on the Python path.
- Add a lot more Markdown content explaining what's going on.

- Now that xcengine supports CSV stage-out, replace the generated
  xarray DataSet with a pandas DataFrame.
@pont-us pont-us changed the title Support inclusion of build-time and runtime dependencies Support build-time/runtime dependencies; add CSV stage-out Sep 11, 2026
@pont-us pont-us self-assigned this Sep 11, 2026
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Support CSV stage-out Inclusion of build-time and runtime dependencies during docker image build

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