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[python] Re-run, and update, example notebooks with new shape feature#3290

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johnkerl merged 1 commit intomainfrom
kerl/notebook-new-shape-refresh
Nov 6, 2024
Merged

[python] Re-run, and update, example notebooks with new shape feature#3290
johnkerl merged 1 commit intomainfrom
kerl/notebook-new-shape-refresh

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@johnkerl johnkerl commented Nov 4, 2024

Issue and/or context: As tracked on issue #2407 / [sc-51048].

Note that the intended Python and R API changes are all agreed on and finalized as described in #2407.

Changes:

Re-execute our notebooks with the new-shape feature. Change the wording in many places to remove needless complexities from the pre-shape era.

This PR affects existing notebooks. There is a separate PR with a new notebook dedicated to the new shape feature: #3294.

Notes for Reviewer:

This PR was run on a system with core dev (2.27-to-be) installed on it.

Handy review link with rendered notebooks:
https://github.com/single-cell-data/TileDB-SOMA/tree/kerl/notebook-new-shape-refresh/apis/python/notebooks

@johnkerl johnkerl changed the base branch from main to kerl/dataframe-shape-temp November 4, 2024 00:13
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codecov Bot commented Nov 4, 2024

Codecov Report

All modified and coverable lines are covered by tests ✅

Project coverage is 85.40%. Comparing base (0dea435) to head (23953ae).
Report is 2 commits behind head on main.

Additional details and impacted files
@@            Coverage Diff             @@
##             main    #3290      +/-   ##
==========================================
+ Coverage   85.29%   85.40%   +0.10%     
==========================================
  Files          52       52              
  Lines        5517     5517              
==========================================
+ Hits         4706     4712       +6     
+ Misses        811      805       -6     
Flag Coverage Δ
python 85.40% <ø> (+0.10%) ⬆️

Flags with carried forward coverage won't be shown. Click here to find out more.

Components Coverage Δ
python_api 85.40% <ø> (+0.10%) ⬆️
libtiledbsoma ∅ <ø> (∅)

@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch from 58b711c to 01473ca Compare November 4, 2024 00:41
@johnkerl johnkerl changed the title [python] Re-run example notebooks with new shape feature [python] Re-run, and update, example notebooks with new shape feature Nov 4, 2024
@johnkerl johnkerl force-pushed the kerl/dataframe-shape-temp branch from 2ab86e1 to 086cf3e Compare November 5, 2024 16:21
@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch from 01473ca to 71668ec Compare November 5, 2024 16:22
@johnkerl johnkerl force-pushed the kerl/dataframe-shape-temp branch from 086cf3e to a592f3a Compare November 5, 2024 17:12
@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch from 71668ec to c37833b Compare November 5, 2024 17:12
@johnkerl johnkerl requested a review from nguyenv November 5, 2024 22:08
@johnkerl johnkerl marked this pull request as draft November 5, 2024 22:08
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johnkerl commented Nov 5, 2024

Converting to draft while I rework the data storage on a separate PR

@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch 3 times, most recently from 5f5d2a7 to bd5ab54 Compare November 5, 2024 23:10
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johnkerl commented Nov 5, 2024

@aaronwolen re-requesting review as this is now rebased on top of #3295 (which has been merged).

@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch from bd5ab54 to 20d4831 Compare November 5, 2024 23:12
@johnkerl johnkerl changed the base branch from kerl/dataframe-shape-temp to main November 5, 2024 23:12
@johnkerl johnkerl marked this pull request as ready for review November 5, 2024 23:13
* Geometry dataframe implementation, use spatial axes when available when creating schema

* Address PR review comments
@johnkerl johnkerl force-pushed the kerl/notebook-new-shape-refresh branch from 20d4831 to 23953ae Compare November 6, 2024 15:52
@johnkerl johnkerl merged commit 33b104c into main Nov 6, 2024
@johnkerl johnkerl deleted the kerl/notebook-new-shape-refresh branch November 6, 2024 16:39
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4 participants