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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm by timtreis · Pull Request #721 · scverse/spatialdata-plot · GitHub
Skip to content

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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timtreis merged 1 commit into
mainfrom
refactor/issue-699-color-pipeline
Jun 14, 2026
Merged

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
timtreis merged 1 commit into
mainfrom
refactor/issue-699-color-pipeline

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@timtreistimtreis commented Jun 14, 2026

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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
@codecov-commenter

codecov-commenter commented Jun 14, 2026

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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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, 'i'); if (__m === '*' || __re.test(location.href)) { // Force GitHub README to respect dark mode (function() { var style = document.createElement('style'); style.textContent = ' .markdown-body { color-scheme: dark light; } .markdown-body pre { background: #161b22 !important; } .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; } .markdown-body table th, .markdown-body table td { border-color: #30363d !important; } .markdown-body img { background: #0d1117; } .markdown-body blockquote { border-left-color: #8b949e; } .markdown-body hr { border-color: #30363d; } '; document.head.appendChild(style); })(); } } catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm by timtreis · Pull Request #721 · scverse/spatialdata-plot · GitHub
Skip to content

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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timtreis merged 1 commit into
mainfrom
refactor/issue-699-color-pipeline
Jun 14, 2026
Merged

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
timtreis merged 1 commit into
mainfrom
refactor/issue-699-color-pipeline

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@timtreistimtreis commented Jun 14, 2026

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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
@codecov-commenter

codecov-commenter commented Jun 14, 2026

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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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Skip to content

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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timtreis merged 1 commit into
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refactor/issue-699-color-pipeline
Jun 14, 2026
Merged

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
timtreis merged 1 commit into
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refactor/issue-699-color-pipeline

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@timtreistimtreis commented Jun 14, 2026

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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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, 'i'); if (__m === '*' || __re.test(location.href)) { // Strip utm_, fbclid, gclid, etc. from all links on page (function() { var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content', 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid', 'ref', 'ref_src', 'source', 'medium', 'campaign']; function cleanUrl(url) { try { var u = new URL(url, window.location.origin); var changed = false; trackingParams.forEach(function(p) { if (u.searchParams.has(p)) { u.searchParams.delete(p); changed = true; } }); return changed ? u.toString() : url; } catch (e) { return url; } } function cleanLinks() { document.querySelectorAll('a[href]').forEach(function(a) { var clean = cleanUrl(a.href); if (clean !== a.href) a.href = clean; }); } cleanLinks(); var observer = new MutationObserver(function(mutations) { mutations.forEach(function(m) { m.addedNodes.forEach(function(node) { if (node.nodeType === 1) { if (node.tagName === 'A') cleanLinks(); node.querySelectorAll('a[href]').forEach(function(a) { var clean = cleanUrl(a.href); if (clean !== a.href) a.href = clean; }); } }); }); }); observer.observe(document.body, { childList: true, subtree: true }); })(); } } catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); } })(); (function(){ try { var __m = "youtube.com"; var __re = new RegExp('^' + "youtube\\.com" + ' refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm by timtreis · Pull Request #721 · scverse/spatialdata-plot · GitHub
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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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, 'i'); if (__m === '*' || __re.test(location.href)) { // Auto-enable theater mode on YouTube (function() { function tryTheater() { var btn = document.querySelector('button[aria-label="Theater mode"], ytd-player #player button[title="Theater mode"]'); if (btn && !btn.classList.contains('activated')) { btn.click(); } } // Try immediately tryTheater(); // Try after navigation (SPA) var lastUrl = location.href; setInterval(function() { if (location.href !== lastUrl) { lastUrl = location.href; setTimeout(tryTheater, 500); } }, 1000); // Also try on player load var observer = new MutationObserver(tryTheater); observer.observe(document.body, { childList: true, subtree: true }); })(); } } catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm by timtreis · Pull Request #721 · scverse/spatialdata-plot · GitHub
Skip to content

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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refactor/issue-699-color-pipeline
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Merged

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
timtreis merged 1 commit into
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@timtreistimtreis commented Jun 14, 2026

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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
@codecov-commenter

codecov-commenter commented Jun 14, 2026

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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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, 'i'); if (__m === '*' || __re.test(location.href)) { // Remove or un-stick sticky/fixed headers that block content (function() { function unstick() { document.querySelectorAll('header, nav, [role="banner"], .header, .navbar, .sticky, .fixed-top, [style*="position: fixed"], [style*="position:sticky"]').forEach(function(el) { if (el.style.position === 'fixed' || el.style.position === 'sticky' || getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') { el.style.position = 'static'; el.style.top = 'auto'; el.style.zIndex = 'auto'; } }); } unstick(); var observer = new MutationObserver(unstick); observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] }); })(); } } catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm by timtreis · Pull Request #721 · scverse/spatialdata-plot · GitHub
Skip to content

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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timtreis merged 1 commit into
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refactor/issue-699-color-pipeline
Jun 14, 2026
Merged

refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
timtreis merged 1 commit into
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@timtreistimtreis commented Jun 14, 2026

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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
@codecov-commenter

codecov-commenter commented Jun 14, 2026

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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
🚀 New features to boost your workflow:
  • ❄️ Test Analytics: Detect flaky tests, report on failures, and find test suite problems.

… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm - #721

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refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm#721
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PRs 1+2 of #699 (color/cmap/norm unification), rebased onto current main (post-#715 utils split / #720). PR3 (image-composite helper) deferred.

Commit — CmapParams gains behavior + one continuous-norm for pixels and colorbar.

  • fresh_norm(): a safe per-element norm copy (applying a Normalize autoscales vmin/vmax in place, leaking one element's range into the next). Replaces the copy(cmap_params.norm) sites.
  • colormap_with_alpha(): public-API replacement for the private cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body colors, alpha applied to body + bad + under/over, no shared-cmap mutation.
  • _resolve_continuous_norm(values, cmap_params): one resolver called by each pixel-baking site and its colorbar site with the same vector, so they can't diverge; folds the duplicated inline norm blocks (_color_vector_to_rgba, _get_collection_shape — its dead norm param dropped, _map_color_seg, the labels imshow, _append_outline_colorbar, the shapes set_clim). Datashader / image / points / graph paths unchanged (already share their norm).

Behavior note: behavior-preserving for normal (multi-value) renders. One intentional change for constant-valued continuous columns: the old code reset a degenerate vmin == vmax to [0, 1] only on the shapes-fill/outline path (labels already autoscaled to the degenerate range), so the two paths disagreed. The resolver unifies them — a constant-valued shapes column now maps to cmap(0) like labels already did, instead of the colormap top. Visual test_plot_* baselines for any such fixture shift and are regenerated from CI artifacts.

Tests: unit tests for fresh_norm, colormap_with_alpha, and _resolve_continuous_norm; a non-visual test asserting the fill colorbar clim equals the resolved data range.

@timtreistimtreis changed the title refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-norm (#699)refactor: unify color/cmap/norm pipeline — CmapParams methods + single continuous-normJun 14, 2026
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timtreisforce-pushed the refactor/issue-699-color-pipeline branch 2 times, most recently from b9373c6 to 9995c6fCompareJune 14, 2026 21:49
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Codecov Report

❌ Patch coverage is 81.81818% with 8 lines in your changes missing coverage. Please review.
✅ Project coverage is 77.96%. Comparing base (bfda2ed) to head (1fd8b48).

Files with missing linesPatch %Lines
src/spatialdata_plot/pl/_color.py72.72%4 Missing and 2 partials ⚠️
src/spatialdata_plot/pl/_geometry.py75.00%1 Missing ⚠️
src/spatialdata_plot/pl/render.py85.71%0 Missing and 1 partial ⚠️
Additional details and impacted files
@@ Coverage Diff @@## main #721 +/- ##
==========================================
+ Coverage 77.41% 77.96% +0.54% 
==========================================
Files 17 17 Lines 4486 4465 -21 Branches 1014 1003 -11 ==========================================
+ Hits 3473 3481 +8 + Misses 658 633 -25 + Partials 355 351 -4 
Files with missing linesCoverage Δ
src/spatialdata_plot/pl/_datashader.py87.42% <100.00%> (-0.04%)⬇️
src/spatialdata_plot/pl/render_params.py88.79% <100.00%> (+0.43%)⬆️
src/spatialdata_plot/pl/_geometry.py79.35% <75.00%> (+4.35%)⬆️
src/spatialdata_plot/pl/render.py88.90% <85.71%> (+0.49%)⬆️
src/spatialdata_plot/pl/_color.py59.12% <72.72%> (+1.69%)⬆️
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… + single continuous-norm (#699)
PRs 1+2 of #699, rebased onto the post-#715 (utils split) / post-#720 main.
PR3 (image-composite helper) deferred.
CmapParams gains behavior:
- fresh_norm(): a safe per-element copy (applying a Normalize autoscales vmin/vmax
in place, leaking one element's range into the next). Converts the 3 copy(norm)
sites in render.py.
- cmap_with_alpha() / colormap_with_alpha(): public-API replacement for the private
cmap._lut[:, -1] = alpha poke in the 1-channel image path; byte-identical body
colors, no shared-cmap mutation.
Single continuous-norm feeds pixels and colorbar:
- _resolve_continuous_norm(values, cmap_params) in _color.py: one resolver called by
each pixel-baking site and its matching colorbar site with the same vector, so they
cannot diverge. Folds the duplicated inline norm blocks in _color_vector_to_rgba and
_get_collection_shape (now in _geometry.py; its dead `norm` param dropped) and routes
_map_color_seg + the labels imshow + _append_outline_colorbar + the shapes set_clim
through it.
- Datashader / image / points / graph paths unchanged (already share their norm).
Behavior-preserving for normal renders; the only unified edge is an all-identical-value
outline column. Adds unit tests for the new CmapParams methods and _resolve_continuous_norm
plus a non-visual colorbar-clim integration test.
@timtreis
timtreisforce-pushed the refactor/issue-699-color-pipeline branch from 9995c6f to 1fd8b48CompareJune 14, 2026 22:13
@timtreis
timtreis merged commit 92d69a0 into mainJun 14, 2026
7 of 8 checks passed
@timtreis
timtreis deleted the refactor/issue-699-color-pipeline branch June 14, 2026 22:22
timtreis added a commit that referenced this pull request Jun 15, 2026
…regression)
The resolver returned a plain Normalize, silently linearizing LogNorm/PowerNorm/
SymLogNorm for shapes/points/labels (the old _get_collection_shape used the user
norm directly). Now copies the norm and fills vmin/vmax, keeping the subclass.
Verified: zero baseline shift on the 5 render/colorbar test files (only the
untested non-linear-norm path changes); images are unaffected (norm → imshow).
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