Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction · Issue #696 · scverse/spatialdata-plot

Summary

src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk.

Why now

Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code.
There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils.
There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules.
All symbols involved are private (_foo) — no public API surface to preserve.

Proposed split

New module	Moves (approx lines)	Examples
`pl/_validate.py`	~1400	`_type_check_params` (L2660), `_validate_*_render_params` ×5 (L3106–3835), `_validate_show_parameters` (L2483), `_validate_col_for_column_table`, uniqueness/shadow checks
`pl/_color.py`	~1370	`_set_color_source_vec` (L1265), `_map_color_seg` (L1486), `_extract_colors_from_table_uns` (L1689), categorical-mapping chain (L1616–1940), `_color_vector_to_rgba`, `_get_linear_colormap`, `_set_outline`
`pl/_geometry.py`	~460	`_get_collection_shape` (L601), `_convert_shapes` (L4273), pathpatch helpers
(finish) `pl/_datashader.py`	~234	the canvas/aggregate helpers still in `utils.py` (L3910–4451) that `_datashader.py` currently back-imports — the only near-cycle in the repo. Also fixes the `_datshader_get_how_kw_for_spread` typo.

After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction).

Risk / effort

Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR.

Notes

The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file.

Part of a maintainability/refactor audit of main.

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Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Force GitHub README to respect dark mode\n(function() {\n var style = document.createElement('style');\n style.textContent = '\n .markdown-body {\n color-scheme: dark light;\n }\n .markdown-body pre { background: #161b22 !important; }\n .markdown-body code { background: rgba(110, 118, 129, 0.4) !important; }\n .markdown-body table th, .markdown-body table td { border-color: #30363d !important; }\n .markdown-body img { background: #0d1117; }\n .markdown-body blockquote { border-left-color: #8b949e; }\n .markdown-body hr { border-color: #30363d; }\n ';\n document.head.appendChild(style);\n})();", "GitHub Dark Mode README Fix"); } } catch(__e) { console.warn('[Userscript:GitHub Dark Mode README Fix]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert Uh oh! There was an error while loading. Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Highlight search terms from Google/DuckDuckGo/Bing referrer\n(function() {\n var ref = document.referrer;\n var terms = [];\n \n if (ref.includes('google.com') || ref.includes('duckduckgo.com') || ref.includes('bing.com')) {\n var url = new URL(ref);\n var q = url.searchParams.get('q') || url.searchParams.get('p');\n if (q) {\n terms = q.split(/\\s+/).filter(function(t) { return t.length > 2; });\n }\n }\n \n if (terms.length === 0) return;\n \n var style = document.createElement('style');\n style.textContent = '.userscript-highlight { background: #fbbf24; color: #1a1a2e; padding: 1px 3px; border-radius: 2px; }';\n document.head.appendChild(style);\n \n function highlight(node) {\n if (node.nodeType === 3) { // text node\n var text = node.textContent;\n var found = false;\n terms.forEach(function(term) {\n var regex = new RegExp('(' + term.replace(/[.*+?^${}()|[\\]\\\\]/g, '\\\\') + ')', 'gi');\n if (regex.test(text)) {\n found = true;\n var frag = document.createDocumentFragment();\n var parts = text.split(regex);\n parts.forEach(function(part, i) {\n if (i % 2 === 0) {\n frag.appendChild(document.createTextNode(part));\n } else {\n var span = document.createElement('span');\n span.className = 'userscript-highlight';\n span.textContent = part;\n frag.appendChild(span);\n }\n });\n node.parentNode.replaceChild(frag, node);\n }\n });\n } else if (node.nodeType === 1 && node.childNodes) { // element\n var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT'];\n if (!skipTags.includes(node.tagName)) {\n Array.from(node.childNodes).forEach(highlight);\n }\n }\n }\n \n highlight(document.body);\n \n // Re-highlight on dynamic content\n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1 || node.nodeType === 3) highlight(node);\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Highlight Search Terms"); } } catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert Uh oh! There was an error while loading. Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Strip utm_, fbclid, gclid, etc. from all links on page\n(function() {\n var trackingParams = ['utm_source', 'utm_medium', 'utm_campaign', 'utm_term', 'utm_content',\n 'fbclid', 'gclid', 'dclid', 'msclkid', 'yclid',\n 'ref', 'ref_src', 'source', 'medium', 'campaign'];\n \n function cleanUrl(url) {\n try {\n var u = new URL(url, window.location.origin);\n var changed = false;\n trackingParams.forEach(function(p) {\n if (u.searchParams.has(p)) {\n u.searchParams.delete(p);\n changed = true;\n }\n });\n return changed ? u.toString() : url;\n } catch (e) {\n return url;\n }\n }\n \n function cleanLinks() {\n document.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n \n cleanLinks();\n \n var observer = new MutationObserver(function(mutations) {\n mutations.forEach(function(m) {\n m.addedNodes.forEach(function(node) {\n if (node.nodeType === 1) {\n if (node.tagName === 'A') cleanLinks();\n node.querySelectorAll('a[href]').forEach(function(a) {\n var clean = cleanUrl(a.href);\n if (clean !== a.href) a.href = clean;\n });\n }\n });\n });\n });\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "Remove Tracking Parameters from Links"); } } catch(__e) { console.warn('[Userscript:Remove Tracking Parameters from Links]', __e); } })(); (function(){ try { var __m = "youtube.com"; var __re = new RegExp('^' + "youtube\\.com" + ' Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert Uh oh! There was an error while loading. Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Auto-enable theater mode on YouTube\n(function() {\n function tryTheater() {\n var btn = document.querySelector('button[aria-label=\"Theater mode\"], ytd-player #player button[title=\"Theater mode\"]');\n if (btn && !btn.classList.contains('activated')) {\n btn.click();\n }\n }\n \n // Try immediately\n tryTheater();\n \n // Try after navigation (SPA)\n var lastUrl = location.href;\n setInterval(function() {\n if (location.href !== lastUrl) {\n lastUrl = location.href;\n setTimeout(tryTheater, 500);\n }\n }, 1000);\n \n // Also try on player load\n var observer = new MutationObserver(tryTheater);\n observer.observe(document.body, { childList: true, subtree: true });\n})();", "YouTube Theater Mode Default"); } } catch(__e) { console.warn('[Userscript:YouTube Theater Mode Default]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. 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Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Remove or un-stick sticky/fixed headers that block content\n(function() {\n function unstick() {\n document.querySelectorAll('header, nav, [role=\"banner\"], .header, .navbar, .sticky, .fixed-top, [style*=\"position: fixed\"], [style*=\"position:sticky\"]').forEach(function(el) {\n if (el.style.position === 'fixed' || el.style.position === 'sticky' || \n getComputedStyle(el).position === 'fixed' || getComputedStyle(el).position === 'sticky') {\n el.style.position = 'static';\n el.style.top = 'auto';\n el.style.zIndex = 'auto';\n }\n });\n }\n \n unstick();\n \n var observer = new MutationObserver(unstick);\n observer.observe(document.body, { childList: true, subtree: true, attributes: true, attributeFilter: ['style', 'class'] });\n})();", "Kill Sticky Headers"); } } catch(__e) { console.warn('[Userscript:Kill Sticky Headers]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ' Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. 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Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time. , 'i'); if (__m === '*' || __re.test(location.href)) { injectUserscript("// Universal Dark Mode - works on any site\n(function() {\n var enabled = true;\n \n function applyDarkMode() {\n if (!enabled) return;\n \n // Create style element if it doesn't exist\n var style = document.getElementById('universal-dark-mode-style');\n if (!style) {\n style = document.createElement('style');\n style.id = 'universal-dark-mode-style';\n document.head.appendChild(style);\n }\n \n // Dark mode CSS - inverts colors but preserves images/video\n style.textContent = '\n /* Invert everything except media */\n html {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #1a1a2e !important;\n }\n \n /* Restore images, videos, iframes, canvas */\n img, video, iframe, canvas, svg, picture, [style*=\"background-image\"] {\n filter: invert(1) hue-rotate(180deg) !important;\n }\n \n /* Preserve specific elements that should not be inverted */\n .no-dark-mode, .no-dark-mode *,\n [data-theme=\"light\"], [data-theme=\"light\"],\n .ace_editor, .ace_editor *,\n .CodeMirror, .CodeMirror *,\n .monaco-editor, .monaco-editor *,\n .markdown-body pre, .markdown-body pre *,\n .highlight, .highlight *,\n pre code, pre code * {\n filter: none !important;\n }\n \n /* Fix common UI elements */\n .modal, .popup, .dropdown-menu, .tooltip, .popover {\n filter: invert(1) hue-rotate(180deg) !important;\n background: #2d2d44 !important;\n border-color: #444 !important;\n }\n \n /* Scrollbars */\n ::-webkit-scrollbar { background: #1a1a2e !important; }\n ::-webkit-scrollbar-thumb { background: #444 !important; }\n ::-webkit-scrollbar-thumb:hover { background: #555 !important; }\n \n /* Selection */\n ::selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ::-moz-selection { background: #4ecdc4 !important; color: #1a1a2e !important; }\n ';\n }\n \n function removeDarkMode() {\n var style = document.getElementById('universal-dark-mode-style');\n if (style) style.remove();\n }\n \n // Toggle with Alt+Shift+D\n document.addEventListener('keydown', function(e) {\n if (e.altKey && e.shiftKey && e.key === 'D') {\n e.preventDefault();\n enabled = !enabled;\n if (enabled) {\n applyDarkMode();\n console.log('[Universal Dark Mode] Enabled');\n } else {\n removeDarkMode();\n console.log('[Universal Dark Mode] Disabled');\n }\n }\n });\n \n // Apply on load\n applyDarkMode();\n \n // Re-apply on dynamic content\n var observer = new MutationObserver(function(mutations) {\n if (enabled && !document.getElementById('universal-dark-mode-style')) {\n applyDarkMode();\n }\n });\n observer.observe(document.head, { childList: true });\n \n console.log('[Universal Dark Mode] Loaded - Press Alt+Shift+D to toggle');\n})();", "Universal Dark Mode"); } } catch(__e) { console.warn('[Userscript:Universal Dark Mode]', __e); } })(); })(); Skip to contentNavigation Menu Sign inAppearance settings AI CODE CREATIONGitHub CopilotWrite better code with AI GitHub Copilot appDirect agents from issue to merge MCP RegistryIntegrate external tools DEVELOPER WORKFLOWSActionsAutomate any workflow CodespacesInstant dev environments IssuesPlan and track work Code ReviewManage code changes Code QualityEnforce quality at merge APPLICATION SECURITYGitHub Advanced SecurityFind and fix vulnerabilities Code securitySecure your code as you build Secret protectionStop leaks before they start EXPLOREWhy GitHub Documentation Blog Changelog Marketplace View all features BY COMPANY SIZEEnterprises Small and medium teams Startups Nonprofits BY USE CASEApp Modernization DevSecOps DevOps CI/CD View all use cases BY INDUSTRYHealthcare Financial services Manufacturing Government View all industries View all solutions EXPLORE BY TOPICAI Software Development DevOps Security View all topics EXPLORE BY TYPECustomer stories Events & webinars Ebooks & reports Business insights GitHub Skills SUPPORT & SERVICESDocumentation Customer support Community forum Trust center Partners View all resources COMMUNITYGitHub SponsorsFund open source developers PROGRAMSSecurity Lab Maintainer Community GitHub Stars Archive Program REPOSITORIESTopics Trending Collections ENTERPRISE SOLUTIONSEnterprise platformAI-powered developer platform AVAILABLE ADD-ONSGitHub Advanced SecurityEnterprise-grade security features Copilot for BusinessEnterprise-grade AI features Premium SupportEnterprise-grade 24/7 support Pricing Sign in Sign upAppearance settings You signed in with another tab or window. 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Please reload this page. scverse /spatialdata-plotPublic Notifications You must be signed in to change notification settings Fork 21 Star 85 Code Issues18 Pull requests4 Actions Projects Security and quality0 Insights Additional navigation options Code Issues Pull requests Actions Projects Security and quality Insights Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction #696 Copy link Copy link Closed #715 Closed Refactor: split utils.py (4454 lines) into _validate.py / _color.py / _geometry.py and finish _datashader.py extraction#696 #715 Copy link Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Description timtreis opened on Jun 6, 2026 Issue body actions Summary src/spatialdata_plot/pl/utils.py is 4454 lines and mixes several unrelated concerns. Roughly ~3400 of those lines are two cohesive concerns (validation, color resolution) interleaved with everything else. Splitting them into sibling modules would massively improve navigability and shrink the blast radius of changes — with essentially no behavioral risk. Why now Any contributor touching one validation message or color helper must scroll a 4454-line file and risks editing adjacent unrelated code. There is no import cycle in the extraction direction: utils.py imports only from render_params (a leaf) plus third-party libs — never from render.py/basic.py. The consumers import from utils. There is an established precedent: pl/_palette.py and pl/_datashader.py are already self-contained sibling modules. All symbols involved are private (_foo) — no public API surface to preserve. Proposed split New module Moves (approx lines) Examples pl/_validate.py ~1400 _type_check_params (L2660), _validate_*_render_params ×5 (L3106–3835), _validate_show_parameters (L2483), _validate_col_for_column_table, uniqueness/shadow checks pl/_color.py ~1370 _set_color_source_vec (L1265), _map_color_seg (L1486), _extract_colors_from_table_uns (L1689), categorical-mapping chain (L1616–1940), _color_vector_to_rgba, _get_linear_colormap, _set_outline pl/_geometry.py ~460 _get_collection_shape (L601), _convert_shapes (L4273), pathpatch helpers (finish) pl/_datashader.py ~234 the canvas/aggregate helpers still in utils.py (L3910–4451) that _datashader.py currently back-imports — the only near-cycle in the repo. Also fixes the _datshader_get_how_kw_for_spread typo.After these moves, utils.py is left as a ~1000-line grab-bag of genuinely cross-cutting helpers (figure/axes, coord/extent, table extraction). Risk / effort Mechanical: each move is an import-path swap in render.py/basic.py/_datashader.py (their import blocks already group symbols by concern). No cycle, no public surface, covered by existing tests. Effort: medium · Risk: low. Best done as one module per PR. Notes The two mega-functions being relocated (_get_collection_shape, _convert_shapes, _type_check_params, _set_color_source_vec) are themselves decomposition candidates, but that is out of scope here — this issue is the relocation only, to keep diffs reviewable. Decomposition can follow once each lives in a smaller, single-concern file. Part of a maintainability/refactor audit of main. Reactions are currently unavailable Metadata Metadata Assignees No one assigned Labels housekeeping 🧹utils 🔧Anything related to util functionsAnything related to util functions Type No type Projects No projects Milestone No milestone Relationships None yet Development No branches or pull requests Issue actions Footer © 2026 GitHub, Inc. Footer navigation Terms Privacy Security Status Community Docs Contact You can’t perform that action at this time.