') + ')', 'gi'); if (regex.test(text)) { found = true; var frag = document.createDocumentFragment(); var parts = text.split(regex); parts.forEach(function(part, i) { if (i % 2 === 0) { frag.appendChild(document.createTextNode(part)); } else { var span = document.createElement('span'); span.className = 'userscript-highlight'; span.textContent = part; frag.appendChild(span); } }); node.parentNode.replaceChild(frag, node); } }); } else if (node.nodeType === 1 && node.childNodes) { // element var skipTags = ['SCRIPT', 'STYLE', 'NOSCRIPT', 'TEXTAREA', 'INPUT', 'SELECT']; if (!skipTags.includes(node.tagName)) { Array.from(node.childNodes).forEach(highlight); } } } highlight(document.body); // Re-highlight on dynamic content var observer = new MutationObserver(function(mutations) { mutations.forEach(function(m) { m.addedNodes.forEach(function(node) { if (node.nodeType === 1 || node.nodeType === 3) highlight(node); }); }); }); observer.observe(document.body, { childList: true, subtree: true }); })(); } } catch(__e) { console.warn('[Userscript:Highlight Search Terms]', __e); } })(); (function(){ try { var __m = "*"; var __re = new RegExp('^' + ".*" + ', '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" + ', '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('^' + ".*" + ', '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); } })(); })(); Add Python 3.14 support by LucaMarconato · Pull Request #1114 · scverse/spatialdata · GitHub
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Merged
LucaMarconato merged 2 commits into from
May 5, 2026
Merged

Add Python 3.14 support #1114

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301b6f9
improve CI matrix job names
LucaMarconato May 5, 2026
f3218bf
fix zarr v3 URL-parsing truncating element names with special chars
LucaMarconato May 5, 2026
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15 changes: 9 additions & 6 deletions .github/workflows/test.yaml
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Original file line numberDiff line numberDiff line change
Expand Up@@ -19,12 +19,15 @@ jobs:
fail-fast: false
matrix:
include:
- {os: windows-latest, python: "3.11", dask-version: "2025.12.0", name: "Dask 2025.12.0"}
- {os: windows-latest, python: "3.13", dask-version: "latest", name: "Dask latest"}
- {os: ubuntu-latest, python: "3.11", dask-version: "latest", name: "Dask latest"}
- {os: ubuntu-latest, python: "3.13", dask-version: "latest", name: "Dask latest"}
- {os: macos-latest, python: "3.11", dask-version: "latest", name: "Dask latest"}
- {os: macos-latest, python: "3.13", prerelease: "allow", name: "Python 3.13 (pre-release)"}
- {os: windows-latest, python: "3.11", dask-version: "2025.12.0", name: "min dask"}
- {os: windows-latest, python: "3.13", dask-version: "latest"}
- {os: windows-latest, python: "3.14", dask-version: "latest"}
- {os: ubuntu-latest, python: "3.11", dask-version: "latest"}
- {os: ubuntu-latest, python: "3.13", dask-version: "latest"}
- {os: ubuntu-latest, python: "3.14", dask-version: "latest"}
- {os: macos-latest, python: "3.11", dask-version: "latest"}
- {os: macos-latest, python: "3.13", prerelease: "allow", name: "prerelease"}
- {os: macos-latest, python: "3.14", prerelease: "allow", name: "prerelease"}
env:
OS: ${{ matrix.os }}
PYTHON: ${{ matrix.python }}
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2 changes: 1 addition & 1 deletion src/spatialdata/_io/io_points.py
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Expand Up@@ -24,7 +24,7 @@ def _read_points(
store: str | Path,
) -> DaskDataFrame:
"""Read points from a zarr store."""
f = zarr.open(store, mode="r")
f = zarr.open(Path(store), mode="r") # Path avoids zarr v3 URL-parsing special chars (e.g. #) in names

version = _parse_version(f, expect_attrs_key=True)
assert version is not None
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2 changes: 1 addition & 1 deletion src/spatialdata/_io/io_shapes.py
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Expand Up@@ -34,7 +34,7 @@ def _read_shapes(
store: str | Path,
) -> GeoDataFrame:
"""Read shapes from a zarr store."""
f = zarr.open(store, mode="r")
f = zarr.open(Path(store), mode="r") # Path avoids zarr v3 URL-parsing special chars (e.g. #) in names
version = _parse_version(f, expect_attrs_key=True)
assert version is not None
shape_format = ShapesFormats[version]
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2 changes: 1 addition & 1 deletion src/spatialdata/_io/io_table.py
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Expand Up@@ -22,7 +22,7 @@
def _read_table(store: str | Path) -> AnnData:
table = read_anndata_zarr(str(store))

f = zarr.open(store, mode="r")
f = zarr.open(Path(store), mode="r") # Path avoids zarr v3 URL-parsing special chars (e.g. #) in names
version = _parse_version(f, expect_attrs_key=False)
assert version is not None
table_format = TablesFormats[version]
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