1.59.1

Fixed

• Differential expression table columns (#1923)

1.59.0

Added

• Speed up, improve scalability of cell filtering initialization (#1915)
• NemoClient for beta NeMO Identifier API integration (#1917)
• Enable hierarchical cell filtering, and reset all filters (#1920)

Fixed

• Ensure correct cell facets on clustering change (#1912)
• Encode annotation names for faceting API (#1913)
• Cell filtering scalability in large datasets (#1914)
• Filter label associations when trimming null filters (#1916)
• Fix mislogged error, improve logger resiliency (#1918)
• Cell filtering bug fixes for queries, reassigning cells (#1919)

1.58.0

Added

• Show cell count beside each filter, update on selection (#1905)

Changed

• Disable cell filtering if study has spatial clustering (#1899)
• Stream, smoothen cell facet loading (#1904)
• Change "Cell filtering" button to "Filter plotted cells" (#1910)
• Bump @babel/traverse from 7.22.8 to 7.23.2 (#1908, #1909)

Fixed

• TypeError when plot is completely filtered (#1907)
• "Cell filtering" button when subsampled (#1906)

1.57.0

Added

• Enable cell filtering by all facets, not just top 5 (#1901)
• Collapsible cell filters, human-friendly names (#1897)

Changed

• Bump postcss from 8.4.27 to 8.4.31 (#1896)
• Update to rails 6.1.7.6 for CVE-2023-38037 (#1898, #1903)

Fixed

• SearchFacetPopulator and associated tests re: OLS updates (#1900)
• Cell filtering after clustering switch (#1895)

1.56.0

Added

• Easier DE upload: flexible headers, better in-app docs (#1874)
• Enable exploring custom metrics and one-vs-rest-only DE from authors (#1890)

Changed

• Cells filtered using facets changed to transparent grey (#1884)
• Handle cell filtering when subsampled, denoise "Subsampling" menu (#1888)
• Remove manual Appcues pin for visualization tour (#1885)
• Change FireCloud to Terra user facing text in study sharing settings (#1886)

Fixed

• Improved error handling for cell filtering UX (#1889)
• Cell filtering: fix panel background, other refinements (#1892)
• Preserve color assignments during cell filtering (#1893)
• Restore breakpoints in local development (#1887)
• Added GOOGLE_PROJECT_NUMBER to cron env file (#1891)

1.55.0

Added

• Manual pin for SCP visualization demo study (#1880)
• Cell Facet Filter Component behind feature flag (#1878)

Fixed

• Adding SENTRY_AUTH_TOKEN to necessary scripts/configs (#1877)
• Addressed CPU issue with syncing very large numbers of files (#1879)
• Check for cluster_group before trying to show an annotation (#1881)
• Revert some styling for explore tab panel (#1882)

1.54.0

Added

• Mass assignment of studies to collections (#1854)
• Instantly filter cells across annotations: client library (#1862)
• Slack alerts for Terra orchestration smoke test failures (#1857)
• Support TSV for author DE upload (#1875)

Changed

• Clearer actions and explanation in gene search error message (#1863 )
• Clearer placeholder text for AnnData clustering obsm key name (#1866)
• Refactor ExploreDisplayTabs adding ExploreDisplayPanelManager for managing upcoming feature (#1867)
• Truncate list of gene names in scatter/violin plots (#1858)
• Update to Terra orchestration API V2 Billing endpoints (#1868)
• Upgrade to N2D instances for ingest (#1870)
• Updating Docker base image (#1871)
• Bump @adobe/css-tools (#1869)

Fixed

• Address OOM exception for ingesting very large AnnData files (#1870)
• Reliability in related genes ideogram for pig (Sus scrofa) (#1873)
• Fix pairwise columns in author DE (#1875)
• No longer need to refresh page to set raw counts associations in upload wizard (#1876)

1.53.0

Added

• Enrich diagrams, onboarding in related genes ideogram (#1855)
• Added corrupted test-workspaces to skip list in cleanup script (#1865)

Changed

• Bump puma from 5.6.4 to 5.6.7 (#1859)

Fixed

• Fix false positive validation failures due to non-ASCII data (#1850)
• Restore Sentry source maps (#1856)

1.52.0

Added

• Multi-gene support and match mode for differential expression search (#1843)
• Improve onboarding for differential expression upload (#1848)

Changed

• Make computing cell name index arrays performant (#1841)
• Prevent uploading differential expression files without specifying required associations (#1844)
• Faster local frontend development for dot plots and heatmaps (#1842)
• Remove modal and renew user access token (#1845, #1852, #1849)
• Reuse expression data across dotplot/heatmap components (#1847, #1851)

Fixed

• Always save log files during CI runs (#1840)
• Addressed corner case for orchestration smoke test failing with no workspaces (#1846)

1.51.0

Added

• Limit CI task to run against staging Terra orchestration API (#1826)
• Link to SCP whitepaper (#1834)
• Log viewport size, per-view counts, and indirect discovery (#1827)

Changed

• Update gene search placeholder (#1833)
• Update Ingest Pipeline to 1.27.3 (#1835)
• Update to Rails 6.1.7.4 (#1832)
• Move @fullhuman/postcss-purgecss to devDependencies (#1836)
• Update semver in image-pipeline (#1837)

Fixed

• Correctly reference number of remaining bytes in daily_download_quota in bulk download (#1830)