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Docs: state of 6 Nov 2026; smoke workflows default to the apps' main - #154
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Several pages still described 14 Oct 2026: template 0.1.18 "not merged", the hosts and the Napari plugin "without a tag", apps "pinned to v0.2.0-rc.1" with "decided" next releases, and CellTracksColab "1.1.2 held, no tools on main". Template 0.1.18 merged on 14 Oct, every current app release is built with it and pins v0.3.0-alpha.1, the hosts have alpha releases, and CellTracksColab's bridge is on main and in 1.1.5. The pin table (OPERATIONS) and the app table (REPOSITORIES) now give the state of 6 Nov 2026, read from each repository. smoke_install and smoke_migration defaulted app_ref to the branches bridge-test (CellTracksColab) and claude/merge-bridge-test (NucleiSky), which no longer exist, so a run without inputs would fail at checkout. Both now default to main, where each app's tools module lives. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
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Several pages still described the situation of 14 Oct 2026. This PR updates them to 6 Nov 2026, and fixes two workflow defaults that pointed at deleted branches.
What changed in the docs
hosts:<NAPARI_TAG>placeholderv0.1.0-alpha.4, QuPathv0.1.0-alpha.5v0.2.0-rc.1, pin PRs are drafts, next releases "decided"v0.3.0-alpha.1onmainand in its latest release; pin PRs merged; current line numbers and latest releases (Playground 0.0.5, NucleiSky 0.1.4, VLab4Mic 0.1.7, Guess the Condition 0.0.1, CellTracksColab 1.1.5)main", "1.1.2 held, latest 1.1.1"celltracks_lc_tools, 1 tool,hosts: [notebook]) is onmainand in 1.1.5main(unchanged: 2, 6, 17, 2, plus 1 for CellTracksColab)Still open and left as is: VLab4Mic's README line 57 installs the napari plugin from
refs/heads/main.zip. This is now stated in the pin table. The dated history paragraph at the end of HUMAN_TEST_PROTOCOL ("updated for the tagged alpha.4 set") is also unchanged.Workflow defaults
smoke_installandsmoke_migrationdefaultedapp_reftobridge-test(CellTracksColab) andclaude/merge-bridge-test(NucleiSky). Both branches no longer exist, so a run started without inputs would fail at checkout. Both now default tomain, where each app's tools module lives:celltracks_lc_toolsand thelc_tests/fixtures/tracks.csvthat the smoke args use;nucleisky_lc_tools.TESTING.md's table of defaults says the same. Both workflows only run when started by hand, and neither was run for this PR.
Checks
mainon this Windows PC: 285 tests, the same 2 failures and 64 errors, all Windows environment issues. CI runs them on Linux.🤖 Generated with Claude Code