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Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
…d at compile A module name with no declaration becomes one step carrying the written name, revision and settings; its outputs are the names later modules consume, its inputs the names available before it. Compilation of that step is refused with a message from the module family. A function whose file declares REQUIRED_DISTRIBUTIONS that are not installed stays out of the catalogue and the compiler names the distribution and the extra to install. contracts.json (no reader) is deleted; the module count in the compatibility test is derived from the registry. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
…ching Each is one file: the module declaration and its function. Settings are bound from real .cppipe blocks; outputs are compared with the real plugins run in CellProfiler 4.2.8.1 (plugin commit 5aaa4e5) on 18 cases, max difference 4.2e-7. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
…names what is missing Every setting of each plugin is mapped or ignored with its reason. The modules have no model call here: RunCellpose's parameters follow the Cellpose surface of feature/cellpose-full-surface (signature recorded at 0d127cc). New extras cellpose and stardist; an environment installed before this commit needs its package metadata refreshed, because the catalogue reads extras from it. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
A source tree answers from its pyproject.toml; an installed package from its distribution metadata. Both are found from openhcs.__file__. More than one metadata directory for an installed package is an error naming each. A new extra no longer needs the environment's metadata refreshed. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
The blanket *.json rule kept needed test fixtures out of commits. Generated JSON stays covered by paper/build/, output/ and tests/integration/tests_data/. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
…: 94 of 94 declared LoadData reads its CSV at import as a declared source file: each image or objects name becomes a source binding and each row a source set paired as listed (new pairing in core source bindings). SaveCroppedObjects matches the native module on 9 cases. LabelImages and CreateBatchFiles are settings-only modules. Unsupported LoadData values are refused at import. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
…); tree may be mid-edit, tests not run Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
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Receipt: docs/refactor/consolidation-20261009/CP1-cellprofiler-plugins.md (plugin usage ranking with queries, dates and caveats; today's behaviour; target; remaining list).
Work in progress: mechanism for undeclared modules and for declared modules with an absent optional dependency, then plugin modules in rank order.
CP1 · draft · gates not yet run
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