Merging and fixing #61
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* add ci for asv benchmark suite * ignore git-lfs stuff? * split qt from non-qt * asv: provide custom uninstall command too * fix yml * matrix goes under strategy! * ugh, it's 'uninstall', not 'remove' * disable build_command * underscore... * it has to be a binary in PATH? * use a different null command * always yes for pip * setup qt libs * use xvfb * try GabrielBB/xvfb-action * parameterize 'run' * add asv quick checks to PR CI * use osx for qt benchmarks? * adjust conf path * fix asv check * better comment * add asv run quick to see how long it takes * asv machine first * split into another job * oops typo * move 'asv checks' to comprehensive * used sed -E for linux/osx compat * fix time_on_mouse_move * skip some tests due to OOM on CI * handle OOM errors in Labels3DSuite too * increase timeout * remove None case from TextManagerSuite * prevent out of bounds error by allowing only one run per setup in time_remove_as_batch * configure for label-based triggers * draft support for scheduled runs and workflow_dispatch * typo * fix assigned var * add delegated workflow that enables comments on PR * message.txt only needed in PRs * add some more comments Co-authored-by: andy-sweet <andy-sweet@users.noreply.github.com> * do not indent that if * explicit timeout Co-authored-by: andy-sweet <andy-sweet@users.noreply.github.com>
* test: speed up notebook test by not using viewer to check alt text * style: pre-commit
* update information about minimal python version * add information about conda PySide2 install * Update docs/tutorials/fundamentals/installation.md Co-authored-by: Draga Doncila Pop <17995243+DragaDoncila@users.noreply.github.com> * fix installation command Co-authored-by: Draga Doncila Pop <17995243+DragaDoncila@users.noreply.github.com>
…napari#4646) * pull out alt-text parameters from viewer * test: speed up notebook test by not using viewer to check alt text * style: pre-commit * magicgui tests work with xdist * move magicgui test * refactor keybindings test * split tests * fix mac * fix tox params, and viewer test * cancel previous runs * bump codecov * explicit backends * fix win 3.10 * mac to 3.9 * try pip * fix extra name * back to tox * back to tox * fix env factors * undo some changes * remove more whitespace * add backend to minreq * try pyside2 on mac * back to pyqt5 on mac * 3.10 for mac * try xdist * bump maxfail * undo xdist change
* add tests for qt_progress_bar.py * coverage _get_value
…astructure (napari#4596) * rewrite JSON, sorting keys * Update logic to not reorder strings. * update json removing nonexisting strings * fix a couple of pytest fixtures * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* build: slight updates/de-dups in setupcfg * unpin lxml, remove semgrep
* cleaning code * provide consistency in shortcut representation * add shortcut for shortcuts show * fix test * add test for action
* ci: fix tox factor names in tests * ci: cancel previous runs
Just to make sure we don't block testing PRs with main Mitigate napari#4653
* do not run asv on test_comprehensive * report failures as issue if non-PR
* test: speed up magicgui forward ref tests * test: fix expected layer methods
* enable patch coverage * set target to 0% to get only information Co-authored-by: Talley Lambert <talley.lambert@gmail.com>
…i#4647) * move test examples on end * allow test because of test order * skip examples by marker * exclude examples from test run * fix tox after merge * fix conf * fix failing test * proper test order on windows * Apply suggestions from code review Co-authored-by: Talley Lambert <talley.lambert@gmail.com> Co-authored-by: Talley Lambert <talley.lambert@gmail.com>
* fix names of future shape/points properties * Also fix current_opacity to opacity * shape opacity applies to all shapes * Update docs/howtos/layers/points.md Co-authored-by: Matthias Bussonnier <bussonniermatthias@gmail.com> Co-authored-by: Andy Sweet <andrew.d.sweet@gmail.com>
* feat: add codespace * fix: fix check manifest
* Alternate fix for alt-text issues * Re-escape alt-text * Re-remove meshzoo * Update explanatory comments
…ari#4675) Bumps [peter-evans/create-pull-request](https://github.com/peter-evans/create-pull-request) from 3 to 4. - [Release notes](https://github.com/peter-evans/create-pull-request/releases) - [Commits](peter-evans/create-pull-request@v3...v4) --- updated-dependencies: - dependency-name: peter-evans/create-pull-request dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
…#4676) * ci(dependabot): bump docker/build-push-action from 2.5.0 to 3 Bumps [docker/build-push-action](https://github.com/docker/build-push-action) from 2.5.0 to 3. - [Release notes](https://github.com/docker/build-push-action/releases) - [Commits](docker/build-push-action@ad44023...e551b19) --- updated-dependencies: - dependency-name: docker/build-push-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> * Update .github/workflows/docker-singularity-publish.yml Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com> Co-authored-by: Talley Lambert <talley.lambert@gmail.com>
Bumps [docker/metadata-action](https://github.com/docker/metadata-action) from 3 to 4. - [Release notes](https://github.com/docker/metadata-action/releases) - [Upgrade guide](https://github.com/docker/metadata-action/blob/master/UPGRADE.md) - [Commits](docker/metadata-action@v3...v4) --- updated-dependencies: - dependency-name: docker/metadata-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
…napari#4678) Bumps [toshimaru/auto-author-assign](https://github.com/toshimaru/auto-author-assign) from 1.3.4 to 1.5.0. - [Release notes](https://github.com/toshimaru/auto-author-assign/releases) - [Changelog](https://github.com/toshimaru/auto-author-assign/blob/main/CHANGELOG.md) - [Commits](toshimaru/auto-author-assign@v1.3.4...v1.5.0) --- updated-dependencies: - dependency-name: toshimaru/auto-author-assign dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Bumps [actions/setup-python](https://github.com/actions/setup-python) from 3 to 4. - [Release notes](https://github.com/actions/setup-python/releases) - [Commits](actions/setup-python@v3...v4) --- updated-dependencies: - dependency-name: actions/setup-python dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* add tests for deepcopy of Expr * fix repr test on 3.8 * fix test again * Update napari/utils/context/_expressions.py * try to fix typing Co-authored-by: Matthias Bussonnier <bussonniermatthias@gmail.com>
* Auto-update _max_length upon setting tail_length * Remove tail_length clipping by _max_length upon update * Move track display limits to constructor * - Auto-update _max_length upon setting head_length - Remove head_length clipping by _max_length upon update * Add test cases for length change * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
…interpolation3d` (napari#4725) * add name migration mechanism * split interpolation on 2 properties fix tests * make interpolation event deprecated * add remove version to `rename_argument` decorator * verify if only one name of argument is used * change to deprecation warnings * make interpolation getter deprecated * move intepolation event to new setters * add type annotation for better refactor support * fix test * fix tox file * fix tox 2 * fix tox 3
Co-authored-by: Grzegorz Bokota <bokota+github@gmail.com> Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
* do not inform about coverage untill all jobs are done * fix codecov.yaml * reduce number
* Allow pandas.Series as properties values * Add numpy array to the tests and mixed cases * Add series property tests to points layer * Adjust according to reviews * Remove debug prints
Bumps [docker/login-action](https://github.com/docker/login-action) from 1.9.0 to 2. - [Release notes](https://github.com/docker/login-action/releases) - [Commits](docker/login-action@28218f9...49ed152) --- updated-dependencies: - dependency-name: docker/login-action dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
…ri#4773) Bumps [bruceadams/get-release](https://github.com/bruceadams/get-release) from 1.2.2 to 1.2.3. - [Release notes](https://github.com/bruceadams/get-release/releases) - [Commits](bruceadams/get-release@v1.2.2...v1.2.3) --- updated-dependencies: - dependency-name: bruceadams/get-release dependency-type: direct:production update-type: version-update:semver-patch ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Bumps [actions/github-script](https://github.com/actions/github-script) from 5 to 6. - [Release notes](https://github.com/actions/github-script/releases) - [Commits](actions/github-script@v5...v6) --- updated-dependencies: - dependency-name: actions/github-script dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
Bumps [actions/download-artifact](https://github.com/actions/download-artifact) from 2 to 3. - [Release notes](https://github.com/actions/download-artifact/releases) - [Commits](actions/download-artifact@v2...v3) --- updated-dependencies: - dependency-name: actions/download-artifact dependency-type: direct:production update-type: version-update:semver-major ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
….0 (napari#4770) Bumps [styfle/cancel-workflow-action](https://github.com/styfle/cancel-workflow-action) from 0.9.1 to 0.10.0. - [Release notes](https://github.com/styfle/cancel-workflow-action/releases) - [Commits](styfle/cancel-workflow-action@0.9.1...0.10.0) --- updated-dependencies: - dependency-name: styfle/cancel-workflow-action dependency-type: direct:production update-type: version-update:semver-minor ... Signed-off-by: dependabot[bot] <support@github.com> Co-authored-by: dependabot[bot] <49699333+dependabot[bot]@users.noreply.github.com>
* docs/index: fix references to main branch * Make references to examples folder link there
* fix clim init for dask arrays * fix tensorstore * avid double-calculation * add test for clim * move test to dask and make sync only * use normalize_dtype
* Update dims.py Add public API for dims transpose * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Remove _transpose usage, deprecate it and fix typos * Fix typo * Update napari/components/dims.py Co-authored-by: Kevin Yamauchi <kevin.yamauchi@gmail.com> * [pre-commit.ci] auto fixes from pre-commit.com hooks for more information, see https://pre-commit.ci * Update dims.py Remove old _transpose private method Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com> Co-authored-by: Matthias Bussonnier <bussonniermatthias@gmail.com> Co-authored-by: Kevin Yamauchi <kevin.yamauchi@gmail.com>
* use npe2 list for plugin info * bump npe2 * fix test * fix test
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Merging main and fixing some broken stuff: the
_ensure_uniquemachinery in layerlist was added later on. Actually, this might need to be added to the LayerGroup as well?Basically only actual change is:
1ff7830