Ecosyste.ms: Issues

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GitHub / ome/ome-zarr-py issues and pull requests

#400 - Validate ome.zarr file with the python library?

Issue - State: open - Opened by constantinpape 29 days ago - 7 comments

#398 - Remove GH actions pre-commit workflow

Pull Request - State: open - Opened by dstansby about 1 month ago - 1 comment

#397 - Update version of pyupgrade

Pull Request - State: open - Opened by dstansby about 1 month ago - 1 comment

#396 - Document return values of sample data

Pull Request - State: open - Opened by dstansby about 1 month ago - 1 comment

#395 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: open - Opened by pre-commit-ci[bot] about 2 months ago - 1 comment

#394 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 2 months ago - 1 comment

#393 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 2 months ago

#391 - Enable numpy 2 (lift pin in setup.py)

Pull Request - State: closed - Opened by psobolewskiPhD 2 months ago - 3 comments

#390 - Download via CLI errors without --output option

Issue - State: open - Opened by govekk 3 months ago

#389 - napari 0.5 support

Pull Request - State: closed - Opened by jni 3 months ago - 14 comments

#388 - Write metadata using delayed that depends on writing array(s)

Pull Request - State: closed - Opened by joshua-gould 3 months ago - 5 comments

#387 - Drop aiohttp cap (fix #146)

Pull Request - State: open - Opened by joshmoore 3 months ago

#386 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 3 months ago

#385 - Pin numpy<2 in setup.py

Pull Request - State: closed - Opened by will-moore 3 months ago - 3 comments

#384 - cap numpy to less than 2

Pull Request - State: closed - Opened by jburel 3 months ago

#383 - Zarr v3 support

Pull Request - State: closed - Opened by will-moore 4 months ago - 10 comments

#382 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 4 months ago - 1 comment

#381 - Drop support for Python 3.8

Pull Request - State: closed - Opened by dstansby 4 months ago - 6 comments

#380 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 4 months ago - 1 comment

#376 - Cannot overwrite Zarr opened with `mode= "a"`

Issue - State: open - Opened by chourroutm 5 months ago - 3 comments

#375 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 5 months ago

#373 - Update to codecov 4

Pull Request - State: closed - Opened by joshmoore 5 months ago - 3 comments

#372 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 5 months ago

#371 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 5 months ago

#370 - add #261 to changelog

Pull Request - State: closed - Opened by giovp 5 months ago - 2 comments

#369 - Read from public S3 URI without credentials

Issue - State: closed - Opened by pgarrison 5 months ago

#368 - Package-level members

Issue - State: closed - Opened by vreuter 6 months ago - 2 comments

#367 - Improve CLI docs

Pull Request - State: closed - Opened by dstansby 6 months ago - 3 comments

#366 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 6 months ago - 3 comments

#365 - Fix scalar chunking

Pull Request - State: closed - Opened by dstansby 6 months ago - 3 comments

#363 - unable to `write_image` into a zipStore?

Issue - State: open - Opened by BioinfoTongLI 6 months ago - 1 comment

#362 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 6 months ago

#361 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 6 months ago - 1 comment

#360 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 7 months ago

#359 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 7 months ago

#358 - Allow to change downsample function

Pull Request - State: closed - Opened by nhatnm52 7 months ago - 5 comments

#357 - Reaching maximum recursion depth while loading zarr file

Issue - State: closed - Opened by FIrgolitsch 7 months ago - 9 comments

#355 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 7 months ago

#354 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 8 months ago - 1 comment

#353 - Incompatibility with Poetry?

Issue - State: open - Opened by akhanf 8 months ago - 3 comments

#352 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 8 months ago - 2 comments

#351 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 8 months ago

#350 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 8 months ago

#349 - Support init of ome_zarr_py.io.ZarrLocation with zarr.storage.FSStore

Pull Request - State: closed - Opened by berombau 8 months ago - 7 comments

#348 - [pre-commit.ci] pre-commit autoupdate

Pull Request - State: closed - Opened by pre-commit-ci[bot] 8 months ago - 1 comment

#347 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 9 months ago

#346 - Pyproject.toml & setuptools_scm support

Pull Request - State: open - Opened by joshmoore 9 months ago - 9 comments

#345 - Reading multiscales metadata

Issue - State: closed - Opened by k-dominik 9 months ago - 5 comments

#344 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 10 months ago

#343 - Using parse_url to create a store reads arrays with all zeros

Issue - State: open - Opened by joshua-gould 10 months ago - 10 comments

#342 - Unpin fsspec in dev requirements

Pull Request - State: closed - Opened by dstansby 10 months ago - 2 comments

#341 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 10 months ago

#340 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 10 months ago

#339 - Cannot read coinsdata created according to document

Issue - State: open - Opened by hkthirano 10 months ago - 2 comments

#338 - Simplify testing setup + Python 3.12 tests

Pull Request - State: closed - Opened by dstansby 10 months ago

#337 - Improve documentation structure

Pull Request - State: closed - Opened by dstansby 10 months ago - 1 comment

#336 - Fix doc install instructions in README

Pull Request - State: closed - Opened by dstansby 10 months ago

#335 - Gha update

Pull Request - State: closed - Opened by jburel 10 months ago

#334 - Clarify that dask input images are never computed

Pull Request - State: closed - Opened by dstansby 10 months ago - 1 comment

#333 - Update and fix pre-commit

Pull Request - State: closed - Opened by dstansby 10 months ago - 2 comments

#332 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop 10 months ago

#331 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 10 months ago

#330 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 10 months ago

#329 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 10 months ago

#328 - Only install required deps when testing

Pull Request - State: closed - Opened by dstansby 10 months ago - 1 comment

#327 - Add tests on python 3.11

Pull Request - State: closed - Opened by dstansby 10 months ago - 1 comment

#326 - Simplify first example in docs

Pull Request - State: closed - Opened by dstansby 10 months ago - 1 comment

#325 - Releases on GitHub out of date

Issue - State: closed - Opened by dstansby 10 months ago - 1 comment

#324 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop 11 months ago

#323 - Cannot find HCS well on Windows

Issue - State: closed - Opened by ziw-liu 11 months ago - 2 comments

#322 - fix reading HCS datasets at cloud paths https://github.com/ome/ome-zarr-py/issues/321

Pull Request - State: closed - Opened by elyall 11 months ago - 3 comments

#321 - [Reader] reading HCS file on AWS S3 results in error

Issue - State: closed - Opened by elyall 11 months ago - 14 comments

#320 - fix layout

Pull Request - State: closed - Opened by jburel 11 months ago

#319 - Readme should include how to install sphinx-rtd-theme

Issue - State: closed - Opened by iandobbie 12 months ago

#318 - Clarify that write_multiscale takes pre-computed arrays

Pull Request - State: closed - Opened by dstansby 12 months ago

#317 - update docs to include write example for HCS dataset

Pull Request - State: closed - Opened by elyall 12 months ago - 7 comments

#316 - Minor improvements to format docs

Pull Request - State: closed - Opened by dstansby almost 1 year ago - 1 comment

#315 - Add dask to intersphinx mapping

Pull Request - State: closed - Opened by dstansby almost 1 year ago - 1 comment

#314 - changelog 0.8.2

Pull Request - State: closed - Opened by will-moore almost 1 year ago - 1 comment

#313 - Add conda to installation options

Pull Request - State: closed - Opened by dstansby almost 1 year ago - 1 comment

#312 - Simpler startswith() and isinstance() calls

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago - 1 comment

#311 - Isn't `version` a `str`?

Issue - State: open - Opened by DimitriPapadopoulos about 1 year ago - 2 comments

#310 - `factors` is already a tuple

Pull Request - State: closed - Opened by DimitriPapadopoulos about 1 year ago

#309 - Update python.rst to have min, max for window

Pull Request - State: closed - Opened by seankmartin about 1 year ago - 1 comment

#308 - Test suite failure for commit

Issue - State: closed - Opened by snoopycrimecop about 1 year ago

#307 - Exclude fsspec 2023.9.0

Pull Request - State: closed - Opened by will-moore about 1 year ago

#306 - Test suite failure for commit

Issue - State: open - Opened by snoopycrimecop about 1 year ago

#305 - write_image fails with fsspec 2023.9.0

Issue - State: closed - Opened by joshua-gould about 1 year ago - 1 comment

#303 - Dump sample scripts - maybe add to docs

Pull Request - State: open - Opened by will-moore about 1 year ago - 4 comments

#302 - [test-bot] pip install --pre is failing

Issue - State: open - Opened by github-actions[bot] about 1 year ago - 2 comments
Labels: bug

#301 - Add sphinx_rtd_theme to docs dependencies

Pull Request - State: closed - Opened by will-moore about 1 year ago - 8 comments

#300 - Avoid hard-coded field-of-view path "0"

Pull Request - State: closed - Opened by aeisenbarth about 1 year ago - 5 comments

#299 - Fix compute() on plate grid

Pull Request - State: closed - Opened by will-moore about 1 year ago - 6 comments

#298 - Using a ZipStore instead of FSStore

Issue - State: open - Opened by jni about 1 year ago - 7 comments

#297 - Dask arrays for HCS nodes do not `compute` to NumPy arrays

Issue - State: closed - Opened by ziw-liu about 1 year ago - 2 comments