Ecosyste.ms: Issues
An open API service for providing issue and pull request metadata for open source projects.
GitHub / ome/ome-zarr-py issues and pull requests
#296 - Check Well exists before trying to load data
Pull Request -
State: closed - Opened by will-moore about 1 year ago
- 2 comments
#295 - Set minimum fsspec version
Pull Request -
State: closed - Opened by elyall about 1 year ago
- 1 comment
#294 - writer.write_image requires fsspec>=0.8.0
Issue -
State: closed - Opened by elyall about 1 year ago
- 1 comment
#293 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 1 year ago
#292 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop about 1 year ago
- 1 comment
#291 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop about 1 year ago
- 1 comment
#290 - Changes to scale.py and writer.py to support scaling methods.
Pull Request -
State: open - Opened by sandip-shah about 1 year ago
- 4 comments
#289 - Changelog 0.8.0
Pull Request -
State: closed - Opened by will-moore about 1 year ago
- 2 comments
#288 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 1 year ago
#287 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop over 1 year ago
- 1 comment
#286 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop over 1 year ago
- 2 comments
#285 - View in validator
Pull Request -
State: closed - Opened by will-moore over 1 year ago
#284 - Writing ome-zarr in a serial fashion, one 2D slice at a time
Issue -
State: closed - Opened by ckolluru over 1 year ago
- 4 comments
#283 - writer function to go from large-zarr to ome-zarr (resolution levels + metadata)
Issue -
State: open - Opened by CamachoDejay over 1 year ago
- 2 comments
#282 - write_multiscale() writes to local path on Linux instead of cloud bucket when using dask>=2023.1.0
Issue -
State: open - Opened by carshadi over 1 year ago
- 4 comments
#281 - POC validation of NGFF with pydantic_ome_ngff
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 6 comments
#280 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 1 year ago
#279 - allow main with empty args
Pull Request -
State: closed - Opened by k-dominik over 1 year ago
- 2 comments
#278 - Writing 384-Well Plates
Issue -
State: closed - Opened by r0f1 over 1 year ago
- 2 comments
#277 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop over 1 year ago
- 2 comments
#276 - Test suite failure for commit
Issue -
State: closed - Opened by snoopycrimecop over 1 year ago
- 2 comments
#275 - Zarr dev build
Pull Request -
State: open - Opened by joshmoore over 1 year ago
#274 - Expose storage_options in parse_url
Issue -
State: open - Opened by sebsacuna over 1 year ago
- 1 comment
#273 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 1 year ago
#272 - codespell: config + workflow + pre-commit
Pull Request -
State: closed - Opened by yarikoptic over 1 year ago
- 1 comment
#271 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 1 year ago
#270 - Pre commit ci update config
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 4 comments
#269 - Drop py37
Pull Request -
State: closed - Opened by jburel over 1 year ago
- 1 comment
#268 - Scaling issues
Issue -
State: open - Opened by will-moore over 1 year ago
- 1 comment
#267 - changelog entry for 0.7.0
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 2 comments
#266 - Don't handle exception in Multiscales init()
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 2 comments
#265 - Labels not loaded from cloud buckets
Issue -
State: open - Opened by joshua-gould over 1 year ago
#264 - reader() is not idempotent
Issue -
State: open - Opened by joshua-gould over 1 year ago
- 1 comment
#263 - Sparse plate, with "missing" Wells shouldn't throw exceptions
Issue -
State: closed - Opened by will-moore over 1 year ago
- 3 comments
#262 - Scaler not scaling all dimensions
Issue -
State: open - Opened by FIrgolitsch over 1 year ago
- 1 comment
#261 - add omero metadata to writer
Pull Request -
State: closed - Opened by giovp over 1 year ago
- 30 comments
#260 - writer for omero metadata
Issue -
State: closed - Opened by giovp over 1 year ago
#259 - Upgrade action
Pull Request -
State: closed - Opened by jburel over 1 year ago
#258 - use declarative representation of the spec
Issue -
State: open - Opened by d-v-b over 1 year ago
- 14 comments
#257 - Optimize zarr multiscale writing based on #237
Pull Request -
State: closed - Opened by camilolaiton over 1 year ago
- 11 comments
#256 - Read tables using anndata._io.read_zarr for local data
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 3 comments
#255 - Two questions about converting larger than memory ND data into ome-zarr
Issue -
State: open - Opened by dpshepherd over 1 year ago
- 4 comments
#254 - Multiscale method in write_images ignored (e.g. nearest vs gaussian)
Issue -
State: open - Opened by maweigert over 1 year ago
- 1 comment
#253 - Use zarr default compressor by default
Pull Request -
State: closed - Opened by jni over 1 year ago
- 5 comments
#252 - Reactivate zarr-dev build
Issue -
State: open - Opened by joshmoore over 1 year ago
#251 - Deactivate Zarr dev build
Pull Request -
State: closed - Opened by joshmoore over 1 year ago
- 3 comments
#250 - write_multiscale defaults to no compression
Issue -
State: closed - Opened by jni over 1 year ago
- 2 comments
#249 - Cannot write an image with axis names only
Issue -
State: closed - Opened by andy-sweet over 1 year ago
- 3 comments
#248 - FOV names and array names are hard-coded for the HCS dataset reader
Issue -
State: closed - Opened by ziw-liu over 1 year ago
- 7 comments
#247 - Update URL "https://uk1s3.embassy.ebi.ac.uk/idr/zarr/v0.1/6001240.zarr/" in docs
Issue -
State: closed - Opened by joshua-gould over 1 year ago
- 3 comments
#246 - Fix sphinx package typo in README
Pull Request -
State: closed - Opened by andy-sweet over 1 year ago
- 4 comments
#245 - Unable to Read/Write Multiscale data correctly
Issue -
State: closed - Opened by frankblubaugh over 1 year ago
- 2 comments
#244 - resize each block to custom shape
Pull Request -
State: closed - Opened by will-moore over 1 year ago
- 12 comments
#243 - Bug fix io
Pull Request -
State: closed - Opened by LucaMarconato over 1 year ago
- 5 comments
#242 - `dimensions_separator` from `Format` is not respected by `dask.array.to_zarr()`
Issue -
State: open - Opened by LucaMarconato over 1 year ago
- 1 comment
#241 - [WIP] Support plate loading for varying well sizes (ref #240)
Pull Request -
State: open - Opened by jluethi over 1 year ago
- 12 comments
#240 - Plate loading for wells with varying zyx dimensions
Issue -
State: open - Opened by jluethi over 1 year ago
#239 - Provide a remote/s3 example in the docs
Issue -
State: closed - Opened by joshmoore over 1 year ago
- 2 comments
#238 - [test-bot] pip install --pre is failing
Issue -
State: closed - Opened by github-actions[bot] over 1 year ago
- 1 comment
Labels: bug
#237 - write_multiscale function could be optimized when writing a dask multiscale image
Issue -
State: closed - Opened by camilolaiton over 1 year ago
- 4 comments
#236 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] almost 2 years ago
- 3 comments
#235 - Don't hard-code dimension_separator when reading
Pull Request -
State: closed - Opened by will-moore almost 2 years ago
- 3 comments
#234 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] almost 2 years ago
#233 - scaler.local_mean() maintains dype
Pull Request -
State: closed - Opened by will-moore almost 2 years ago
- 4 comments
#232 - Memory usage can be improved by avoiding dtype conversions
Issue -
State: open - Opened by LucaMarconato almost 2 years ago
- 1 comment
#231 - ome_zarr download uses wrong dimension_separator
Issue -
State: open - Opened by will-moore almost 2 years ago
- 1 comment
Labels: bug
#230 - rgb_to_5d image code does not follow the spec
Issue -
State: open - Opened by ktsitsi almost 2 years ago
- 1 comment
#229 - Draft implementation of the new transform specs
Issue -
State: open - Opened by LucaMarconato almost 2 years ago
- 6 comments
#228 - node.show() to render an Image with set_active_channels
Issue -
State: open - Opened by will-moore almost 2 years ago
- 1 comment
#227 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
#226 - question: transition from hdf5 to ome-zarr-py
Issue -
State: closed - Opened by kasasxav about 2 years ago
- 6 comments
#225 - Handling “acquisitions” in plate & well reading
Issue -
State: open - Opened by jluethi about 2 years ago
- 14 comments
#224 - Add changelog 0.6.0
Pull Request -
State: closed - Opened by will-moore about 2 years ago
- 3 comments
#223 - Dask docs update
Pull Request -
State: closed - Opened by will-moore about 2 years ago
- 1 comment
#222 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
#221 - Storage options copy
Pull Request -
State: closed - Opened by will-moore about 2 years ago
- 2 comments
#220 - Use integer division for new_shape in resize_image
Pull Request -
State: closed - Opened by will-moore about 2 years ago
- 4 comments
#219 - Error when writing to disk a dask-backed xarray
Issue -
State: closed - Opened by LucaMarconato about 2 years ago
- 18 comments
#218 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
- 5 comments
#217 - scaler.local_mean changes the data type to float64
Issue -
State: closed - Opened by constantinpape about 2 years ago
- 2 comments
Labels: bug
#216 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
#215 - Best practices for generating multiscale zarr data?
Issue -
State: open - Opened by GenevieveBuckley about 2 years ago
- 5 comments
#214 - Use multiscales name for node metadata['name']
Pull Request -
State: closed - Opened by will-moore about 2 years ago
- 2 comments
#213 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
#212 - Disable auto_mkdir when path begins with `s3`
Pull Request -
State: closed - Opened by colobas about 2 years ago
- 4 comments
#211 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] about 2 years ago
#210 - How to write image array with 6 or more dimensions to ome-azrr
Issue -
State: open - Opened by sebi06 about 2 years ago
- 5 comments
#209 - Read multi-resolution pyramids in Well class (closes #208)
Pull Request -
State: closed - Opened by tcompa over 2 years ago
- 7 comments
#208 - Read multi-resolution pyramids in Well class
Issue -
State: closed - Opened by tcompa over 2 years ago
#207 - Plate labels fix
Pull Request -
State: open - Opened by will-moore over 2 years ago
- 25 comments
#206 - Write version attribute to image-label specification
Pull Request -
State: closed - Opened by sbesson over 2 years ago
- 1 comment
#205 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 2 years ago
#204 - [pre-commit.ci] pre-commit autoupdate
Pull Request -
State: closed - Opened by pre-commit-ci[bot] over 2 years ago
#203 - Read data from protected s3?
Issue -
State: closed - Opened by BioinfoTongLI over 2 years ago
- 2 comments
#202 - Fix the Zarr development GH workflow following branch renaming
Pull Request -
State: closed - Opened by sbesson over 2 years ago
- 2 comments
#201 - Output is all zeros
Issue -
State: closed - Opened by ahnsws over 2 years ago
- 4 comments
#200 - Read multiple fields of view on a grid, for HCS dataset
Issue -
State: open - Opened by tcompa over 2 years ago
- 16 comments
#199 - Dask write image
Pull Request -
State: closed - Opened by will-moore over 2 years ago
- 2 comments
#198 - Dask poc
Pull Request -
State: closed - Opened by will-moore over 2 years ago
#197 - bugfix in chunks when providing storage_options as dict
Pull Request -
State: closed - Opened by claesenm over 2 years ago
- 2 comments