github.com/ome/napari-ome-zarr issues | Ecosyste.ms: OpenCollective

Using zarr group members as channels and layers within Napari

d33bs opened this issue 27 days ago

investigate dropping ome-zarr dependency

will-moore opened this pull request about 1 month ago

Action update

jburel opened this pull request about 2 months ago

Remove py38

jburel opened this pull request about 2 months ago

Use build instead of sdist

jburel opened this pull request about 2 months ago

viewer.add_labels crashes napari 0.5.3 on Mac M1

mathieuboudreau opened this issue 4 months ago

Multiscale ome zarr support

derekthirstrup opened this issue 6 months ago

Fix single channel name logic

dstansby opened this pull request 6 months ago

Unskip QT tests on linux/windows

dstansby opened this pull request 6 months ago

Add tests on Python 3.12

dstansby opened this pull request 6 months ago

Exclude bad version of ome-zarr

dstansby opened this pull request 6 months ago

use the qapp fixture and `qapp.processEvents()`

joshmoore opened this issue 6 months ago

Drop color key

will-moore opened this pull request 6 months ago

Compatibility with latest ome-zarr-py

ziw-liu opened this issue 7 months ago

cap numpy to less than 2

jburel opened this pull request 7 months ago

Labels layers don't load with napari 0.5.0 (dev)

psobolewskiPhD opened this issue 8 months ago

Tests fail with ome-zarr 0.8.3

dstansby opened this issue 8 months ago

Clean up GitHub actions config

dstansby opened this pull request 8 months ago

Can't open zarr contains which contains any other than the expected files

tibuch opened this issue 9 months ago

Not clear if plugin reads whole dataset into memory?

dstansby opened this issue 10 months ago

Can't open Zarr files with labels

FIrgolitsch opened this issue 11 months ago

Error at reading demo file

aloboa opened this issue 11 months ago

Duplicated layers loaded with s3fs & fsspec 2023.12.2

jluethi opened this issue 12 months ago

Writing Labels

FIrgolitsch opened this issue 12 months ago

Converting image to labels

FIrgolitsch opened this issue 12 months ago

issues with loading labels data with this plugin

jni opened this issue 12 months ago

Open data from existing group?

rabernat opened this issue almost 1 year ago

Add OME-NGFF link to README

dstansby opened this pull request about 1 year ago

Add Python 3.11 support

dstansby opened this pull request about 1 year ago

Support for N5 drag and drop

martlj opened this issue over 1 year ago

Error loading HCS plates from S3

elyall opened this issue over 1 year ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 1 year ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 1 year ago

Plugin opens image, but does not display data (everything is 0); SOLVED: must use "/" dimension separator.

GFleishman opened this issue over 1 year ago

right click on layer menu is broken

d-v-b opened this issue over 1 year ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 1 year ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request almost 2 years ago

Fix build

jburel opened this pull request almost 2 years ago

no registered plugin named 'napari-ome-zarr'

will-moore opened this issue almost 2 years ago

Handle AnnData regions tables

will-moore opened this issue almost 2 years ago

Problems opening a 384 well-plate

tibuch opened this issue almost 2 years ago

Remove usage of twine

jburel opened this pull request almost 2 years ago

Update action

jburel opened this pull request almost 2 years ago

Read anndata as napari points and tracks

will-moore opened this pull request almost 2 years ago

Layer name only contains first character from a multi-scale 2D image

andy-sweet opened this issue almost 2 years ago

omero metadata info used in napari

giovp opened this issue almost 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request about 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request about 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request about 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request about 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request about 2 years ago

Support coordinateTransformations on multiscales v0.4

will-moore opened this issue about 2 years ago

Adjust README

pwalczysko opened this pull request about 2 years ago

Support bioformats2raw.layout

will-moore opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

Pre commit ci update config

joshmoore opened this pull request over 2 years ago

Write ome-zarr images (feature request)

haesleinhuepf opened this issue over 2 years ago

Unable to load webknossos hosted zarr datasets

jstriebel opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

Reading from private S3 bucket

jkh1 opened this issue over 2 years ago

Fail to read multi-image.ome.zarr from local filesystem

jkh1 opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

UI controls for browsing Plate Fields

will-moore opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

Allow any filepath that *contains* zarr

will-moore opened this pull request over 2 years ago

Best way to save/view RGB images

maweigert opened this issue over 2 years ago

Demo zarr does not work

maweigert opened this issue over 2 years ago

Add minimal napari requirement for the plugin to be discovered

sbesson opened this pull request over 2 years ago

Treat PlateLabels layer as Labels

will-moore opened this pull request over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

RFE: relax filename_patterns to read child elements

sbesson opened this issue over 2 years ago

open ngff file with lower resolution pyramid

satra opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

OME-XML metadata support

joshmoore opened this pull request over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request over 2 years ago

opening zarr file just the lowest pyramid level is loaded

mfranzon opened this issue over 2 years ago

[pre-commit.ci] pre-commit autoupdate

pre-commit-ci[bot] opened this pull request almost 3 years ago

Copy pre-commit from ome-zarr-py

joshmoore opened this pull request almost 3 years ago

Convert to npe2 (Fix #27 and #41)

joshmoore opened this pull request almost 3 years ago

napari reader preferences are not respected

maweigert opened this issue almost 3 years ago

Is there a equivalent of `channel_axis` property?

ajitjohnson opened this issue almost 3 years ago

High-content screening ngff metadata schema empty image

mfranzon opened this issue almost 3 years ago

Can't open volumetric data via S3 (works locally!)

constantinpape opened this issue almost 3 years ago

CLI: napari <PATH> fails for some ome.zarr files

constantinpape opened this issue almost 3 years ago

Layer names

constantinpape opened this issue almost 3 years ago

Labels should be opened as label layer

constantinpape opened this issue almost 3 years ago

Right click on any layer fails

constantinpape opened this issue almost 3 years ago

Are "labels" supported by the plugin?

constantinpape opened this issue almost 3 years ago

coordinateTransformations scale list

will-moore opened this pull request almost 3 years ago

v0.4 axes transforms

will-moore opened this pull request almost 3 years ago

replace git by https

jburel opened this pull request about 3 years ago

Napari colormaps within OME-Zarr Metadata

camFoltz opened this issue about 3 years ago

CITATION.cff: remove version and date-released and use canonical

sbesson opened this pull request about 3 years ago

Move to new plugin architecture

joshmoore opened this issue about 3 years ago

Add vispy to requirements

DragaDoncila opened this pull request about 3 years ago

Fix link to s3

pwalczysko opened this pull request about 3 years ago

Update README with new URLs

jni opened this pull request about 3 years ago