Skip to content

Initial support for Zarr v3 #290

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Open
wants to merge 12 commits into
base: master
Choose a base branch
from
Open

Initial support for Zarr v3 #290

Show file tree
Hide file tree
Changes from 7 commits
Commits
Show all changes
12 commits
Select commit Hold shift + click to select a range
f3a5383
Initial support for Zarr v3
melissalinkert Sep 17, 2025
9ac541b
Save HCs metadata when writing v3
melissalinkert Sep 18, 2025
080734d
Add basic sharding and codec support for v3
melissalinkert Sep 18, 2025
1faf72c
Fix specification version numbers
melissalinkert Sep 19, 2025
2e363ad
Refactor v2 tests, and add a few v3 tests (more are needed)
melissalinkert Sep 19, 2025
8e12cbe
Fix difference in v2/v3 version and multiscales attributes
melissalinkert Sep 29, 2025
ad1b098
Add a few more v3 tests, including sharding options
melissalinkert Oct 1, 2025
4868446
Add BIT pixel type
melissalinkert Oct 13, 2025
373bb9d
Fix `omero` nesting for 0.5
melissalinkert Oct 13, 2025
37804a7
Fix `dimension_names` for 0.5/v3
melissalinkert Oct 13, 2025
f17f648
Fix `plate` and `well` for 0.5/v3
melissalinkert Oct 13, 2025
348190c
Add `--compress-inner-chunk` option to switch where compression is ap…
melissalinkert Oct 23, 2025
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
1 change: 1 addition & 0 deletions build.gradle
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -41,6 +41,7 @@ dependencies {
implementation 'info.picocli:picocli:4.7.5'
implementation 'com.univocity:univocity-parsers:2.8.4'
implementation 'dev.zarr:jzarr:0.4.2'
implementation 'dev.zarr:zarr-java:0.0.4'
// implementation 'org.carlspring.cloud.aws:s3fs-nio:1.0-SNAPSHOT'
// implementation 'io.nextflow:nxf-s3fs:1.1.0'
implementation 'org.lasersonlab:s3fs:2.2.3'
Expand Down
Loading