github.com/ome/ZarrReader commits | Ecosyste.ms: OpenCollective

Merge pull request #71 from sbesson/bf_7.1.0

Bump Bio-Formats to version 7.1.0

31e9353ee1ce6a5d8c9018df0e8ec40d01759c2d authored 10 months ago

Merge pull request #81 from jburel/add_java17

add Java 17 to testing matrix

72eb4ae3cc8105439060b4d4adf301b484c643b1 authored 10 months ago

Merge pull request #80 from jburel/review_action

Review action

986020ea3314353389631347cc341475413d108b authored 10 months ago

add Java 17 to testing matrix

f8e847054cf9bddb525c5f2489386c5a6c33a23a authored 11 months ago

deploy snapshots and on tag

f83d9e471d199995f43788a9bb2a5e84cef002a8 authored 11 months ago

bump actions/setup-java to v4

f6dd00758bdd37669bc1cc7ff29b079548b58c9f authored 11 months ago

bump actions/checkout to v4

8880030122bf50ef83436093cc63c369d4b54ff3 authored 11 months ago

use snapshot

f05826b3c9ddf15b80056e548e21adea4d766c54 authored 11 months ago

Merge pull request #79 from dgault/v0.4.1

Bump version to 0.4.1

cf4f3f22b77755f8e6f14084b467f45e21f75278 authored 11 months ago

Bump version to 0.4.1

4e9b08ac058f5c73a3c5db5928d3a6472384eb64 authored 11 months ago

Merge pull request #78 from dgault/reduce-memo-file

Reduce number of fields in memo file

0a2d79ba8be58444f38617aa6264684c0ff17143 authored 11 months ago

Don't copy over any original annotations

75814b4205fc5b7cfa92a28d5542a57dd71c0faa authored 11 months ago

Don't populate originalMetadata by default

0130777e5ec5b63a9004116ceba47282d1290dca authored 11 months ago

Reduce number of fields in memo file

153a466deb98f698d1b8b581d9e25043e2c51292 authored 12 months ago

Deploy artifacts directly to ome.releases

581e857d6c8a3d03611dd449886681b6d6d1544f authored about 1 year ago

Bump Bio-Formats to version 7.1.0

Also bump xalan to version 2.7.3

b377fff35ff7b43a7bc8989dcb5abca0ddda1cac authored about 1 year ago

Merge pull request #70 from dgault/v0.4.1-SNAPSHOT

Bump version to 0.4.1-SNAPSHOT

4deea8dc5017678ffb507503c249fb7d3c05802a authored about 1 year ago

Bump version to 0.4.1-SNAPSHOT

401c999c49479353c0ec3f7077a5e6b55f0c51c7 authored about 1 year ago

Merge pull request #69 from dgault/v0.4.0

Bump version to 0.4.0

1d18bbccbe5b04f66f533397f6cfa17be0507ef4 authored about 1 year ago

Bump version to 0.4.0

f378b60fd03a1cf9788777888cdff7e055ba7b75 authored about 1 year ago

Merge pull request #62 from ome/joshmoore-patch-1

Update README.md

82ce2d9c9f2e301d2203998b2697f394e0cd1ca1 authored about 1 year ago

Merge pull request #64 from dgault/zarr-performance

ZarrReader performance improvements

8a02b4fa1ac7c1c1a89b160aab69d63397e5ca79 authored about 1 year ago

Merge pull request #65 from dgault/bf7-bump

Bumping Bio-Formats version to 7.0.0

e1790e3c9f1b1e02c2ff87840c675dea3f8332f1 authored about 1 year ago

Add some Javadoc for options

d4b1130060e47a7aeee2ad81f7a91a07cbf11701 authored about 1 year ago

Change default behaviour to not include performance changes

94f707f11318f9c492c12e2423397519d65c94d1 authored about 1 year ago

Unify options prefixes to omezarr

e50eb50c6b0dcbfb663ff8e7873b069bcca75a57 authored about 1 year ago

Update getRequiredDirectories

30f87f7d3ce51d7482e19543027a60ca921fd6c2 authored about 1 year ago

Merge pull request #66 from sbesson/unidata

Bump dev.zarr:jzarr to 0.4.2

ac1320775141dca3a4948d50076893e2681ff768 authored about 1 year ago

Remove unnecessary logging statements

ae6532177fa63d8229a18a3a2ef77e0f56cb8abe authored about 1 year ago

Ensure WellSampleIndex is used when comparing to OME-XML

6b1da5172b3f85b109dc27ea6edcfe0b8cfe84c3 authored about 1 year ago

Remove unnecessary bfoptions extension

4357f54557083e907ebc8c4507b726b352aede42 authored about 1 year ago

Test removing the cache in the GitHub workflow

f87969b99380c90b90163e92581d98d470262856 authored about 1 year ago

Revert "Declare Unidata repository to fetch transitive netcdf dependencies"

This reverts commit 58e42164e6c0ede4e75939b548480a883e4b4af2.

7613b642ec6390041bc64a6162205864a4574caf authored about 1 year ago

Bump dev.zarr:jzarr to versio 0.4.2

53f6646f2e3b618d517fafedead1281245f1e824 authored about 1 year ago

Force ZarrReader to read bfoptions file

a7ec0c4e4f5543cd9742611c71c427f131e01e03 authored about 1 year ago

Declare Unidata repository to fetch transitive netcdf dependencies

58e42164e6c0ede4e75939b548480a883e4b4af2 authored about 1 year ago

Add new method to reload options file

f51ae44c006cb0dbdb723c3c28594bb89ec3f21f authored about 1 year ago

Change default value of list pixels to true

12617b837eed190c86d96ed78739ade8581263d1 authored about 1 year ago

Add support for environment variable OME_ZARR_LIST_PIXELS

290d7678c05d7687f493f8a2e94620539958461f authored about 1 year ago

Add new option for handling images in labels folder

7bba003d7317141612b6a61f0115d70e9aefff95 authored about 1 year ago

Do not assume label images have same resolution levels

e3b1d23bf663ca5c0c2cd569b81c32a9bd9c750c authored about 1 year ago

Revert "revert getUsedFiles behaviour to remove skipPixels"

This reverts commit 8aee5d81bc09f20fd9856498b157d4360e1bb9cb.

# Conflicts:
# src/loci/formats/i...

b20ef9c57cc236db83a5935713723f87050fbf21 authored over 1 year ago

Revert "Remove unused listPixels option"

This reverts commit 0f3fcdda1cd046f5bfa5311baa8e899e5e7a87b3.

82ac198fd3c5cc80f6ada1bdb03509fa0294ebb7 authored over 1 year ago

Bumping Bio-Formats version to 7.0.0

bea27a49ab1998225e45f5fe69e971ca2a0384a9 authored over 1 year ago

Update logging statements

f2a2fb3dc7e1548377c77cc2ead906a9e1b136b2 authored over 1 year ago

Remove unused listPixels option

0f3fcdda1cd046f5bfa5311baa8e899e5e7a87b3 authored over 1 year ago

revert getUsedFiles behaviour to remove skipPixels

8aee5d81bc09f20fd9856498b157d4360e1bb9cb authored over 1 year ago

Add additional logging to getUsedFiles

aeadb2d1345b8e0500d5f93fc700e04ad3ca68b7 authored over 1 year ago

Check directory when generating group keys and array paths

ff7b03150669df40174e31682885d4b2d89aa095 authored over 1 year ago

Add logging for getUsedFiles

bff43c9d8cade861dd5141b90871ec489b219567 authored over 1 year ago

Temporarily use error level logging

38d5fa843c27f1ab1dba56b054f872bd10780120 authored over 1 year ago

Merge reorder group keys changes from ZarrReader/pull/53

6371c790a70306bbfcf1365d64bad04c19fc538d authored over 1 year ago

Update close to reset variables

2a7bd44ecf66c3bf776a9efd76ce8ff3ef436599 authored over 1 year ago

Update getRequiredDirectories

d4d77dc0dae62f0601d4439aef0c356683f859c2 authored over 1 year ago

Add additional initFile logging

a96f0adf82608560a50dba289c7ff4812e08df09 authored over 1 year ago

Update close to clear existing variables

66d15590a66596548e1bce9c5fd1a6e0204735f3 authored over 1 year ago

Store resolution shapes after converting to 5D

3e7dfaae7ccdd6c34a40d20d20361d49383aca82 authored over 1 year ago

Avoid duplicate calls in openZarr

f32b8bcb2bd35ab1c413ee013bb4d03432e6dd63 authored over 1 year ago

update setResolution to call openZarr

3246a712842ac89c7f1e75d55515c939c77d6101 authored over 1 year ago

Update arrayKey generation to revert if resolution counts differ

f14c44bc8ea4ff25b39441ed01c88ee4bb14e6fc authored over 1 year ago

Generate groupKeys and arrayPaths from top level attributes

a1af893fd8ae13c036061e327cd28bf911aebe7b authored over 1 year ago

Add quick read option if shape and pixel type remains consistent

3f09254740d03a7809ce14e3ae49a7bae2c2dde8 authored over 1 year ago

Merge list pixels option for getUsedFiles

a1d4bea5640918a2fe5d4e303f0ab149f59ad40b authored over 1 year ago

ZarrReader: Remove incorrect override

434cf20ec1a9b8362986698351a2cbcfe4d0221b authored over 1 year ago

Add new setResolution if option to open-air

d30c0f013dddf01e21130bf00524355f3705a27b authored over 1 year ago

ZarrReader performance improvements

a90a30509c0aaec896a18d03eff2b0ea042818f4 authored over 1 year ago

Update README.md

Fix #60

- [x] remove previous custom jar requirements
- [x] add current installation instruc...

cfdfa2e81f753b76d283f9e9762bc91db7a71d26 authored over 1 year ago

Merge pull request #59 from jburel/actions_update

Actions update

2d75020cd3ef9e096e629578afd497127c516ede authored over 1 year ago

remove lines

faf7ec65d9a80872934e6895c55c99d865b7d543 authored over 1 year ago

bump version to avoid warning

88bd9b166b16a49dc62cec0401a2198aa07f8188 authored over 1 year ago

Merge pull request #54 from joshmoore/dev.zarr.jzarr

Move to dev.zarr:jzarr

d1c62234d6572b98c406cc36a36ec573bc3e4b75 authored over 1 year ago

Merge pull request #57 from dgault/zarrService-canonicalPath

Use canonical path for calls to ZarrService

7f2c1de1845346cdd941143c013c5ed84fc41083 authored over 1 year ago

GetUsedFiles: Use FOLLOW_LINKS option

ab4b06054b95387d8f5466fe3dc85edc2ee616cc authored over 1 year ago

Use canonicalPath in test

5dc080c7c37232ed54556d64ba6bf040c964d772 authored over 1 year ago

Use canonicalPath for all ZarrService calls

741e72172dd163ceaab139b0e122a2d151d879a5 authored over 1 year ago

Use canonical path when calling ZarrService

d017b6041ac22a961f49074a4a14c657a674557b authored over 1 year ago

Bump to jzarr 0.4.0

a6cf72bd694a3abc34a052f0d16fc3512c7b2e9a authored over 1 year ago

Merge pull request #56 from jburel/duplicate

remove duplicate declaration

13b94e70d8b1a33434dd1d2074b5886c99d6157c authored over 1 year ago

remove duplicate declaration

ecf15f594325181404151078b94686ce79848a17 authored over 1 year ago

Move to dev.zarr:jzarr

e5a9cf2a6427aa1053c7bf74076a29891a7cbb70 authored over 1 year ago

Merge pull request #51 from dgault/0.3.2-SNAPSHOT

Bump version to 0.3.2-SNAPSHOT

87f64f4f49a77eb705b04a2676e9a382c628eedc authored almost 2 years ago

Bump version to 0.3.2-SNAPSHOT

df6843cfdf1a84c398e16d4eb73cfe01afbf568f authored almost 2 years ago

Merge pull request #50 from dgault/0.3.1-version-bump

Bump version to 0.3.1

cfd91997b4045ccf69efd04c02323181261cdb4d authored almost 2 years ago

Bump version to 0.3.1

3896d0a6faa0527d3654b2aed50cf6cd83962c40 authored almost 2 years ago

add license file

f3ac32d64ae23ab7b31be69e314633c6ebe47d44 authored almost 2 years ago

Merge pull request #49 from dgault/plate-well-OMEXML

ZarrReader: Update handling of pre-existing plate metadata

2e3dec49100f5c562d15c406027f007a8313b499 authored almost 2 years ago

ZarrReader: Update handling of pre-existing plate metadata

b269c776462618c96ee8f79fe6ede4d2337e39e6 authored almost 2 years ago

Merge pull request #47 from jburel/update_setup_java

upgrade setup-java action. Current version uses set-output

373bac3bf640f7a4172d3fda757d6644e222080f authored almost 2 years ago

use 8 instead of 1.8

eaa73a95a7b0d20a346b0a76884e310de70d4187 authored about 2 years ago

use correct parameter

2591f709429161fb02791db9005362de1f4de19b authored about 2 years ago

upgrade set-up action. Current version uses set-output

0b565c21c93d17d0dac443756204c43adf0d0637 authored about 2 years ago

Merge pull request #42 from jburel/output

switch to new output command

32afa639cb40cc9dda8f361968a41e45ef2aa71e authored about 2 years ago

switch to new output command

82bf84b9658917cbe491358028ce3e8162a8d519 authored about 2 years ago

Bump version to 0.3.1-SNAPSHOT

830aee33d6ecab35b4f830048b247061f5ad2be3 authored over 2 years ago

Bump release version to 0.3.0

c75d6c495d19c77666f8564017d63ced1666e7c9 authored over 2 years ago

Merge pull request #38 from dgault/dependency-updates

Dependency updates

3205f7a9384d7a8276d7ee87a8557ca7a3dc5da3 authored over 2 years ago

Update location of test files and scope of test dependencies

af893b938cd114f7407ffbda405a4659fbf85146 authored over 2 years ago

Bump testing in ZarrReader to 6.10

a7942b4523bc2b6c4ea8920efa8139bc8b675dc2 authored over 2 years ago

Add objenesis dependency

0a49867d6dd99c696005481f63c05943b84e4bf2 authored over 2 years ago

Reorder formats-api dependency

0b73f24667e3e19fb2cc176b1291d7ea03d33daa authored over 2 years ago