Ecosyste.ms: OpenCollective

An open API service for software projects hosted on Open Collective.

github.com/ome/ZarrReader


https://github.com/ome/ZarrReader

Merge pull request #71 from sbesson/bf_7.1.0

Bump Bio-Formats to version 7.1.0

31e9353ee1ce6a5d8c9018df0e8ec40d01759c2d authored 10 months ago by jean-marie burel <[email protected]>
Merge pull request #81 from jburel/add_java17

add Java 17 to testing matrix

72eb4ae3cc8105439060b4d4adf301b484c643b1 authored 10 months ago by jean-marie burel <[email protected]>
Merge pull request #80 from jburel/review_action

Review action

986020ea3314353389631347cc341475413d108b authored 10 months ago by jean-marie burel <[email protected]>
add Java 17 to testing matrix

f8e847054cf9bddb525c5f2489386c5a6c33a23a authored 11 months ago by Jean-Marie Burel <[email protected]>
deploy snapshots and on tag

f83d9e471d199995f43788a9bb2a5e84cef002a8 authored 11 months ago by Jean-Marie Burel <[email protected]>
bump actions/setup-java to v4

f6dd00758bdd37669bc1cc7ff29b079548b58c9f authored 11 months ago by Jean-Marie Burel <[email protected]>
bump actions/checkout to v4

8880030122bf50ef83436093cc63c369d4b54ff3 authored 11 months ago by Jean-Marie Burel <[email protected]>
use snapshot

f05826b3c9ddf15b80056e548e21adea4d766c54 authored 11 months ago by Jean-Marie Burel <[email protected]>
Merge pull request #79 from dgault/v0.4.1

Bump version to 0.4.1

cf4f3f22b77755f8e6f14084b467f45e21f75278 authored 11 months ago by David Gault <[email protected]>
Bump version to 0.4.1

4e9b08ac058f5c73a3c5db5928d3a6472384eb64 authored 11 months ago by David Gault <[email protected]>
Merge pull request #78 from dgault/reduce-memo-file

Reduce number of fields in memo file

0a2d79ba8be58444f38617aa6264684c0ff17143 authored 11 months ago by jean-marie burel <[email protected]>
Don't copy over any original annotations

75814b4205fc5b7cfa92a28d5542a57dd71c0faa authored 11 months ago by David Gault <[email protected]>
Don't populate originalMetadata by default

0130777e5ec5b63a9004116ceba47282d1290dca authored 11 months ago by David Gault <[email protected]>
Reduce number of fields in memo file

153a466deb98f698d1b8b581d9e25043e2c51292 authored 11 months ago by David Gault <[email protected]>
Deploy artifacts directly to ome.releases

581e857d6c8a3d03611dd449886681b6d6d1544f authored about 1 year ago by Sébastien Besson <[email protected]>
Bump Bio-Formats to version 7.1.0

Also bump xalan to version 2.7.3

b377fff35ff7b43a7bc8989dcb5abca0ddda1cac authored about 1 year ago by Sébastien Besson <[email protected]>
Merge pull request #70 from dgault/v0.4.1-SNAPSHOT

Bump version to 0.4.1-SNAPSHOT

4deea8dc5017678ffb507503c249fb7d3c05802a authored about 1 year ago by David Gault <[email protected]>
Bump version to 0.4.1-SNAPSHOT

401c999c49479353c0ec3f7077a5e6b55f0c51c7 authored about 1 year ago by David Gault <[email protected]>
Merge pull request #69 from dgault/v0.4.0

Bump version to 0.4.0

1d18bbccbe5b04f66f533397f6cfa17be0507ef4 authored about 1 year ago by David Gault <[email protected]>
Bump version to 0.4.0

f378b60fd03a1cf9788777888cdff7e055ba7b75 authored about 1 year ago by David Gault <[email protected]>
Merge pull request #62 from ome/joshmoore-patch-1

Update README.md

82ce2d9c9f2e301d2203998b2697f394e0cd1ca1 authored about 1 year ago by David Gault <[email protected]>
Merge pull request #64 from dgault/zarr-performance

ZarrReader performance improvements

8a02b4fa1ac7c1c1a89b160aab69d63397e5ca79 authored about 1 year ago by David Gault <[email protected]>
Merge pull request #65 from dgault/bf7-bump

Bumping Bio-Formats version to 7.0.0

e1790e3c9f1b1e02c2ff87840c675dea3f8332f1 authored about 1 year ago by David Gault <[email protected]>
Add some Javadoc for options

d4b1130060e47a7aeee2ad81f7a91a07cbf11701 authored about 1 year ago by David Gault <[email protected]>
Change default behaviour to not include performance changes

94f707f11318f9c492c12e2423397519d65c94d1 authored about 1 year ago by David Gault <[email protected]>
Unify options prefixes to omezarr

e50eb50c6b0dcbfb663ff8e7873b069bcca75a57 authored about 1 year ago by David Gault <[email protected]>
Update getRequiredDirectories

30f87f7d3ce51d7482e19543027a60ca921fd6c2 authored about 1 year ago by David Gault <[email protected]>
Merge pull request #66 from sbesson/unidata

Bump dev.zarr:jzarr to 0.4.2

ac1320775141dca3a4948d50076893e2681ff768 authored about 1 year ago by David Gault <[email protected]>
Remove unnecessary logging statements

ae6532177fa63d8229a18a3a2ef77e0f56cb8abe authored about 1 year ago by David Gault <[email protected]>
Ensure WellSampleIndex is used when comparing to OME-XML

6b1da5172b3f85b109dc27ea6edcfe0b8cfe84c3 authored about 1 year ago by David Gault <[email protected]>
Remove unnecessary bfoptions extension

4357f54557083e907ebc8c4507b726b352aede42 authored about 1 year ago by David Gault <[email protected]>
Test removing the cache in the GitHub workflow

f87969b99380c90b90163e92581d98d470262856 authored about 1 year ago by Sébastien Besson <[email protected]>
Revert "Declare Unidata repository to fetch transitive netcdf dependencies"

This reverts commit 58e42164e6c0ede4e75939b548480a883e4b4af2.

7613b642ec6390041bc64a6162205864a4574caf authored about 1 year ago by Sébastien Besson <[email protected]>
Bump dev.zarr:jzarr to versio 0.4.2

53f6646f2e3b618d517fafedead1281245f1e824 authored about 1 year ago by Sébastien Besson <[email protected]>
Force ZarrReader to read bfoptions file

a7ec0c4e4f5543cd9742611c71c427f131e01e03 authored about 1 year ago by David Gault <[email protected]>
Declare Unidata repository to fetch transitive netcdf dependencies

58e42164e6c0ede4e75939b548480a883e4b4af2 authored about 1 year ago by Sébastien Besson <[email protected]>
Add new method to reload options file

f51ae44c006cb0dbdb723c3c28594bb89ec3f21f authored about 1 year ago by David Gault <[email protected]>
Change default value of list pixels to true

12617b837eed190c86d96ed78739ade8581263d1 authored about 1 year ago by David Gault <[email protected]>
Add support for environment variable OME_ZARR_LIST_PIXELS

290d7678c05d7687f493f8a2e94620539958461f authored about 1 year ago by David Gault <[email protected]>
Add new option for handling images in labels folder

7bba003d7317141612b6a61f0115d70e9aefff95 authored about 1 year ago by David Gault <[email protected]>
Do not assume label images have same resolution levels

e3b1d23bf663ca5c0c2cd569b81c32a9bd9c750c authored about 1 year ago by David Gault <[email protected]>
Revert "revert getUsedFiles behaviour to remove skipPixels"

This reverts commit 8aee5d81bc09f20fd9856498b157d4360e1bb9cb.

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

b20ef9c57cc236db83a5935713723f87050fbf21 authored about 1 year ago by David Gault <[email protected]>
Revert "Remove unused listPixels option"

This reverts commit 0f3fcdda1cd046f5bfa5311baa8e899e5e7a87b3.

82ac198fd3c5cc80f6ada1bdb03509fa0294ebb7 authored about 1 year ago by David Gault <[email protected]>
Bumping Bio-Formats version to 7.0.0

bea27a49ab1998225e45f5fe69e971ca2a0384a9 authored over 1 year ago by David Gault <[email protected]>
Update logging statements

f2a2fb3dc7e1548377c77cc2ead906a9e1b136b2 authored over 1 year ago by David Gault <[email protected]>
Remove unused listPixels option

0f3fcdda1cd046f5bfa5311baa8e899e5e7a87b3 authored over 1 year ago by David Gault <[email protected]>
revert getUsedFiles behaviour to remove skipPixels

8aee5d81bc09f20fd9856498b157d4360e1bb9cb authored over 1 year ago by David Gault <[email protected]>
Add additional logging to getUsedFiles

aeadb2d1345b8e0500d5f93fc700e04ad3ca68b7 authored over 1 year ago by David Gault <[email protected]>
Check directory when generating group keys and array paths

ff7b03150669df40174e31682885d4b2d89aa095 authored over 1 year ago by David Gault <[email protected]>
Add logging for getUsedFiles

bff43c9d8cade861dd5141b90871ec489b219567 authored over 1 year ago by David Gault <[email protected]>
Temporarily use error level logging

38d5fa843c27f1ab1dba56b054f872bd10780120 authored over 1 year ago by David Gault <[email protected]>
Merge reorder group keys changes from ZarrReader/pull/53

6371c790a70306bbfcf1365d64bad04c19fc538d authored over 1 year ago by David Gault <[email protected]>
Update close to reset variables

2a7bd44ecf66c3bf776a9efd76ce8ff3ef436599 authored over 1 year ago by David Gault <[email protected]>
Update getRequiredDirectories

d4d77dc0dae62f0601d4439aef0c356683f859c2 authored over 1 year ago by David Gault <[email protected]>
Add additional initFile logging

a96f0adf82608560a50dba289c7ff4812e08df09 authored over 1 year ago by David Gault <[email protected]>
Update close to clear existing variables

66d15590a66596548e1bce9c5fd1a6e0204735f3 authored over 1 year ago by David Gault <[email protected]>
Store resolution shapes after converting to 5D

3e7dfaae7ccdd6c34a40d20d20361d49383aca82 authored over 1 year ago by David Gault <[email protected]>
Avoid duplicate calls in openZarr

f32b8bcb2bd35ab1c413ee013bb4d03432e6dd63 authored over 1 year ago by David Gault <[email protected]>
update setResolution to call openZarr

3246a712842ac89c7f1e75d55515c939c77d6101 authored over 1 year ago by David Gault <[email protected]>
Update arrayKey generation to revert if resolution counts differ

f14c44bc8ea4ff25b39441ed01c88ee4bb14e6fc authored over 1 year ago by David Gault <[email protected]>
Generate groupKeys and arrayPaths from top level attributes

a1af893fd8ae13c036061e327cd28bf911aebe7b authored over 1 year ago by David Gault <[email protected]>
Add quick read option if shape and pixel type remains consistent

3f09254740d03a7809ce14e3ae49a7bae2c2dde8 authored over 1 year ago by David Gault <[email protected]>
Merge list pixels option for getUsedFiles

a1d4bea5640918a2fe5d4e303f0ab149f59ad40b authored over 1 year ago by David Gault <[email protected]>
ZarrReader: Remove incorrect override

434cf20ec1a9b8362986698351a2cbcfe4d0221b authored over 1 year ago by David Gault <[email protected]>
Add new setResolution if option to open-air

d30c0f013dddf01e21130bf00524355f3705a27b authored over 1 year ago by David Gault <[email protected]>
ZarrReader performance improvements

a90a30509c0aaec896a18d03eff2b0ea042818f4 authored over 1 year ago by David Gault <[email protected]>
Update README.md

Fix #60

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

cfdfa2e81f753b76d283f9e9762bc91db7a71d26 authored over 1 year ago by Josh Moore <[email protected]>
Merge pull request #59 from jburel/actions_update

Actions update

2d75020cd3ef9e096e629578afd497127c516ede authored over 1 year ago by jean-marie burel <[email protected]>
remove lines

faf7ec65d9a80872934e6895c55c99d865b7d543 authored over 1 year ago by Jean-Marie Burel <[email protected]>
bump version to avoid warning

88bd9b166b16a49dc62cec0401a2198aa07f8188 authored over 1 year ago by Jean-Marie Burel <[email protected]>
Merge pull request #54 from joshmoore/dev.zarr.jzarr

Move to dev.zarr:jzarr

d1c62234d6572b98c406cc36a36ec573bc3e4b75 authored over 1 year ago by David Gault <[email protected]>
Merge pull request #57 from dgault/zarrService-canonicalPath

Use canonical path for calls to ZarrService

7f2c1de1845346cdd941143c013c5ed84fc41083 authored over 1 year ago by Josh Moore <[email protected]>
GetUsedFiles: Use FOLLOW_LINKS option

ab4b06054b95387d8f5466fe3dc85edc2ee616cc authored over 1 year ago by David Gault <[email protected]>
Use canonicalPath in test

5dc080c7c37232ed54556d64ba6bf040c964d772 authored over 1 year ago by Josh Moore <[email protected]>
Use canonicalPath for all ZarrService calls

741e72172dd163ceaab139b0e122a2d151d879a5 authored over 1 year ago by David Gault <[email protected]>
Use canonical path when calling ZarrService

d017b6041ac22a961f49074a4a14c657a674557b authored over 1 year ago by David Gault <[email protected]>
Bump to jzarr 0.4.0

a6cf72bd694a3abc34a052f0d16fc3512c7b2e9a authored over 1 year ago by Josh Moore <[email protected]>
Merge pull request #56 from jburel/duplicate

remove duplicate declaration

13b94e70d8b1a33434dd1d2074b5886c99d6157c authored over 1 year ago by David Gault <[email protected]>
remove duplicate declaration

ecf15f594325181404151078b94686ce79848a17 authored over 1 year ago by Jean-Marie Burel <[email protected]>
Move to dev.zarr:jzarr

e5a9cf2a6427aa1053c7bf74076a29891a7cbb70 authored over 1 year ago by Josh Moore <[email protected]>
Merge pull request #51 from dgault/0.3.2-SNAPSHOT

Bump version to 0.3.2-SNAPSHOT

87f64f4f49a77eb705b04a2676e9a382c628eedc authored almost 2 years ago by David Gault <[email protected]>
Bump version to 0.3.2-SNAPSHOT

df6843cfdf1a84c398e16d4eb73cfe01afbf568f authored almost 2 years ago by David Gault <[email protected]>
Merge pull request #50 from dgault/0.3.1-version-bump

Bump version to 0.3.1

cfd91997b4045ccf69efd04c02323181261cdb4d authored almost 2 years ago by David Gault <[email protected]>
Bump version to 0.3.1

3896d0a6faa0527d3654b2aed50cf6cd83962c40 authored almost 2 years ago by David Gault <[email protected]>
add license file

f3ac32d64ae23ab7b31be69e314633c6ebe47d44 authored almost 2 years ago by Jean-Marie Burel <[email protected]>
Merge pull request #49 from dgault/plate-well-OMEXML

ZarrReader: Update handling of pre-existing plate metadata

2e3dec49100f5c562d15c406027f007a8313b499 authored almost 2 years ago by David Gault <[email protected]>
ZarrReader: Update handling of pre-existing plate metadata

b269c776462618c96ee8f79fe6ede4d2337e39e6 authored almost 2 years ago by David Gault <[email protected]>
Merge pull request #47 from jburel/update_setup_java

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

373bac3bf640f7a4172d3fda757d6644e222080f authored almost 2 years ago by Josh Moore <[email protected]>
use 8 instead of 1.8

eaa73a95a7b0d20a346b0a76884e310de70d4187 authored almost 2 years ago by Jean-Marie Burel <[email protected]>
use correct parameter

2591f709429161fb02791db9005362de1f4de19b authored almost 2 years ago by Jean-Marie Burel <[email protected]>
upgrade set-up action. Current version uses set-output

0b565c21c93d17d0dac443756204c43adf0d0637 authored almost 2 years ago by Jean-Marie Burel <[email protected]>
Merge pull request #42 from jburel/output

switch to new output command

32afa639cb40cc9dda8f361968a41e45ef2aa71e authored about 2 years ago by jean-marie burel <[email protected]>
switch to new output command

82bf84b9658917cbe491358028ce3e8162a8d519 authored about 2 years ago by Jean-Marie Burel <[email protected]>
Bump version to 0.3.1-SNAPSHOT

830aee33d6ecab35b4f830048b247061f5ad2be3 authored over 2 years ago by Sebastien Besson <[email protected]>
Bump release version to 0.3.0

c75d6c495d19c77666f8564017d63ced1666e7c9 authored over 2 years ago by Sebastien Besson <[email protected]>
Merge pull request #38 from dgault/dependency-updates

Dependency updates

3205f7a9384d7a8276d7ee87a8557ca7a3dc5da3 authored over 2 years ago by Sébastien Besson <[email protected]>
Update location of test files and scope of test dependencies

af893b938cd114f7407ffbda405a4659fbf85146 authored over 2 years ago by David Gault <[email protected]>
Bump testing in ZarrReader to 6.10

a7942b4523bc2b6c4ea8920efa8139bc8b675dc2 authored over 2 years ago by David Gault <[email protected]>
Add objenesis dependency

0a49867d6dd99c696005481f63c05943b84e4bf2 authored over 2 years ago by David Gault <[email protected]>
Reorder formats-api dependency

0b73f24667e3e19fb2cc176b1291d7ea03d33daa authored over 2 years ago by David Gault <[email protected]>