Ecosyste.ms: OpenCollective

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

github.com/ome/ngff

Next-generation file format (NGFF) specifications for storing bioimaging data in the cloud.
https://github.com/ome/ngff

Merge pull request #70 from will-moore/spec_naming_style

Add camelCase naming style rule

3ec8d61441a11983f7704537f84c1352509ba029 authored about 3 years ago by Josh Moore <[email protected]>
Try to fix rendering of table

e27bdecc06dedc71c6ec7e20a2bd7dd0755d43ea authored about 3 years ago by Constantin Pape <[email protected]>
Clarify ordering of spatial axes

ffcb2a8dc3e7358e8d7acff83e1906b57d2dd242 authored about 3 years ago by Constantin Pape <[email protected]>
Merge pull request #72 from glyg/back-tick

Back tick - fixes #62

b5a1f6cd83941e12ce9f12cb015ac8697bbbe764 authored about 3 years ago by Josh Moore <[email protected]>
seems to be fixing #62

5dc763f0a4d8cf85eb6e5c8460d7cb5a5c6df7aa authored about 3 years ago by Guillaume Gay <[email protected]>
attempt at fixing 62

c072c8387bea4da1202c382f1eb58ee3a543ad35 authored about 3 years ago by Guillaume Gay <[email protected]>
Add camelCase naming style rule

262e1095fe13537eb95cd7c11f10423f2c8be734 authored about 3 years ago by William Moore <[email protected]>
Add restrictions on number of axes and axis order to multiscale metadata; correct description of xarray metadata

47620eddae0d04a078505ae7189b7e0e94f5feed authored about 3 years ago by Constantin Pape <[email protected]>
Add null as default value for axes:type

fa390f68e9e90f4ca602eb64469a71ea8e3bb23a authored about 3 years ago by Constantin Pape <[email protected]>
Define list of transformations instead of a single transformation

755eaf10aa2b0f5b191ce84af0206b0ef6ba8705 authored about 3 years ago by Constantin Pape <[email protected]>
Add Label metadata support

0f57182409c722b7e52f579867cafd6b02978a6a authored about 3 years ago by William Moore <[email protected]>
Ensure axes is list of x,y,z,c,t

49db008f662cc34bd7be0b4f7ac88e09e497abc8 authored about 3 years ago by William Moore <[email protected]>
Handle optional fields and add 'omero' metadata

5d9185415ea89b7cf733f87169c396ddc2188dd6 authored about 3 years ago by William Moore <[email protected]>
Simplify transformations for multiscales

77790b3e9b836f1fbd9ccbb89457b2795aebcca2 authored about 3 years ago by Constantin Pape <[email protected]>
Collection subclass ImageCollection must contain Images

f96934df2ff1fde97caeaef6339ded74dbcc3496 authored about 3 years ago by William Moore <[email protected]>
Try subclasses of Collection and ListItem

25351423ac3249b73e112bdc0a7f3552a5d499b0 authored about 3 years ago by William Moore <[email protected]>
Use '@id' to link images in collection

e94dc2735fe7e8de1dc4d65b68ec4a31e6b13926 authored about 3 years ago by William Moore <[email protected]>
Use @import to reference image in collection

1767c2847bc05b4727357ff1cc6497a0fb0f349d authored about 3 years ago by William Moore <[email protected]>
First version of salad for multiscales

8dc10661974fede07c61e007124c4afdd7433410 authored about 3 years ago by jmoore <[email protected]>
Clarify transformation order

8ca7976b8b106e6c3b2a7dbe414b85442aa60c4b authored about 3 years ago by Constantin Pape <[email protected]>
Add transformation spec with only simple transformations from #63

a8597d7a018c79d7b155f0810d92e9949d2fe566 authored about 3 years ago by Constantin Pape <[email protected]>
Change axes to list of dicts

70ebede458dc74f34f5714ba304092ffb547cc40 authored about 3 years ago by Constantin Pape <[email protected]>
Make number of dim requirement more explicit

b3523c9ae0678b6b7cef76c88f20c3e3f58a8fdb authored about 3 years ago by Constantin Pape <[email protected]>
Remove empty type; not necessary for SHOULD req

df835f1f84b3e2dbcaa82d0e11c61d4080c8f704 authored about 3 years ago by Constantin Pape <[email protected]>
Remove left over axes description from multiscales

212b2dd09a9d9ec1178c9eb236d72d177476c23b authored about 3 years ago by Constantin Pape <[email protected]>
Move axes to its own section

e72ee48802554614f42629828d8ffa382e66a2b3 authored about 3 years ago by Constantin Pape <[email protected]>
Start extending the axes related fields in multiscales

4703d89c518190ee78d95c6543d5125492bdd1f0 authored over 3 years ago by Constantin Pape <[email protected]>
Update spec-prod branch

5b9d2b23d021331b847074ff678cd368de32d95a authored over 3 years ago by Josh Moore <[email protected]>
Merge pull request #46 from constantinpape/spec-v03

Add axes field to multiscale metadata

2986bbe3e3863bf298109a104e495bea80afc765 authored over 3 years ago by Josh Moore <[email protected]>
Add Constantin as editor

a981f986177bf80ea7af0b39c8c4cdfb01c4cc44 authored over 3 years ago by jmoore <[email protected]>
Merge branch 'main' into spec-v03

3e9908c826f30a05658d6f466a3e2f827028e0fb authored over 3 years ago by Josh Moore <[email protected]>
Revert some latest changes and add changelog

47fa3dc9d478f5418204b8eb17d09454bd9af2aa authored over 3 years ago by jmoore <[email protected]>
Store the current latest as 0.3

c46d9d5caa6cbe028b7768bca17fbe1069e71134 authored over 3 years ago by jmoore <[email protected]>
Merge pull request #50 from joshmoore/v0.2-latest

Various 0.2/latest updates

4f8065a7ab70f88f8e3d0ac049be5647a30550ab authored over 3 years ago by Sébastien Besson <[email protected]>
Fix whitespace differences

d288615965bf7ea79d1096d57fe0d377881d2069 authored over 3 years ago by jmoore <[email protected]>
Replace 0.1 with 0.2

5a3b5a3447f4fa7afe7795da3973fddbce6775bb authored over 3 years ago by jmoore <[email protected]>
Add links for reviewing to README

824721117d69917661598752dedce919c29f9398 authored over 3 years ago by jmoore <[email protected]>
Add bdv-ome-zarr implementation

c1d92fa8a60063f2ba3aa7d5d63159e078d7b3b5 authored over 3 years ago by jmoore <[email protected]>
Migrate 0.2 changes to latest

ddd7287816aaadc37a660c01d405f9d534e72024 authored over 3 years ago by jmoore <[email protected]>
Minor formulation tweak

af7b9470261c486726cd1e2863cd0b6c61f42de3 authored over 3 years ago by Constantin Pape <[email protected]>
Add _ARRAY_DIMENSIONS requirement for compatibility with xarray

cf765705f3d931fa1c86b3ab2626348f22f98170 authored over 3 years ago by Constantin Pape <[email protected]>
Allow for less than 5d

e60ec2748da7b41cdffbc16bffb3821f64ce38e4 authored over 3 years ago by Constantin Pape <[email protected]>
Fix version numbers

9c57396fc5a877061d42b8df13d23ad6f2027f6d authored over 3 years ago by Constantin Pape <[email protected]>
Merge remote-tracking branch 'ome/main' into spec-v03

a345247e173d0d3c90f9bfc89b95a4e3dee1a7ed authored over 3 years ago by Constantin Pape <[email protected]>
Merge pull request #44 from constantinpape/main

Add description of multiscales metadata 0.2

8429d5b6a359e81fa416b01061ca4452c45bc0c3 authored over 3 years ago by Josh Moore <[email protected]>
Address review comments

89a0aae98daf696b6436e8af2ba05b2cb86744c8 authored over 3 years ago by Constantin Pape <[email protected]>
Remove axes field from example

1a0937c5e55020807e19e685889738d15738f3dc authored over 3 years ago by Constantin Pape <[email protected]>
Add axes field to multiscales metadata

6b8a86818a80c0509e41c9a4bd19f12371982201 authored over 3 years ago by Constantin Pape <[email protected]>
Update latest to 0.2

bba6940f524345f3b4dd1d856a463a968ad73fd9 authored over 3 years ago by Constantin Pape <[email protected]>
Add description of multiscales metadata 0.2

4fff9dafb41f2282c69afc1f852fc1d5ce117569 authored over 3 years ago by Constantin Pape <[email protected]>
Merge pull request #40 from joshmoore/0_2_0

0.2.0: switch to nested layout

af5399faafcf8cb9d2ec0c1db99160705286fa37 authored over 3 years ago by Josh Moore <[email protected]>
0.2.0: switch to nested layout

This defines the dimension separator (sometimes called
"key separator") for chunks in the NGFF f...

04758863dd9117c7411a0efc31bd7feb21101be0 authored over 3 years ago by jmoore <[email protected]>
Add "row_index" and "column_index" to "wells" spec

0c286908a4fbaceb2c622b21e5a52cc041eea7c0 authored almost 4 years ago by Melissa Linkert <[email protected]>
Merge pull request #34 from constantinpape/main

Add link to the ngff site to README.md

f8254d8d2739a08e7973a3a20af212b9fbff6d5e authored almost 4 years ago by Josh Moore <[email protected]>
Add link to the ngff site to README.md

b2359c3c02aba42cf9a81539a6ea6c8e94738774 authored almost 4 years ago by Constantin Pape <[email protected]>
Clarify plate and well specifications for sparse plates

8b24328b21885110fc43f2f8269143a9a5229ec1 authored about 4 years ago by Melissa Linkert <[email protected]>
Merge pull request #3 from joshmoore/add-label-properties-spec

Add label properties description to spec

f0046874b8bd74cfa8ebd4172a0e9ced00661f14 authored about 4 years ago by Josh Moore <[email protected]>
Merge pull request #5 from joshmoore/hcs_spec

HCS specification

37f0223549adb79315760608796fcdaba7ae1bc3 authored about 4 years ago by Josh Moore <[email protected]>
Drop 0.1.3-dev1 in favor of 0.1.3

0669bab4788968464494354c9ae757451a38b763 authored about 4 years ago by Sebastien Besson <[email protected]>
Merge latest spec including HCS into 0.1

deef548732397725f50f23cb366a6a09f8519c0b authored about 4 years ago by Sebastien Besson <[email protected]>
Merge remote-tracking branch 'origin/main' into hcs_spec

92f5bd4241b9e4d526a5f020167e2d9953b9815d authored about 4 years ago by Sebastien Besson <[email protected]>
Collapse version history to have labels and HCS

fff9ba00b48fb74d352d82ae80b8890f0cb7e53e authored about 4 years ago by Sebastien Besson <[email protected]>
Add version keys to the JSON examples

7f7e446c6ad3492b45ca3499e859e0b91a3013e9 authored about 4 years ago by Sebastien Besson <[email protected]>
Add string keys

0255833f39e390d75e03aae662eaff83104306f0 authored about 4 years ago by Sebastien Besson <[email protected]>
Reorganize definitions alphabetically

2d4ade0180720111f456172434b02ce4766080ef authored about 4 years ago by Sebastien Besson <[email protected]>
Fix plate definitions

b34966bab4254ff3e4e438ace2fd0eed203ddd19 authored about 4 years ago by Sebastien Besson <[email protected]>
Remove unused .zattrs for now

5d3f53ccbaed6464b1582d127b86576fd5131abb authored about 4 years ago by Sebastien Besson <[email protected]>
Use today's date

2aef9cea4d9915b19cc860337cd26dee6b7abb52 authored about 4 years ago by Sebastien Besson <[email protected]>
Merge pull request #16 from joshmoore/status

Clarify "Status" section

f1c800125518b2ad650f46566208a25411bc15ca authored about 4 years ago by Sébastien Besson <[email protected]>
Clarify "Status" section

- Latest now links to 0.1 (could be made clear)
- 0.1 now says "this version" (requires HTML r...

9dace4ec40e5bf0551713d40c16d79e524c0fa48 authored about 4 years ago by jmoore <[email protected]>
Merge remote-tracking branch 'origin/main' into hcs_spec

dd774ce33efaa99b99cb54b6482615642c20f5fe authored about 4 years ago by Sebastien Besson <[email protected]>
Merge pull request #7 from joshmoore/impls

Migrate related.md from omero-ms-zarr

dba4aad1ec04f286341087e71cd67c59cc44417c authored about 4 years ago by Sébastien Besson <[email protected]>
Test editor addition

734e563a8c30506d5ca5a8bd3af9dccede4bcf89 authored about 4 years ago by Sebastien Besson <[email protected]>
Update plate and well metadata to comply with latest HCS proposal

9aa266f53bdb9b1aa0e266294e72d7bc8402f61d authored about 4 years ago by Sebastien Besson <[email protected]>
Update HCS layout to drop acquisition group

Also revert the order of the group description for clarity

564506e87d43106f19b3be75bad883857ea024e0 authored about 4 years ago by Sebastien Besson <[email protected]>
Remove statically produced index.html

Before spec-prod was updated to generate from
multiple .bs files, the output from `bikeshed spec...

3abc6a71dd74d01c03a7a21883524cf8ede62b68 authored about 4 years ago by jmoore <[email protected]>
Migrate related.md from omero-ms-zarr

See: https://github.com/ome/omero-ms-zarr/pull/80

87ab6d01960654ac4ff6b05e4ab72a5cbbe70533 authored about 4 years ago by jmoore <[email protected]>
Add name field to plate specification

4f8c6e4ef1e8f6e90dc545d498b80664c032b924 authored about 4 years ago by Sebastien Besson <[email protected]>
Add metadata specification for HCS data

56914b8da0bf765e33bd9405cbdccb0d5ab9f1ed authored about 4 years ago by Sebastien Besson <[email protected]>
Use Markdown definition lists

d047bacde01f27abf3926ea5ed1a9852d4415f0b authored about 4 years ago by Sebastien Besson <[email protected]>
Capture new layout of HCS specification

36f6ec3986c5ebc9473695284f603a185f918dce authored about 4 years ago by Sebastien Besson <[email protected]>
Correct formatting for bikeshed

fbf7d4fbdff291332e2196929abe6e8b3b7f755d authored about 4 years ago by jmoore <[email protected]>
Add expected hierarchy for HCS data

719fe56f018d4f81efd1e9701eb1020336176cf3 authored about 4 years ago by Sebastien Besson <[email protected]>
Add label properties description to spec

Migrated from: https://github.com/ome/omero-ms-zarr/pull/79

89756cf9ccb4d7698f549931bc50a100ac6208c0 authored about 4 years ago by Draga Doncila Pop <[email protected]>
Add Zenodo DOI

c6d7d84f77959846ecdc9b65eecfa87bb6dc1f86 authored about 4 years ago by jmoore <[email protected]>
Move citation block to bikeshed files

a237857b4710186beac5d7ce4aad648686563abf authored about 4 years ago by jmoore <[email protected]>
Use fork of spec-prod

0dcbd20e28554a7c9a4d7a55b504dcb908a70ea3 authored about 4 years ago by jmoore <[email protected]>
Temporarily disable link check until latest/ exists

360fd2c2e8812388b540bf75c569e41c395b172f authored about 4 years ago by jmoore <[email protected]>
Generate and commit 0.1 version

1a337b658e58554cae09430b011c53aa10030bd2 authored about 4 years ago by jmoore <[email protected]>
Point SOURCE to the latest

0f95e9f132541dbf40172a2a24b493b0750ca5ad authored about 4 years ago by jmoore <[email protected]>
Set TOOLCHAIN to bikeshed

Since the top-level has an index.html file, ReSpec
is assumed by default rather than bikesed:

`...

e2b775bf48ede9f53d3cd925363ed16974880894 authored about 4 years ago by jmoore <[email protected]>
Copy latest/ to 0.1/ and update URL

4805275f83fe5f5c8e819effdbe2060f1e0c7be0 authored about 4 years ago by jmoore <[email protected]>
Move current draft to 'latest/'

f5d4b6c3c6a60856e815ea6999580d236c4878dc authored about 4 years ago by jmoore <[email protected]>
Post-migration fixes

145f3f8ff41d24018f8db573cfa6826b6934d0d0 authored about 4 years ago by jmoore <[email protected]>
Update introduction and references

4cc253528fdab39e2b4e534fda15099f61636b99 authored about 4 years ago by jmoore <[email protected]>
Fix validation errors and disable

img alt is easy enough. The other issues will
require digging in bikeshed:

```
Validating ind...

7312c3cb9da99141252c874bfde32434dfcb57e2 authored about 4 years ago by jmoore <[email protected]>
Turn on validation

4ab42839acdaa16b14f4506d8070cc6e00203915 authored about 4 years ago by jmoore <[email protected]>
Cleanup and start 'why ngff' section

4dff4f736b8a4d25f2de31cea33252abd7256161 authored about 4 years ago by jmoore <[email protected]>
Remove formatting from abstract/status

1bee9e9fb14f40148702b2594f4dd6362c19deec authored about 4 years ago by jmoore <[email protected]>
Add introduction

71e470aa570bacdac354672a012d897fa57c33be authored about 4 years ago by jmoore <[email protected]>