Ecosyste.ms: Timeline
Browse the timeline of events for every public repo on GitHub. Data updated hourly from GH Archive.
BrianWhitneyAI closed an issue on bioio-devs/bioio-czi
Fail to read ome_metadata from certain czi files
### Describe the Bug Data recorded with a Zeiss LSM880 ZEN black Airyscan detector Data Airy Processed with ZEN blue 3.8.89. It is a multiposition TZYX. Attached is the metadata as extracted w...
BrianWhitneyAI created a comment on an issue on bioio-devs/bioio-czi
Hey @lukasjarzembowski I can confirm that `bioio-bioformats` works for this image. Here's the link to the [repo](https://github.com/bioio-devs/bioio-bioformats). ``` image = bioio.BioImage(file...
BrianWhitneyAI closed an issue on bioio-devs/bioio-czi
'RuntimeError: The method or operation is not implemented.' For certain .czi files
### Describe the Bug For certain .czi but not all .czi files, I get following error ``` --------------------------------------------------------------------------- RuntimeError ...
BrianWhitneyAI created a comment on a pull request on AllenInstitute/biofile-finder
> I suggest not using "Cache" or "lease": I think these terms will be unfamiliar in this context. Perhaps the following instead: > > Copy Files to Local NAS (Vast) > > Files copied to the loc...
BrianWhitneyAI created a comment on a pull request on AllenInstitute/biofile-finder
> a94c95e resolved in [a94c95e](https://github.com/AllenInstitute/biofile-finder/pull/320/commits/a94c95ec654332708ddf91c18015248ce4ad3f80)
BrianWhitneyAI pushed 1 commit to feature/move-files-styling AllenInstitute/biofile-finder
- update wording a94c95e
BrianWhitneyAI created a comment on a pull request on AllenInstitute/biofile-finder
BrianWhitneyAI pushed 42 commits to feature/move-files-styling AllenInstitute/biofile-finder
- feature/web-download-threshold 494a925
- Disable button for large zarrs on web 2b2ea66
- feature/copy-to-local-cache-request 52bd1a9
- add test 3e9a0eb
- add LoadBalancerBaseURl gloabl variable 31d4abf
- update put request 6abbb7c
- add username to cache request 46bae5d
- disable caching for web f61ded5
- Improve no files found query message 412b724
- Remove light theme placeholder 70dc4aa
- Add columns to query args; Simplify state values 4ebfb32
- Fix potential NPE c7a33ea
- Merge branch 'main' into feature/add-better-column-control e847cce
- Update tests b2a8872
- Merge branch 'main' into feature/add-better-column-control 467ebf5
- Merge branch 'feature/add-better-column-control' of github.com:AllenInstitute/aics-fms-file-explorer-app into feature... a7e46d8
- Merge branch 'main' into feature/add-better-column-control 24479b9
- feature/refactor-environment 4f4e570
- add back LazilyRenderedThumbnail test cf02d0b
- Merge branch 'feature/local_cloud_toggle' into feature/copy-to-local-cache-request f697ebd
- and 22 more ...
BrianWhitneyAI created a comment on a pull request on bioio-devs/bioio-tiff-glob
> I haven't looked at this reader in a long while but I think this all makes sense to me. The largest change here is the addition of the try + except correct? I think the bigger thing is calling...
BrianWhitneyAI pushed 1 commit to bugfix/supported_files bioio-devs/bioio-tiff-glob
- update exts b04b3a4
BrianWhitneyAI created a comment on an issue on bioio-devs/bioio-tiff-glob
@TimMonko Yep, #9 should be good to go for your particular issue. Looking into this issue closer, we ordered plugins with the same file extension by the install date however this is done by the en...
BrianWhitneyAI pushed 1 commit to main AllenCellModeling/czi-to-ome-xslt
- bugfix/parse-missing-wavelength (#22) * bugfix/parse-missing-wavelength * Add unit test * repair spacing d3fe493
BrianWhitneyAI closed a pull request on AllenCellModeling/czi-to-ome-xslt
bugfix/parse-missing-wavelength
### Description This PR is a response to https://github.com/bioio-devs/bioio-czi/issues/19#issuecomment-2540320107. Our current transform from the czi schema to the OME schema does not account ...
BrianWhitneyAI created a comment on an issue on bioio-devs/bioio-czi
Hey @lukasjarzembowski I'm still looking into the details but I have confirmed your issue. Additionally, the error comes from aicspylibczi which bioio-czi calls internally.
BrianWhitneyAI created a comment on a pull request on bioio-devs/bioio-imageio
> Awesome if this fixes it - should imageio (or bioio-imageio?) automatically install ffmpeg or is it a known thing that users have to install it themselves? The direct error that users see is `...
BrianWhitneyAI opened a pull request on bioio-devs/bioio-imageio
bugfix/macos-ci-failure
### Description Resolves #10
BrianWhitneyAI created a branch on bioio-devs/bioio-imageio
bugfix/macos-ci-failure - A BioIO reader plugin for reading simple image and movie formats
BrianWhitneyAI created a comment on an issue on bioio-devs/bioio-bioformats
I am pretty stumped on this one. There is a test discrepancy with "Imaris-IMS_davemason_Convallaria_3C_1T_confocal.ims". The Github runner is picking up additional channel names. However, with the ...
BrianWhitneyAI pushed 1 commit to bugfix/parse-missing-wavelength AllenCellModeling/czi-to-ome-xslt
- repair spacing 0cf4dc1
BrianWhitneyAI pushed 1 commit to bugfix/parse-missing-wavelength AllenCellModeling/czi-to-ome-xslt
- Add unit test 37338b1
BrianWhitneyAI opened an issue on AllenCellModeling/czi-to-ome-xslt
inconsistencies in our naming/usage
## Description Recently we saw some inconsistencies in our naming/usage of metadata fields—specifically ID fields in the ome schema. We should review our naming/usage and confirm that we are corre...
BrianWhitneyAI pushed 4 commits to main bioio-devs/bioio-ome-zarr
BrianWhitneyAI closed a pull request on bioio-devs/bioio-ome-zarr
bugfix/cloud_metadata_update
### Description A few of our zarr cloud tests are dependent on nucmorph production files, these files recently had updates to channel names and physical pixel size. As a result of this, our tes...
BrianWhitneyAI created a comment on an issue on bioio-devs/bioio-czi
@tlambert03 Ok got it thanks for catching that! I opened up a PR in czi-to-ome-zslt
BrianWhitneyAI opened a pull request on AllenCellModeling/czi-to-ome-xslt
bugfix/parse-missing-wavelength
### Description This PR is a response to https://github.com/bioio-devs/bioio-czi/issues/19#issuecomment-2540320107. Our current transform from the czi schema to the OME schema does not account ...