Releases: niaid/image_portal_workflows
Releases · niaid/image_portal_workflows
Prefect 3 release to Prod
What's Changed
- Update usage.rst with modified deployment IDs by @philipmac in #500
- Limit python version to avoid conflict by @annshress in #504
Full Changelog: 2.2.0...2.2.1
2.2.0
What's Changed
- Update usage.rst by @philipmac in #497
- Prefect v3 migration by @philipmac in #495
- Replace pip requirements with uv pyproject by @annshress in #499
Full Changelog: 2.1.4...2.2.0
2.1.4
What's Changed
- Update to pytools 3.3.2 by @blowekamp in #490
- Add workflow documentation for generic 2D EM workflow by @blowekamp in #469
- Log and write subprocess output as produced. by @blowekamp in #485
- Use imod_root for dm2mrc path by @blowekamp in #488
- updating deployment IDs for dev in docs by @philipmac in #489
- DM convert refactor by @blowekamp in #486
- Improve HedwigZARRImages performance in CZI flow by @blowekamp in #477
- Update to pytools 3.3.2 by @blowekamp in #490
- Add workflow documentation for generic 2D EM workflow by @blowekamp in #469
Full Changelog: 2.1.3...2.1.4
HPC updated fix
What's Changed
- bump to upload artifact v4 by @philipmac in #484
- Add GraphicMagic as a configurable executable by @blowekamp in #482
- Hotfix on HPC by @philipmac in #487
Full Changelog: 2.1.2...2.1.3
Aug_9_2024
What's Changed
- Update pytools to 3.3.0 by @blowekamp in #479
- Specify precfect version and dask optional depenency on one line by @blowekamp in #475
- tag brt runs, update imod version by @philipmac in #481
Full Changelog: 2.1.1...2.1.2
2.1.1
2.1.0
What's Changed
- process 2D 16-bit Tiffs with newstack by @blowekamp in #468
- Feature/newstack 16 bit tiff by @blowekamp in #474
May_23_2024
Sync prefect local to server version, to conform with security updates.
Minor release.
What's Changed
- adding prod UUIDs to usage.rst by @philipmac in #464
- updateing docs & prod service file by @philipmac in #465
- bump n2 version by @philipmac in #470
- default to testing in main branch by @philipmac in #471
- new dask install method by @philipmac in #473
Full Changelog: 2.0.5...2.0.6
Mar_06_2024
Nov_16_2023
What's Changed
- Added bioformats2raw to GH build and added tests. by @mbopfNIH in #259
- Add samples of new metadata json to be produced by the pipeline by @blowekamp in #260
- Update metadata.yml for float brightness and contrast by @blowekamp in #262
- Correct legacy example for metadata by @blowekamp in #266
- Removed "shortcut" code from BRT test. by @mbopfNIH in #264
- adding explanations of file layout for spatial omics set up. by @philipmac in #267
- Update hpc.rst by @philipmac in #268
- Script to extract a czi "macro images" to a thumbnail by @blowekamp in #269
- adding illustrative example of proposed callback by @philipmac in #261
- conform to new callback format by @philipmac in #274
- init fileMetadata and imageMetadata callback elts as None by @philipmac in #283
- PR request template by @annshress in #281
- Containers by @annshress in #284
- Config modifications by @annshress in #277
- Adding new IF czi workflow by @philipmac in #299
- Add coverage comment workflow action by @annshress in #298
- Refactor large 2d flow by @annshress in #293
- Add file_share param into workflows by @annshress in #297
- Replace strings by Asset type constants by @annshress in #291
- Fix relative imports by @annshress in #304
- Register new czi workflow by @annshress in #306
- Use workers count wherever bf2raw command is used by @annshress in #310
- Addresses file share check, #309 by @annshress in #311
- Test callback structure by @annshress in #300
- bumps pytools version - new SITK goodies - closes #312 by @philipmac in #314
- Update configs for java and lrg_flow.convert by @annshress in #320
- Polish tests; Refactor and move tests by @annshress in #315
- required for registration script by @philipmac in #322
- Add pytest setup fixture to ensure .env file exists by @annshress in #290
- Refactor bf2raw command to be central/common function by @annshress in #323
- Increase tiling size (for czi files) in bf2raw by @annshress in #325
- fix up mixed tabs / spaces by @philipmac in #326
- killing off dead / commented out code - closes #302 by @philipmac in #327
- removing --scale-format-string from bioformats command by @philipmac in #331
- Fixes the removal of
scale-string-formatargument from bioformats2raw by @annshress in #334 - Bumps to pytools 3.0b02 by @philipmac in #337
- Fix/update brt ng metadata by @philipmac in #339
- use pytools wheel by @philipmac in #341
- Update shader parameters spec to include XYC dimensions by @blowekamp in #344
- Change locations for zarr image in single image workflows by @annshress in #345
- hardcode in XY for API by @philipmac in #350
- Mad scale by @blowekamp in #347
- Rotate label image 90 clock wise by @blowekamp in #348
- Remove redundant return statement by @annshress in #359
- prevents thumb gen for IF images by @philipmac in #360
- Return OME metadata xml file location along with ng metadata by @annshress in #361
- Add omeXml: null in fileMetadata of all results by @annshress in #368
- Use quantile based computations for CZI range by @blowekamp in #376
- Changing bioformats2raw chunk dims from 4K to 512 by @philipmac in #382
Full Changelog: 1.1.1...1.2