Ecosyste.ms: Timeline
Browse the timeline of events for every public repo on GitHub. Data updated hourly from GH Archive.
pgarrison created a review on a pull request on AllenCell/benchmarking_representations
Can we delete `visualize_pointclouds.ipynb` and `visualize_reconstructions.ipynb`?
pgarrison created a review comment on a pull request on AllenCell/benchmarking_representations
This seems like a substantive change? Can you give more context?
pgarrison created a review on a pull request on bioio-devs/bioio-ome-zarr
Can confirm the published nucmorph data had these fields modified.
pgarrison opened an issue on AllenInstitute/biofile-finder
Copy to Vast: Egress disclaimer
# User story Scientists bringing data to the local NAS know this operation can be expensive and need to share actionable information with their team to decide if it is worth it. A cost estimate fo...
pgarrison opened an issue on AllenInstitute/biofile-finder
Copy to Vast: status indicator
# User story Scientists 1 and 2 are working on a project that needs to use file A on local storage, but File A is only on the cloud. Scientist 1 uses BFF to copy the file to the Vast. The file is ...
pgarrison created a review comment on a pull request on AllenCell/benchmarking_representations
Unused variable?
pgarrison closed an issue on AllenCell/benchmarking_representations
Document OpenGL dependency for image preprocessing
The README.md file in the image_preprocessing folder should tell users they need to have OpenGL (which version?) for running preprocessing (which steps?)
pgarrison pushed 3 commits to main AllenCell/benchmarking_representations
pgarrison closed a pull request on AllenCell/benchmarking_representations
Document OpenGL requirement (version unknown)
Preprocessing code requires that the user have OpenGL installed, so we should document it. I listed the OpenGL version used on our A100s. Closes #50
pgarrison pushed 6 commits to main AllenCell/benchmarking_representations
- Add tables of analysis commands for every dataset 09a3d77
- npm1_perturb uses run_drugdata_analysis, not run_features and run_analysis a403119
- cellpack and pcna use Rotation_invariant_pointcloud_jitter ab7f60d
- npm1 and other_polymorphic use Rotation_invariant_pointcloud_SDF 5b7daed
- other_punctate uses Rotation_invariant_pointcloud_structurenorm ea50788
- Merge pull request #70 from AllenCell/analysis-command-tables Add tables of analysis commands for every dataset 9b8809b
pgarrison closed a pull request on AllenCell/benchmarking_representations
Add tables of analysis commands for every dataset
# Purpose Follow-up on @ritvikvasan's [comment](https://github.com/AllenCell/benchmarking_representations/pull/61#discussion_r1859257180) in #61 that we could use the same table format for `run_fe...
pgarrison created a comment on an issue on AllenCell/benchmarking_representations
This notebook has been replaced -- is this still relevant @fatwir?
pgarrison created a comment on an issue on AllenCell/benchmarking_representations
Closing because we plan to convert all notebooks to `.py` files
pgarrison closed an issue on AllenCell/benchmarking_representations
Documentation for which cell to start from when using published embeddings
Users can run notebooks in one of two ways: 1. Run inference and analysis together (run whole notebook start to finish) 2. Use embeddings (results of inference) published on S3 and run analysis o...
pgarrison created a comment on an issue on AllenCell/benchmarking_representations
Closing because we plan to convert all notebooks to `.py` files
pgarrison closed an issue on AllenCell/benchmarking_representations
Need to add ipywidgets to the dependencies!
Maybe we could also add jupyter notebook to the list of dependencies (ipywidgets is needed for the notebooks - https://github.com/AllenCell/benchmarking_representations/tree/main/br/notebooks to ru...
pgarrison created a review comment on a pull request on AllenCell/benchmarking_representations
Resolved in [ea50788](https://github.com/AllenCell/benchmarking_representations/pull/70/commits/ea507885bf3247f2b52a30c368a3293def0a9af1)
pgarrison pushed 1 commit to analysis-command-tables AllenCell/benchmarking_representations
- other_punctate uses Rotation_invariant_pointcloud_structurenorm ea50788
pgarrison created a review comment on a pull request on AllenCell/benchmarking_representations
[5b7daed](https://github.com/AllenCell/benchmarking_representations/pull/70/commits/5b7daedaf4eca66999ac25986f2e7da3d3bed009)
pgarrison created a review comment on a pull request on AllenCell/benchmarking_representations
Resolved in [5b7daed](https://github.com/AllenCell/benchmarking_representations/pull/70/commits/5b7daedaf4eca66999ac25986f2e7da3d3bed009)