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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

draft: add chatbot ui to docs
#845 opened Apr 24, 2025 by jwilber Loading…
9 tasks
1
DRAFT: scdl neighbor update
#843 opened Apr 23, 2025 by camirr-nv Loading…
9 tasks
4
fixing the ESM2 checkpointing issue
#842 opened Apr 23, 2025 by polinabinder1 Loading…
13
Set EXPERIMENTAL_1b_CHECKPOINT to True by default INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline
#840 opened Apr 21, 2025 by jwilber Loading…
5 of 9 tasks
3
Updates docs for geneformer training
#838 opened Apr 21, 2025 by jomitchellnv Loading…
9 tasks
1
Add small section mentioning context extension SKIP_CI Completely skips the CI pipeline
#837 opened Apr 21, 2025 by jwilber Loading…
5 of 9 tasks
4
Bump 3rdparty/Megatron-LM from 62529f1 to 47b99b6 dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#836 opened Apr 21, 2025 by dependabot bot Loading…
1
Build multiarch images for amd64 and arm64 linux targets
#835 opened Apr 17, 2025 by pstjohn Loading…
fix esm2 downstream task finetune config saving issue
#832 opened Apr 15, 2025 by zmsunnyday Loading…
2 of 9 tasks
3
Draft: outline push-to-gitlab-registry step
#830 opened Apr 14, 2025 by jwilber Loading…
3
Fixes how num_layers relates to pipeline_model_parallel_size in ESM2 bug Something isn't working ESM2
#829 opened Apr 14, 2025 by gagank1 Loading…
3 of 9 tasks
1
@gagank1
2
Docs fix SKIP_CI Completely skips the CI pipeline
#826 opened Apr 11, 2025 by trvachov Loading…
1 of 9 tasks
17
added duration info to the pytest INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#817 opened Apr 10, 2025 by dorotat-nv Loading…
1 of 9 tasks
6
automated benchmarks: add partial conv config for AMPLIFY
#811 opened Apr 8, 2025 by dorotat-nv Loading…
1 of 9 tasks
1
Geneformer gene embeddings calculation. Now limits the changes to bionemo.geneformer only
#808 opened Apr 7, 2025 by jyin-bst Loading…
1 of 8 tasks
11
Bump 3rdparty/NeMo from b685967 to 7d7a10c dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#807 opened Apr 7, 2025 by dependabot bot Loading…
3
Add second test for amplify infer batch mode
#805 opened Apr 7, 2025 by pstjohn • Draft
1
Upgrade base image to pytorch 25.03
#799 opened Apr 2, 2025 by trvachov Loading…
9 tasks
4
Update EVO2 tests according to Hyena arch changes
#798 opened Apr 2, 2025 by farhadrgh Loading…
9 tasks
25
Bump pyo3 from 0.18.3 to 0.24.1 in /sub-packages/bionemo-noodles dependencies Pull requests that update a dependency file rust Pull requests that update rust code
#797 opened Apr 2, 2025 by dependabot bot Loading…
1
fix Evo2 training crash - TE commit INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#796 opened Apr 1, 2025 by dorotat-nv Loading…
9 tasks
@dorotat-nv
11
added fastadatamodule
#790 opened Mar 27, 2025 by Geraldene Loading…
9 tasks
1
[fix] Fixes geneformer notebook INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline
#782 opened Mar 24, 2025 by jomitchellnv Loading…
1 of 8 tasks
11
PR labels checked for modified slow tests and notebooks
#780 opened Mar 24, 2025 by dorotat-nv Loading…
1 of 9 tasks
@dorotat-nv
10
Speed up Geneformer pydantic recipe and training tests INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#774 opened Mar 21, 2025 by skothenhill-nv Loading…
6 of 9 tasks
11
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