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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

fix typo in pretrain.md
#909 opened Jun 2, 2025 by pstjohn Loading…
1
Bump 3rdparty/Megatron-LM from fb7c3f8 to 9c1a535 dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#908 opened Jun 2, 2025 by dependabot bot Loading…
2
Add option for number of constant steps of learning rate.
#907 opened Jun 1, 2025 by Sohn123 Loading…
2 of 9 tasks
1
evo2 stop and go test
#903 opened May 30, 2025 by yzhang123 Loading…
9 tasks
5
Remove strict comparison of tensors against golden values in evo2 test
#901 opened May 30, 2025 by balvisio Loading…
4 of 9 tasks
7
Fix masked token loss reductions
#900 opened May 29, 2025 by skothenhill-nv Loading…
3 of 7 tasks
12
Add a ProteinFastaDataset object for indexed fasta files
#896 opened May 27, 2025 by pstjohn Loading…
Final documentation edits
#894 opened May 23, 2025 by lvojtku Loading…
5 of 9 tasks
2
added additional run_pytest files INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#889 opened May 20, 2025 by dorotat-nv Loading…
9 tasks
1
Evo2 Mamba
#888 opened May 19, 2025 by jstjohn • Draft
9 tasks
2
Bump rust from 1.86.0 to 1.87.0 dependencies Pull requests that update a dependency file docker Pull requests that update docker code
#886 opened May 19, 2025 by dependabot bot Loading…
2
adding .obs to scdl
#872 opened May 12, 2025 by polinabinder1 • Draft
2
Fix ESM2 + Geneformer regression
#863 opened May 8, 2025 by dorotat-nv Loading…
9 tasks
1
add chatbot ui to docs documentation Improvements or additions to documentation SKIP_CI Completely skips the CI pipeline
#845 opened Apr 24, 2025 by jwilber Loading…
2 of 5 tasks
@jwilber
3
DRAFT: scdl neighbor update
#843 opened Apr 23, 2025 by camirr-nv Loading…
9 tasks
13
Updates docs for geneformer training
#838 opened Apr 21, 2025 by jomitchellnv Loading…
9 tasks
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
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
Geneformer gene embeddings calculation. Now limits the changes to bionemo.geneformer only INCLUDE_NOTEBOOKS_TESTS Add Jupyter notebook validation to the CI pipeline INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#808 opened Apr 7, 2025 by jyin-bst Loading…
1 of 8 tasks
23
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
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
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