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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

Bump urllib3 from 1.26.20 to 2.6.0 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1365 opened Dec 5, 2025 by dependabot bot Loading…
1
Bump werkzeug from 3.1.3 to 3.1.4 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1360 opened Dec 2, 2025 by dependabot bot Loading…
1
Bump fonttools from 4.59.0 to 4.61.0 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1359 opened Dec 1, 2025 by dependabot bot Loading…
1
Evo2 Megatron Bridge Recipe Prototype
#1357 opened Dec 1, 2025 by jstjohn • Draft
9 tasks
2
Bump ray from 2.49.2 to 2.52.0 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1352 opened Nov 26, 2025 by dependabot bot Loading…
1
Savitha/add phylo masking to llama3
#1351 opened Nov 26, 2025 by savitha-eng Loading…
5 tasks done
1
demo for bias initialization
#1350 opened Nov 26, 2025 by pstjohn • Draft
1
Pstjohn/te update
#1342 opened Nov 22, 2025 by pstjohn • Draft
1
Remove ESM2, Amplify from 5D. This is now in bionemo-recipes
#1336 opened Nov 20, 2025 by trvachov Loading…
9 tasks
5
Dev/ba/fix evo2 lora test
#1335 opened Nov 20, 2025 by balvisio Loading…
9 tasks
1
Update HF model card
#1333 opened Nov 19, 2025 by ohadmo Loading…
9 tasks
@ohadmo
2
Bump transformers from 4.51.3 to 4.53.0 in /bionemo-recipes/models/geneformer dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1332 opened Nov 19, 2025 by dependabot bot Loading…
1
Adding update that solves one logger issue for Evo2 training
#1331 opened Nov 18, 2025 by jstjohn Loading…
2 of 9 tasks
1
add hf token to framework CI ciflow:skip Skip all CI tests for this PR
#1326 opened Nov 17, 2025 by pstjohn Loading…
2
Evo2 Layer Ablation Study
#1324 opened Nov 15, 2025 by jstjohn • Draft
9 tasks
1
FSDP support in Evo2
#1321 opened Nov 14, 2025 by jstjohn • Draft
9 tasks
1
Training scripts, tests, and config for llama3; very similar to ESM2 …
#1319 opened Nov 12, 2025 by savitha-eng • Draft
9 tasks
8
Add nucleotide tokenizer for llama3 model to recipes
#1314 opened Nov 7, 2025 by savitha-eng Loading…
5 of 9 tasks
7
Use the FusedAdam optimizer from TE
#1313 opened Nov 5, 2025 by pstjohn • Draft
1
begin drafting yaml for fp8 thd jobs ciflow:skip Skip all CI tests for this PR
#1297 opened Oct 29, 2025 by jwilber Loading…
@jwilber
1
bump nemo ciflow:all Run all tests (unit tests, slow tests, and notebooks) for bionemo2 or enforce running all tests
#1296 opened Oct 29, 2025 by farhadrgh Loading…
9 tasks
7
Bump starlette from 0.48.0 to 0.49.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1294 opened Oct 28, 2025 by dependabot bot Loading…
1
feat: benchmark annbatch in scspeedtest
#1290 opened Oct 28, 2025 by ilan-gold Loading…
1 of 9 tasks
7
Bump cryptography from 42.0.8 to 44.0.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1287 opened Oct 28, 2025 by dependabot bot Loading…
1
Bump jupyterlab from 4.4.5 to 4.4.8 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1280 opened Oct 27, 2025 by dependabot bot Loading…
1
ProTip! Find all pull requests that aren't related to any open issues with -linked:issue.