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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

Deprecate 5D geneformer.
#1398 opened Dec 29, 2025 by trvachov Loading…
1 of 9 tasks
1
Make sure we pass device="meta" to TE layers during meta device init
#1397 opened Dec 24, 2025 by pstjohn Loading…
1
re-enable esm2 meta device
#1396 opened Dec 24, 2025 by pstjohn Loading…
Use shared storage dir ciflow:skip Skip all CI tests for this PR
#1395 opened Dec 23, 2025 by jwilber Loading…
@jwilber
3
Fixing argparse argument name error
#1393 opened Dec 22, 2025 by jstjohn • Draft
9 tasks
2
in sequence padding [DRAFT TEST]
#1392 opened Dec 19, 2025 by jomitchellnv Loading…
9 tasks
1
Doc edits to BioNeMo recipes
#1389 opened Dec 19, 2025 by lvojtku • Draft
2 of 9 tasks
1
experiment with lepton dev pod container workflow on compute node
#1388 opened Dec 18, 2025 by jwilber Loading…
1
Jm/fp8 debug mxfp8
#1387 opened Dec 18, 2025 by jomitchellnv Loading…
9 tasks
1
adds fp8 debug [ do not merge]
#1385 opened Dec 17, 2025 by jomitchellnv Loading…
9 tasks
1
Bump filelock from 3.18.0 to 3.20.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1384 opened Dec 16, 2025 by dependabot bot Loading…
1
manual gc in llama3
#1381 opened Dec 15, 2025 by pstjohn • Draft
1
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
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
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
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
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