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Pull requests list

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
Adds THD + CP for ESM2
#1320 opened Nov 13, 2025 by jomitchellnv Loading…
9 tasks
17
Training scripts, tests, and config for llama3; very similar to ESM2 …
#1319 opened Nov 12, 2025 by savitha-eng • Draft
9 tasks
8
Dataset class and tests for LLAMA3; support for streaming, parquet
#1318 opened Nov 12, 2025 by savitha-eng Loading…
5 of 9 tasks
5
Add nucleotide tokenizer for llama3 model to recipes
#1314 opened Nov 7, 2025 by savitha-eng Loading…
5 of 9 tasks
6
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 urllib3 from 1.26.20 to 2.5.0 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1286 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
Bump 3rdparty/Megatron-LM from f8d3e2e to f34fa11 dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#1277 opened Oct 27, 2025 by dependabot bot Loading…
1
Bump 3rdparty/NeMo from 8c6fd8b to b758aed dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#1276 opened Oct 27, 2025 by dependabot bot Loading…
1
Jwilber/debug tflops esm2
#1267 opened Oct 21, 2025 by jwilber Loading…
4
Add gradient accumulation to ESM-2.
#1254 opened Oct 14, 2025 by cspades Loading…
1 of 9 tasks
@cspades
7
Add new geneformer configs ciflow:skip Skip all CI tests for this PR
#1251 opened Oct 13, 2025 by jwilber Loading…
@jwilber
4
updates for jonathan
#1239 opened Oct 8, 2025 by pstjohn • Draft
2
add fp8 to distributed checkpointing tests
#1236 opened Oct 8, 2025 by pstjohn Loading…
19
CI tests on multi-GPU runners ciflow:all Run all tests (unit tests, slow tests, and notebooks) for bionemo2 or enforce running all tests ciflow:multi-gpu Run all multi GPU tests (unit tests, slow tests) for bionemo2 ciflow:slow Run slow single GPU integration tests marked as @pytest.mark.slow for bionemo2
#1229 opened Oct 7, 2025 by gagank1 Loading…
7 of 9 tasks
@gagank1
51
LLAMA3 SQLite Baseline with ASCII Tokenizer
#1217 opened Oct 2, 2025 by savitha-eng • Draft
9 tasks
17
[WIP] LLAMA3 Integration with BioNeMo Recipes with ASCII Tokenization/EVO2-Style Dataloader
#1205 opened Sep 29, 2025 by savitha-eng • Draft
24
[WIP] Update base dependencies ciflow:all Run all tests (unit tests, slow tests, and notebooks) for bionemo2 or enforce running all tests
#1194 opened Sep 25, 2025 by trvachov Loading…
1 of 9 tasks
13
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