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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

Add compatibility mode for testing with THD collator
#1215 opened Oct 2, 2025 by pstjohn Loading…
4
Add expanded THD unit tests
#1214 opened Oct 1, 2025 by pstjohn • Draft
7
Jm/stateful datasets [DRAFT]
#1212 opened Sep 30, 2025 by jomitchellnv Loading…
9 tasks
15
Bump 3rdparty/Megatron-LM from f8d3e2e to 697fcef dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#1207 opened Sep 30, 2025 by dependabot bot Loading…
2
[WIP] LLAMA3 Integration with BioNeMo Recipes with ASCII Tokenization/EVO2-Style Dataloader
#1205 opened Sep 29, 2025 by savitha-eng • Draft
24
Bump 3rdparty/NeMo from 8c6fd8b to 6ec88a9 dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#1203 opened Sep 29, 2025 by dependabot bot Loading…
2
[WIP] release-v2.7 CI ciflow:all Run all tests (unit tests, slow tests, and notebooks) for bionemo2 or enforce running all tests ciflow:notebooks Run Jupyter notebooks execution tests for docs and bionemo2 ciflow:slow Run slow single GPU integration tests marked as @pytest.mark.slow for bionemo2
#1202 opened Sep 29, 2025 by trvachov Loading…
9 tasks
13
Add initial L1_3B config ciflow:skip Skip all CI tests for this PR
#1199 opened Sep 27, 2025 by jwilber Loading…
@jwilber
4
[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
11
Fix checkpoint bug bad checkpoint hydra structure
#1185 opened Sep 24, 2025 by jomitchellnv Loading…
9 tasks
5
Set up Slack Alerts for nv-gha-actions
#1182 opened Sep 23, 2025 by savitha-eng Loading…
1 of 5 tasks
9
evo2 dlsim validation [Do Not Merge]
#1181 opened Sep 23, 2025 by broland-hat • Draft
9 tasks
2
Bump rust from 1.86.0 to 1.90.0 dependencies Pull requests that update a dependency file docker Pull requests that update docker code
#1174 opened Sep 22, 2025 by dependabot bot Loading…
2
enable predict.py for llama
#1142 opened Sep 10, 2025 by yzhang123 Loading…
2 of 9 tasks
6
Geneformer: TransformerEngine checkpoint conversion
#1139 opened Sep 9, 2025 by ohadmo Loading…
9 tasks
43
Switch deprecated torch_dtype parameter to dtype
#1134 opened Sep 8, 2025 by pstjohn • Draft
4
[Benchmarks] update evo2 finetuning with subquadratic pckg ciflow:skip Skip all CI tests for this PR
#1131 opened Sep 8, 2025 by dorotat-nv Loading…
1 of 9 tasks
1
ESM2: TransformerEngine to HuggingFace checkpoint support
#1121 opened Sep 5, 2025 by ohadmo Loading… LHA-ready
36
Bump torch from 2.6.0a0+ecf3bae40a.nv25.01 to 2.8.0 in /models/amplify dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1116 opened Sep 5, 2025 by dependabot bot Loading…
4
Eden dataloader
#1114 opened Sep 5, 2025 by Geraldene Loading…
9 tasks
17
use gha cache for bionemo test data
#1098 opened Sep 2, 2025 by pstjohn Loading…
9
Fix train_evo2 constant steps description
#1094 opened Sep 1, 2025 by jannis-baum Loading…
5 of 9 tasks
3
Add Llama recipe
#1092 opened Aug 29, 2025 by balvisio • Draft
9 tasks
3
scdataset tests
#1090 opened Aug 28, 2025 by polinabinder1 • Draft
9 tasks
2
move to a separate devcontainer cache, make sure files exist
#1088 opened Aug 28, 2025 by pstjohn • Draft
2
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