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Pull requests: NVIDIA/bionemo-framework

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Pull requests list

Hyena Inference Updates to support Flash Decode
#1000 opened Jul 23, 2025 by jstjohn Loading…
1
DRAFT: Temporal GF
#998 opened Jul 22, 2025 by camirr-nv Loading…
9 tasks
1
add trivy container scan
#997 opened Jul 22, 2025 by pstjohn Loading…
Fix esm2 lora inference
#996 opened Jul 22, 2025 by yzhang123 Loading…
1 of 9 tasks
11
[SCDL] Add README and speedtest SKIP_CI Completely skips the CI pipeline
#995 opened Jul 21, 2025 by edawson Loading…
1 of 9 tasks
4
Bump 3rdparty/Megatron-LM from f8d3e2e to 653b20a dependencies Pull requests that update a dependency file submodules Pull requests that update Submodules code
#993 opened Jul 21, 2025 by dependabot bot Loading…
2
Reset parameters for the ESM-2 contact head on HF export
#983 opened Jul 16, 2025 by pstjohn Loading…
2
feat: added lora to evo2
#980 opened Jul 7, 2025 by gabenavarro Loading…
5 tasks done
17
Code for general single cell benchmarking
#969 opened Jul 2, 2025 by polinabinder1 • Draft
5
Add ESM2 Finetuning Benchmark Configuration
#964 opened Jul 1, 2025 by nvmvle Loading…
3 of 9 tasks
19
Bump rust from 1.86.0 to 1.88.0 dependencies Pull requests that update a dependency file docker Pull requests that update docker code
#963 opened Jun 30, 2025 by dependabot bot Loading…
2
Fix jupyter_core and protobuf vulnerabilities
#960 opened Jun 26, 2025 by balvisio Loading…
1 of 9 tasks
5
[Draft] Reuse Test Data Across Multiple Tests For Geneformer
#955 opened Jun 24, 2025 by nvmvle • Draft
4 of 9 tasks
5
Add Unit Test for Genformer Training Script INCLUDE_SLOW_TESTS Add unit tests marked as slow to CI pipeline
#943 opened Jun 16, 2025 by nvmvle Loading…
4 of 9 tasks
10
draft: investigate perf oscillation
#937 opened Jun 11, 2025 by dorotat-nv Loading…
9 tasks
1
[Draft] add one logger for e2e metric logging
#928 opened Jun 5, 2025 by dorotat-nv Loading…
1 of 9 tasks
Dorotat/add bigger model geneformer evo2
#921 opened Jun 4, 2025 by dorotat-nv Loading…
1 of 9 tasks
Add a ProteinFastaDataset object for indexed fasta files
#896 opened May 27, 2025 by pstjohn Loading…
adding .obs to scdl
#872 opened May 12, 2025 by polinabinder1 • Draft
4
Fix ESM2 + Geneformer regression
#863 opened May 8, 2025 by dorotat-nv Loading…
9 tasks
1
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
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