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Pull requests: NVIDIA-BioNeMo/bionemo-recipes

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Pull requests list

[wip] mixtra recipe
#1674 opened Jul 2, 2026 by pstjohn Collaborator • Draft
2
Bump transformers from 4.56.2 to 5.3.0 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1673 opened Jul 2, 2026 by dependabot Bot Loading…
1
Bump transformers from 4.51.3 to 5.3.0 in /models/geneformer dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1672 opened Jul 2, 2026 by dependabot Bot Loading…
2
Update PyTorch base images to 26.06
#1671 opened Jul 1, 2026 by pstjohn Collaborator Loading…
4
[TEST — DO NOT MERGE] verify #1667 interp GPU lane runs on the #1622 recipe
#1670 opened Jul 1, 2026 by polinabinder1 Collaborator • Draft
6
feat(evo2-sae): streaming smoke test (producer/consumer) + Lepton convergence config
#1668 opened Jun 30, 2026 by polinabinder1 Collaborator Loading…
13
add mike build instructions
#1666 opened Jun 29, 2026 by pstjohn Collaborator Loading…
1
support lepton launching + add train stream script for esm2
#1663 opened Jun 24, 2026 by jwilber Collaborator Loading…
@jwilber
7
rename framework to recipes
#1662 opened Jun 24, 2026 by pstjohn Collaborator Loading…
2
fix: update jupyterlab and jupyterlab_server to fix dependabot conflict in codonfm_ptl_te
#1658 opened Jun 21, 2026 by svc-bionemo Collaborator Loading…
2
Bump jupyterlab from 4.4.5 to 4.5.9 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1657 opened Jun 20, 2026 by dependabot Bot Loading…
2
Bump msgpack from 1.1.1 to 1.2.1 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1656 opened Jun 20, 2026 by dependabot Bot Loading…
2
Bump jupyter-server from 2.16.0 to 2.20.0 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1655 opened Jun 18, 2026 by dependabot Bot Loading…
2
docs: replace obsolete --experiment-dir with --result-dir in SLURM guide (#1128)
#1654 opened Jun 18, 2026 by rtmalikian Loading…
1
2
Bump starlette from 0.48.0 to 1.3.1 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1651 opened Jun 16, 2026 by dependabot Bot Loading…
2
Bump tornado from 6.5.1 to 6.5.7 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1650 opened Jun 16, 2026 by dependabot Bot Loading…
2
Bump python-multipart from 0.0.20 to 0.0.31 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1649 opened Jun 16, 2026 by dependabot Bot Loading…
2
Bump bleach from 6.2.0 to 6.4.0 in /recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1648 opened Jun 16, 2026 by dependabot Bot Loading…
2
Bump python-multipart from 0.0.20 to 0.0.31 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1646 opened Jun 16, 2026 by dependabot Bot Loading…
2
Bump the all-dependencies group across 1 directory with 206 updates dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1644 opened Jun 15, 2026 by dependabot Bot Loading…
2
Bump the all-dependencies group across 1 directory with 206 updates dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1643 opened Jun 15, 2026 by dependabot Bot Loading…
2
Bump esbuild, @vitejs/plugin-react and vite in /bionemo-recipes/interpretability/sparse_autoencoders/recipes/codonfm/codon_dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1641 opened Jun 12, 2026 by dependabot Bot Loading…
2
Bump esbuild, @vitejs/plugin-react and vite in /bionemo-recipes/interpretability/sparse_autoencoders/recipes/esm2/protein_dashboard dependencies Pull requests that update a dependency file javascript Pull requests that update javascript code
#1640 opened Jun 12, 2026 by dependabot Bot Loading…
2
Bump tornado from 6.5.1 to 6.5.6 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1639 opened Jun 12, 2026 by dependabot Bot Loading…
2
Bump pyo3 from 0.18.3 to 0.29.0 in /sub-packages/bionemo-noodles dependencies Pull requests that update a dependency file rust Pull requests that update rust code
#1638 opened Jun 12, 2026 by dependabot Bot Loading…
2
ProTip! What’s not been updated in a month: updated:<2026-06-03.