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Pull requests: NVIDIA-BioNeMo/bionemo-framework

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Pull requests list

Bump torch from 2.6.0a0+ecf3bae40a.nv25.01 to 2.8.0 in /bionemo-recipes/models/amplify dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1620 opened Jun 10, 2026 by dependabot Bot Loading…
2
Bump the all-dependencies group across 1 directory with 204 updates dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1617 opened Jun 8, 2026 by dependabot Bot Loading…
2
Bump the all-dependencies group across 1 directory with 204 updates dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1616 opened Jun 8, 2026 by dependabot Bot Loading…
2
Jwilber/nemotron sae recipe
#1614 opened Jun 6, 2026 by jwilber Collaborator Loading…
@jwilber
2
Bump pyarrow from 23.0.0 to 23.0.1 in /bionemo-recipes/interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1612 opened Jun 5, 2026 by dependabot Bot Loading…
2
Bump pyarrow from 21.0.0 to 23.0.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1611 opened Jun 5, 2026 by dependabot Bot Loading…
2
chore(deps): combined dependabot dependency updates
#1606 opened Jun 5, 2026 by svc-bionemo Collaborator Loading…
1
evo2 SAE feature-explorer dashboard
#1604 opened Jun 5, 2026 by polinabinder1 Collaborator • Draft
2
evo2: live Evo2+SAE inference engine + steering server + CLI
#1603 opened Jun 5, 2026 by polinabinder1 Collaborator • Draft
3
Bump starlette from 0.50.0 to 1.0.1 in /bionemo-recipes/interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1602 opened Jun 4, 2026 by dependabot Bot Loading…
2
Bump starlette from 0.48.0 to 1.0.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1601 opened Jun 4, 2026 by dependabot Bot Loading…
2
Bump qs from 6.14.1 to 6.15.2 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
#1599 opened Jun 3, 2026 by dependabot Bot Loading…
2
Bump qs from 6.14.1 to 6.15.2 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
#1593 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump idna from 3.11 to 3.15 in /bionemo-recipes/interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1592 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump urllib3 from 2.6.3 to 2.7.0 in /bionemo-recipes/interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1591 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump gitpython from 3.1.46 to 3.1.50 in /bionemo-recipes/interpretability/sparse_autoencoders dependencies Pull requests that update a dependency file python:uv Pull requests that update python:uv code
#1590 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump gitpython from 3.1.45 to 3.1.50 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1589 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump mistune from 3.1.3 to 3.2.1 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1588 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump idna from 3.10 to 3.15 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1586 opened Jun 2, 2026 by dependabot Bot Loading…
2
Bump urllib3 from 1.26.20 to 2.7.0 in /bionemo-recipes/recipes/codonfm_ptl_te dependencies Pull requests that update a dependency file python Pull requests that update Python code
#1587 opened Jun 2, 2026 by dependabot Bot Loading…
2
[DRAFT] Evo 2 SAE feature explorer — visualization mockup
#1582 opened May 26, 2026 by polinabinder1 Collaborator • Draft
5 tasks
2
interpretability/sae: add bionemo-sae-recipe Claude skill
#1578 opened May 21, 2026 by polinabinder1 Collaborator Loading…
9 tasks
2
fix: guard division-by-zero and uninitialized state in metrics/masking code
#1576 opened May 18, 2026 by mooreneural Loading…
4 tasks
5
[WIP] codonfm recipe
#1573 opened May 13, 2026 by balvisio Collaborator Loading…
9 tasks
1
Jwilber/cd image up4 ciflow:skip Skip all CI tests for this PR
#1569 opened May 4, 2026 by jwilber Collaborator Loading…
@jwilber
3
ProTip! Exclude everything labeled bug with -label:bug.