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Pull requests list

Add Colabfold msa server timeouts safe-to-test Internal only label used to indicate PRs that are ready for automated CI testing.
#399 opened Sep 9, 2026 by jnwei Contributor Loading…
2 tasks done
1
Covalent bonds
#397 opened Sep 8, 2026 by peter-s-obi Contributor Loading…
Chemical steering: gradient guidance toward valid ligand chemistry
#395 opened Sep 4, 2026 by jnwei Contributor Loading…
5
Fix assigned C=C planarity on the default inference path
#388 opened Aug 28, 2026 by ahmedtaha100 Contributor Loading…
Ligand chemical steering
#385 opened Aug 26, 2026 by peter-s-obi Contributor Loading…
1
initial draft of SKILLS.md
#382 opened Aug 24, 2026 by jnwei Contributor • 2/2 Loading…
1 task
1
Parse a query entry from an mmcif file safe-to-test Internal only label used to indicate PRs that are ready for automated CI testing.
#381 opened Aug 24, 2026 by jnwei Contributor • 1/2 Loading…
Add optional fast_trimul fp16 triangle-multiply backend (inference, opt-in) enhancement New feature or request sketch This is an idea/sketch rather than a mergeable PR, significant work needed to advance needed
#379 opened Aug 22, 2026 by tiagomonteiro0715 • Draft
4
Fix 278 B6 missing standard AA reference SDFs
#376 opened Aug 21, 2026 by Tanokri02 Contributor Loading…
Fix lowercase atom name encoding
#369 opened Aug 13, 2026 by Tanokri02 Contributor Loading…
2
Fix 278 C1 Add mmCIF preflight validation safe-to-test Internal only label used to indicate PRs that are ready for automated CI testing.
#368 opened Aug 12, 2026 by Tanokri02 Contributor Loading…
2
fix: fail on unknown molecule types safe-to-test Internal only label used to indicate PRs that are ready for automated CI testing.
#367 opened Aug 12, 2026 by YashBhardwaj21 Loading…
2
Fix issue 278 C4: Add minimal CCD builder for faster preprocessing
#364 opened Aug 11, 2026 by Tanokri02 Contributor Loading…
refactor: teardown NCCL process group enhancement New feature or request inference Relating to the inference pipeline
#361 opened Aug 10, 2026 by jandom Collaborator • Draft
@jandom
fix: multi-gpu nodes hangs in run_openfold predict bug Something isn't working inference Relating to the inference pipeline
#360 opened Aug 10, 2026 by jandom Collaborator • Draft
@jandom
2
ci: run full coverage with GPU tests
#357 opened Aug 5, 2026 by jandom Collaborator • Draft
@jandom
1
fix: use bin centers, not left edges, for pLDDT/PAE/PDE classificatio… bug Something isn't working science Discussions about scientific aspects of OpenFold3
#355 opened Aug 5, 2026 by Pana-TsK Contributor Loading…
1
Reweighted Triton Ball-Query Smooth lDDT with 51-Structure Protein–RNA Validation training Relating to the training pipeline
#351 opened Aug 4, 2026 by Lim-ZQ Loading…
fix: two bugs in extract_alignments_to_pair (crash + off-by-one) bug Something isn't working science Discussions about scientific aspects of OpenFold3
#350 opened Aug 2, 2026 by Pana-TsK Contributor Loading…
4
Deduplicate template hits by sequence safe-to-test Internal only label used to indicate PRs that are ready for automated CI testing.
#348 opened Jul 30, 2026 by etowahadams Contributor Loading…
@jandom
6
fix: correct deletion_value coefficient (was 4x too large) bug Something isn't working science Discussions about scientific aspects of OpenFold3
#347 opened Jul 30, 2026 by Pana-TsK Contributor Loading…
@jandom
3
fix: propagate per-chain MSA padding mask into msa_mask bug Something isn't working science Discussions about scientific aspects of OpenFold3
#346 opened Jul 30, 2026 by Pana-TsK Contributor Loading…
doc update for #172: updating the docs to correctly reflect that msa … documentation Improvements or additions to documentation
#337 opened Jul 24, 2026 by Pana-TsK Contributor Loading…
1
3
Optimize the handling of missing version_tensor
#329 opened Jul 21, 2026 by bluecake-dh Contributor Loading…
2
Build template pair features from coordinates online training Relating to the training pipeline
#322 opened Jul 19, 2026 by heathcliff233 Loading…
5 tasks done
1
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