Issues

• Experiment-guided AlphaFold3 resolves measurement-consistent protein ensembles - paper

  aqlaboratory/openfold#585 · Filter by author ai-bits opened on Aug 3, 2026

• Accumulate Grad Batches silently dropped while training?

  aqlaboratory/openfold#582 · Filter by author abhinavb22 opened on Jun 15, 2026

• script_utils.py SyntaxWarning

  aqlaboratory/openfold#569 · Filter by author tonykew opened on Apr 10, 2026

• [Showcase] Autonomous generation of a 5°C marine PET-hydrolase

  aqlaboratory/openfold#567 · Filter by author n57d30top opened on Mar 22, 2026

• error in "Import Python packages" cell of Colab

  aqlaboratory/openfold#564 · Filter by author eead-csic-compbio opened on Feb 19, 2026

• run openfold on blackwell architecture GPU

  aqlaboratory/openfold#562 · Filter by author destinypikachu opened on Jan 4, 2026
  4

• Confusing/contradictory comment in primitives.py module

  aqlaboratory/openfold#561 · Filter by author computbiolgeek opened on Dec 23, 2025

• Minor documentation mismatch in atom ordering (protein.py vs residue_constants.py)

  aqlaboratory/openfold#559 · Filter by author Monikerton opened on Dec 8, 2025

• Mapping Large Set of UniProt proteins to OpenProteinSet Uniclust30 MSAs & ColabFold server usage

  aqlaboratory/openfold#556 · Filter by author slee-ai opened on Nov 3, 2025

• python setup.py install command deprecated

  aqlaboratory/openfold#555 · Filter by author BSchilperoort opened on Oct 16, 2025
  1

• Conda channel "pytorch" has been deprecated

  aqlaboratory/openfold#554 · Filter by author BSchilperoort opened on Oct 16, 2025
  2

• On hmmsearch_output.sto

  aqlaboratory/openfold#549 · Filter by author ulupo opened on Aug 5, 2025

• where is .cif

  aqlaboratory/openfold#548 · Filter by author zimu-yu opened on Aug 3, 2025
  1

• missing .cif files.

  aqlaboratory/openfold#546 · Filter by author zimu-yu opened on Aug 2, 2025

• $TEMPLATE_MMCIF_DIR

  aqlaboratory/openfold#545 · Filter by author zimu-yu opened on Aug 1, 2025
  3

• Failed to download weight using download_openfold_params.sh

  aqlaboratory/openfold#544 · Filter by author zdlzglzll opened on Jul 30, 2025

• Difference between Rigid.make_transform_from_reference() and Rigid.from_3_points()

  aqlaboratory/openfold#542 · Filter by author gvisani opened on Jun 27, 2025

• Running the Openfold Inference for PDB 6KWC

  aqlaboratory/openfold#541 · Filter by author TonnarCastellano opened on Jun 23, 2025
  1

• Potential bug in chain_center_of_mass_loss?

  aqlaboratory/openfold#540 · Filter by author abhinavb22 opened on Jun 20, 2025
  1

• Bug in interface detection?

  aqlaboratory/openfold#539 · Filter by author tsjain opened on Jun 18, 2025

• Uninitialized weights: extra_msa_stack.blocks.3. msa_att_row and related for OpenFold Multimer

  aqlaboratory/openfold#538 · Filter by author eswan01 opened on Jun 16, 2025
  1

• Average LDDT-Cα and TM-Score on CAMEO

  aqlaboratory/openfold#535 · Filter by author tyler-hayes opened on May 22, 2025
  1

• Deepspeed evoformer attention bfloat16 consistency issue

  aqlaboratory/openfold#532 · Filter by author jnwei opened on Apr 25, 2025
  3

• Cannot Run Structure Prediction – Missing Modules

  aqlaboratory/openfold#530 · Filter by author 373375458 opened on Apr 19, 2025
  1

• How to run for solo sequence without template

  aqlaboratory/openfold#529 · Filter by author nobleaustine opened on Apr 7, 2025