Issues

• Pretrained Model

  PaddlePaddle/PaddleHelix#377 · Filter by author jeavesj opened on Dec 4, 2025

• computational performance advice

  PaddlePaddle/PaddleHelix#376 · Filter by author DavidBJaffe opened on Aug 31, 2025
  6

• HelixFold install fails on pip install -r requirements.txt

  PaddlePaddle/PaddleHelix#374 · Filter by author DavidBJaffe opened on Aug 10, 2025
  5

• HelixFold3 won't run on new GPU architectures due to Paddle incompatibility

  PaddlePaddle/PaddleHelix#369 · Filter by author jscgh opened on Mar 24, 2025

• The pretrained weights do not match the model architecture

  PaddlePaddle/PaddleHelix#364 · Filter by author Runinthenight opened on Dec 26, 2024

• Prediction of TCR-p complexes.

  PaddlePaddle/PaddleHelix#363 · Filter by author Alexasparis opened on Dec 16, 2024
  2

• UFFTYPER: Unrecognized atom type: Cu

  PaddlePaddle/PaddleHelix#360 · Filter by author Alfayang opened on Nov 20, 2024

• helixfold3 how to set constraints

  PaddlePaddle/PaddleHelix#356 · Filter by author kehan777 opened on Nov 5, 2024

• gem 预训练权重问题

  PaddlePaddle/PaddleHelix#355 · Filter by author reese-lee1 opened on Nov 1, 2024
  5

• Ranking score calculation?

  PaddlePaddle/PaddleHelix#348 · Filter by author hallelujahxn opened on Sep 9, 2024

• AttributeError: module 'paddle.fluid.core_avx.ops' has no attribute 'fused_gemm_epilogue'

  PaddlePaddle/PaddleHelix#344 · Filter by author qfduli opened on Sep 6, 2024

• HelixFold3 predicts unreasonable structures

  PaddlePaddle/PaddleHelix#343 · Filter by author Garhorne0813 opened on Sep 5, 2024
  2

• FatalError: Process abort signal is detected by the operating system. :(

  PaddlePaddle/PaddleHelix#342 · Filter by author melyssacheung opened on Sep 5, 2024

• How to include post-translation modifications?

  PaddlePaddle/PaddleHelix#338 · Filter by author jkosinski opened on Sep 3, 2024
  1

• demo_6zcy: ccd prediction (demo_6zcy.json) by helixfold3 is ok, but smiles (demo_6zcy_smiles.json) failed

  PaddlePaddle/PaddleHelix#337 · Filter by author Samuel-gwb opened on Sep 3, 2024
  2

• Apache 2 license missing

  PaddlePaddle/PaddleHelix#335 · Filter by author igor-krawczuk opened on Sep 3, 2024
  1

• Server connectivity from USA

  PaddlePaddle/PaddleHelix#334 · Filter by author sokrypton opened on Sep 1, 2024
  3

• gem problem

  PaddlePaddle/PaddleHelix#333 · Filter by author reese-lee1 opened on Aug 31, 2024
  1

• Regarding the download command issue

  PaddlePaddle/PaddleHelix#332 · Filter by author LUDENGZHEN opened on Aug 29, 2024
  2

• About HelixFold3 PTMs

  PaddlePaddle/PaddleHelix#331 · Filter by author v-shaoningli opened on Aug 29, 2024
  2

• HelixFold3 的测试数据集与AF3对齐的问题

  PaddlePaddle/PaddleHelix#324 · Filter by author JinyuanSun opened on Aug 27, 2024
  1

• PaddleHelix工具集应用

  PaddlePaddle/PaddleHelix#320 · Filter by author zhangxianhe666 opened on Aug 19, 2024
  1

• helixdock在posebuster数据集中处理蛋白质文件与提供处理好的文件不太一样

  PaddlePaddle/PaddleHelix#304 · Filter by author zhangxiaofan-star opened on Aug 7, 2024

• Usage problem

  PaddlePaddle/PaddleHelix#299 · Filter by author ActionBeam opened on Jun 17, 2024
  2

• pip install paddlehelix fails due to sklearn deprecation

  PaddlePaddle/PaddleHelix#295 · Filter by author AndyLiu-121 opened on Jun 6, 2024
  2