google-deepmind/alphafold

Issues

• Not able to run prediction __ AlphaFold2.ipynb

  #1037 opened 14 days ago by asm-cell
  1

• Error in ' install dependencies"

  #1039 opened 2 months ago by christinapapa
  1

• unable to generate User-provided CCD format ligand

  #1045 opened 22 days ago by YoavShamir5
  2

• ModuleNotFoundError: No module named 'tree'

  #1047 opened 23 days ago by adokhugi
  0

• cccccbrvievirrenuvrtivgfruuuceuundhrfldutlrd

  #1046 opened a month ago by dannf
  1

• Bulk download from AlphaFold3 server

  #949 opened a month ago by johnnytam100
  1

• Failed to build docker on cuda:11.0.3-base

  #1038 opened 2 months ago by hyeonLIB
  1

• FTP blocked? Try the rcsb aws bucket

  #1043 opened a month ago by danpf
  0

• Alpha fold dependencies plot protein command not executing

  #1040 opened 2 months ago by SatyajitMishra1
  1

• Alpha fold

  #1041 opened 2 months ago by taisom27
  0

• Endless "[Perf]: MatMul reference implementation being executed generated" messages and dramatic inference slowdown upon updating to docker 27.3.1

  #1021 opened 3 months ago by lucajovine
  3

• Alphafold stopped using GPU after upgrade to Ubuntu 24.04.1 (noble)

  #1035 opened 2 months ago by hofmank0
  3

• Alphafold runs will not find the GPU

  #1029 opened 2 months ago by tuttlelm
  3

• Running AlphaFold on models larger than AMD GPU available memory

  #958 opened 5 months ago by dipietrantonio
  4

• does alphafold 2 explicitly model co-evolution?

  #1036 opened 2 months ago by PatschD
  0

• README does not mention that rsync is needed for DB download

  #1032 opened 2 months ago by MamfTheKramf
  0

• how is alpha fold 3 trained

  #1031 opened 3 months ago by joepareti54
  0

• InvalidSpec: The package "nvidia/linux-64::cuda-compiler==12.5.0=0" is not available for the specified platform

  #945 opened 7 months ago by ocstx
  13

• requirement:tensorflow-cpu

  #1030 opened 3 months ago by nibingwei123
  0

• Hopefully that helps.

  #1027 opened 3 months ago by SocialNinjaMaster
  1

• Installation without docker

  #1026 opened 3 months ago by fglaser
  0

• lost some output files

  #1023 opened 3 months ago by xjhzjucas
  0

• Could we track how long one AlphaFold program run?

  #1018 opened 3 months ago by WenWu-Bio
  1

• Dockerfile problem: jaxlib-0.1.75+cuda11.cudnn805-cp37-none-manylinux2010_x86_64.whl is not a supported wheel on this platform

  #1017 opened 3 months ago by WenWu-Bio
  0

• ดู] ทองประกายแสด ใบเฟิร์น ดูย้อนหลัง Ep.7 ตอนที่ 7 เต็ม เรื่อง ดูออนไลน์ฟรี HD

  #1014 opened 4 months ago
  0

• Segment default 段错误，import pdbfixer，and from stimtk import app

  #1015 opened 4 months ago by zhangyichen534
  1

• Open Access

  #935 opened 5 months ago by SocialNinjaMaster
  1

• ValueError: Minimization failed after 100 attempts.

  #955 opened 6 months ago by zcswnm
  4

• IndexError: list index out of range

  #998 opened 5 months ago by Sanju2125
  1

• IndexError: list index out of range

  #999 opened 5 months ago by Sanju2125
  1

• Weird Inference Behavior with GPU: Sometimes it works or Segmentation Fault/Filesystem Space Error

  #997 opened 5 months ago by juliocesar-io
  0

• Question about the self-distillation dataset

  #996 opened 5 months ago by raouf-keskes
  0

• Is the AlphaFold2 PDB structures available for download predicted using the UniProt canonical sequence?

  #957 opened 5 months ago by yang-arina
  0

• Inference speed question.

  #956 opened 6 months ago by Lix1993
  0

• Falling back to the CUDA driver for PTX compilation; ptxas does not support CC 8.9

  #953 opened 6 months ago by rafaeltiveron
  7

• Cannot download pdb70 database

  #952 opened 6 months ago by Lix1993
  0

• @YiningWang2

  #951 opened 6 months ago by fereidoon27
  0

• optimize alphafold2 speed on different GPUs

  #950 opened 6 months ago by gorliver
  0

• alphafold crash causes nvml library mismatch which cannot be resolved. must reinstall ubuntu OS

  #948 opened 7 months ago by rlwoltz
  2

• JSON upload to AF3 server saves drafts without running, then gives remaining jobs is 0

  #944 opened 7 months ago by NooriFatima
  0

• Using rotamers for mutations

  #943 opened 7 months ago by n1812
  1

• The request and urllib3 version dependency conflict problem occurs, and the error ocker.errors.DockerException: Error while fetching server API version: request() got an unexpected keyword argument 'chunked' appears

  #942 opened 7 months ago by hezhiqiang8909
  0

• mmCIF much larger than stated

  #940 opened 7 months ago by stianale
  0

• Downloaded cif file from open access doesn't have secondary structure assignments

  #936 opened 8 months ago by jiangandrew
  2

• Specifying Disulphide bonds to AlphaFold

  #937 opened 8 months ago by vineeshsriramoju
  1

• FileNotFoundError: [Errno 2] No such file or directory: '/tmp/tmpzszd_m92/output.a3m'

  #934 opened 8 months ago by 33LIKL
  0

• An error free installation package

  #933 opened 8 months ago by xianyu-123
  1

• Can I use a custom PDB file for multimer prediction

  #932 opened 8 months ago by hopanoid
  0

• The definition of bins in Predicted Aligned Error Head(PAE) may be wrong

  #929 opened 8 months ago by xiergo
  0

• How to get iPAE

  #928 opened 9 months ago by ryupath
  0