sokrypton/ColabFold

Issues

• MSA on local machine?

  #650 opened 3 months ago by GXcells
  1

• Both ColabFold notebook and localcolabfold cannot predict this sequence.

  #657 opened 2 months ago by Huilin-Li
  0

• Clarification on MSA server RAM requirements

  #626 opened 2 months ago by puddleglum56
  2

• No module named 'pdbfixer' in relax_amber.ipynb

  #656 opened 2 months ago by hajnal-adam
  4

• ColabFold process stuck in 'pending' state when using custom template and single sequence mode

  #655 opened 2 months ago by mavericb
  0

• My mmCIF contains no mentioned error but the parsing still doesn't work

  #654 opened 2 months ago by GGTuber
  0

• error in running colab_batch for provided msa and templates

  #653 opened 3 months ago by Lee951108
  0

• Issues using forked alphafold for modifed colabfold

  #652 opened 3 months ago by michaelhla
  3

• Installing dependencies throws error while loading conda entry point (Jupyter Notebook)

  #651 opened 3 months ago by joel-wallace
  0

• Question: How to set up and use local MMseqs2 server with ColabFold Docker image❓

  #636 opened 4 months ago by mavericb
  8

• multimeres not working with local mmseqs API

  #625 opened 7 months ago by reyjul
  11

• Limitations for template selection

  #645 opened 4 months ago by GISTAL
  1

• MMseq2 API error

  #649 opened 4 months ago by GISTAL
  0

• How to merge uniref30 database and general mmseqs databases by mmseqs createdb?

  #648 opened 4 months ago by TheChosenOneJG
  0

• Empty hit_pdb files because of Error: Could not find CIFs

  #647 opened 4 months ago by christophista
  0

• Timing out when attempting to make a prediction?

  #646 opened 4 months ago by rachitk
  4

• colabfold_search failed on custom sequence database

  #609 opened 8 months ago by qiyifei1
  2

• Timeout api.colabfold.com server

  #606 opened 8 months ago by rukibuki
  15

• Timeout while submitting to MSA server

  #618 opened 8 months ago by zhangjuan233
  7

• Custom template issue

  #644 opened 4 months ago by PDEPMC
  2

• run prediction error

  #643 opened 5 months ago by gmestrallet
  0

• Add new release tag to catchup with latest changes in the main branch.

  #642 opened 5 months ago by lyskov
  0

• Could not get MSA/templates for msa: [Errno 2] No such file or directory:

  #641 opened 5 months ago by PintoBI
  0

• ERROR: Cannot install colabfold and tensorflow-cpu==2.11.0 because these package versions have conflicting dependencies.

  #640 opened 5 months ago by courtel
  1

• LLVM Error on `aarch64` container

  #638 opened 5 months ago by wahabk
  2

• Colabfold install on `aarch64` with GPU support

  #637 opened 5 months ago by wahabk
  3

• Trying to run ColabFold v1.5.2

  #635 opened 5 months ago by msafranchik1994
  2

• AlphaFold2_advanced.ipynb numpy error

  #630 opened 6 months ago by justinecwilliams
  2

• Type Error when altering stop_at_score parameter in Alphafold2_batch in Google Colab

  #634 opened 5 months ago by bry250
  0

• How does not apply MSA server to run ColabFold

  #629 opened 6 months ago by 15019669985
  2

• Data privacy policy

  #632 opened 6 months ago by iRove108
  0

• Inconsistency of IO files when running colabfold_search and colabfold_batch with templates locally

  #628 opened 6 months ago by petaripenev
  1

• Issue when using template mode

  #627 opened 6 months ago by samuelmurail
  7

• ModuleNotFoundError BiopythonDeprecationWarning

  #623 opened 7 months ago by bai717273
  3

• Docker image colabfold:1.5.5-cuda12.2.2 returning 100_230517_seq does not exist

  #624 opened 7 months ago by bmarkus
  0

• Extremely slow `expandaln` step in `colabfold_search`

  #621 opened 7 months ago by EvanKomp
  0

• install dependencies error

  #619 opened 7 months ago by norsedrunkensailor
  4

• Two MSA results in --msa-only output

  #620 opened 7 months ago by NooraAz
  0

• ColabFold custom PDB upload

  #617 opened 8 months ago by mjemmett
  1

• ColabFold 1.5.5 / AF2 using MMSeqs2 crash due to MMSeqs2 API errors

  #616 opened 8 months ago by jfbazan
  1

• Error extracting the uniref30

  #615 opened 8 months ago by ahof1704
  0

• AlphaFold2_batch, MSA single_sequence, use_templates

  #613 opened 8 months ago by msimchi
  0

• --prefilter-mode flag incompatible with recommended version of mmseqs (colabfold search)

  #604 opened 8 months ago by NickWoodall
  3

• Error Running hhsearch Against pdb100 ("sequence length does not fit to read MSA")

  #612 opened 8 months ago by brucejwittmann
  0

• Maximal input size reduction between 1.5.2 and 1.5.5

  #611 opened 8 months ago by nejmeijer
  0

• Error in Local Template Search

  #610 opened 8 months ago by GCS-ZHN
  0

• Relax_amber notebook

  #608 opened 8 months ago by Jameel9
  0

• checkpointing in job submissions

  #607 opened 8 months ago by apal6
  0

• RosettaFold2 Colab crashing at end of prediction run

  #603 opened 8 months ago by jfbazan
  2

• "Attributer Error" in Cell 4 AlphaFold.ipynb

  #602 opened 8 months ago by tillenglert
  2