All pull requests

Pull requests

• Default --db2 to the template database created by setup_databases.sh (#748)

  #867·AtharvaTilewale opened Oct 24, 2026·

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• Skip template mmCIFs that biopython cannot parse (#610)

  #866·AtharvaTilewale opened Oct 24, 2026·

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• Fall back to the query sequence for empty custom MSAs (#770)

  #865·AtharvaTilewale opened Oct 24, 2026·

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• Update CAAT Docker Container

  #863·prameshsharma25 opened Oct 19, 2026·

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• Add --version flag to colabfold_batch, colabfold_search and colabfold_split_msas

  #854·RonitBStudent opened Sep 18, 2026·

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• Fix FileNotFoundError when custom template filenames use upper-case PDB codes or extensions

  #851·crfield18 opened Sep 2, 2026·

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• AlphaFold3_of3: fix install on Colab's Python 3.13 runtime

  #849·sokrypton opened Aug 27, 2026Owner·

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• Skip optional-extra-dependent tests gracefully on minimal installs

  #831·volgin opened May 22, 2026·2 of 3 tasks·

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• Pass default MMseqs k-score without shell quotes

  #830·volgin opened May 18, 2026·

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• Harden retry loops in run_mmseqs2

  #829·volgin opened May 18, 2026·1 of 2 tasks·

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• Fix indentation error in plot.py

  #823·danielgarzonotero opened Apr 6, 2026·

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• Change SUBSET value from 10 to 1010

  #819·akashkishore opened Mar 20, 2026·

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• Add support for mixed pairing dbs (indexed/non-indexed)

  #776·tlitfin-unsw opened Sep 7, 2025·

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• Add --merge-a3m option to colabfold_search.

  #769·tomgoddard opened Aug 30, 2025Contributor·

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• Add chain_iptm and ptm_matrix saving in the json file.

  #633·samuelmurail opened Jul 7, 2024·

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• General refactoring for increased modularity and separation of concerns

  #605·alexpBCR opened Apr 16, 2024·

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• Update setup_databases.sh

  #514·nicolang1 opened Nov 6, 2023·

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• Implement unpaired alignment

  #398·Dohyun-s opened Feb 26, 2023·

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• Rename qdb.lookup so that it will not be removed

  #325·ZiyaoLi opened Oct 28, 2022·

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