Skip to content

Latest commit

 

History

History
89 lines (56 loc) · 2.36 KB

CHANGELOG.md

File metadata and controls

89 lines (56 loc) · 2.36 KB
Raw

RCSB Symmetry

CE-Symm 2.2.2 (symmetry-2.2.2)

Released 2 February 2022

Bug Fixes:

  • Fix NullPointerException when loading files without PDB Ids (#113)
  • Update to biojava 6.0.5

CE-Symm 2.2.1 (symmetry-2.2.1)

Released 5 January 2022

Bug Fixes:

  • Upgrade to BioJava 6.0.4

CE-Symm 2.2.0 (symmetry-2.2.0)

Released 4 January 2022.

This version requires Java 8 or newer, and is tested up to Java 17.

Bug Fixes:

  • Fix Log4j vulnerabilities (CVE-2021-44228 and related)
  • Fix errors when using RCSB services (e.g. fetching domains)
  • Fix issue with Jmol not displaying correctly in european locales
  • Fix issues with older Java versions due to various dependencies (#104)
  • Upgrade to BioJava 6.0.3

Removed Features:

  • Remove ScanSymmetry class

CE-Symm 2.1.0 (symmetry-2.1.0)

Released 9 January 2019.

Includes both CE-Symm and QuatSymm.

This version requires Java 8 or newer.

New features:

  • Use BioJava 5.2.0, which brings lots of improvements:
    • Support Java 8-11 (#97)
    • Improved structure parsing (e.g. better symmetry operator support, mmCIF & MMTF parsing, better distinction between asymm_id and auth_id for identifying chains, etc)
    • Newer Jmol version
  • Better documentation (#96)
  • Separate QuatSymm package

CE-Symm 2.0.0 (symmetry-2.0.0)

Released 3 July 2018 after a long period of beta release candidates.

This version requires Java 7-8.

New features:

  • Multiple alignment between all repeats of the protein
  • Detection of multiple axes of symmetry (both dihedral point groups and hierarchical symmetry)
  • Detection and visualization of point groups
  • Better symmetry detection
  • Monte-Carlo alignment optimization
  • GUI/visualization improvements
  • Major command line option changes
  • Based on BioJava 4.2.12
    • Diverse input formats (pdb, mmcif, local & remote files, chain & residue selections)
    • Numerous bug fixes & improvements

CE-Symm 1.0.0 (symmetry-tools-1.0.0)

Released 18 August 2014

This is the initial release of the CE-Symm tool. It corresponds to the version used in Myers-Turnbull (2014).

This version runs on Java 6-8.

Note that the git history at this time is convoluted due to the merging of several projects. The similarly-named symmetry-1.0.0 tag contains only quaternary symmetry code, rather than CE-Symm. Further reorganizations followed the migration of stable quaternary symmetry and ce-symm code into BioJava.