Published September 6, 2019
| Version biojava-5.3.0
Software
Open
biojava/biojava: BioJava 5.3.0
Authors/Creators
- Andreas Prlic1
- Jose Manuel Duarte
- Spencer Bliven2
- Aleix Lafita3
- Anthony Bradley4
- Douglas Myers-Turnbull5
- JianJiong Gao6
- emckee2006
- Mark Chapman7
- Andrew Yates3
- Peter Rose8
- Michael L Heuer9
- willishf
- kohchuanhock
- Amr ALHOSSARY10
- Paolo Pavan11
- foisys
- valasatava
- Ulysse Carion12
- Dmytro Guzenko13
- Peter Troshin
- Sebastian Bittrich
- benjamintboyle
- Matt Larson
- Jules Jacobsen14
- Jacek Grzebyta
- Hannes Brandstätter-Müller15
- hollandr
- James Morris
- Audrius Meškauskas
- 1. Invitae
- 2. Paul Scherrer Institute
- 3. EMBL-EBI
- 4. Diamond Light Source
- 5. Stanford University
- 6. MSKCC
- 7. University of Wisconsin
- 8. San Diego Supercomputer Center, UCSD
- 9. UC Berkeley AMPLab/RISE Lab
- 10. Nanyang Technological University
- 11. Genomnia srl
- 12. @segmentio
- 13. @rcsb
- 14. Queen Mary University of London
- 15. Catalysts
Description
New features
- Support for reading structures from binary cif format in structure module, thanks to CIFTools-java library. Thanks @JonStargaryen
- Reading structures from mmCIF via new parser from CIFTools-java library. Much better read performance than existing parser. Both parsers still live alongside in BioJava 5.3.0, with default still being the BioJava native one.
- 8x performance increase in reading (non-gzipped) MMTF files thanks to mmtf-java dependency upgrade to 1.0.9
- Bug fixes in MMTF file reading, #671 #850
- Bug fix in OBO reading, where only one synonym was saved, #836
- Bug fix in Genbank LOCUS line parsing #833
- Bug fix in PDB file reading of MTRIX records #845
- Bug fix in GenbankReader #800 #829
- Dependencies and maven plugin upgrades
Files
biojava/biojava-biojava-5.3.0.zip
Additional details
Related works
- Is supplement to
- https://github.com/biojava/biojava/tree/biojava-5.3.0 (URL)