| 1.15-3448 | 2019-03-18 | successful |
ci, intel-linux-2.6-x86_64-centos6, mac-intel-osx-x86_64, intel-windows-x86_64 |
docs; changelog |
| 1.14-3260 | 2018-09-11 | successful |
ci, mac-intel-osx-x86_64, intel-windows-x86_64, intel-windows, intel-linux-2.6-x86_64-centos6, intel-linux-2.6-centos5, intel-linux-2.6-x86_64-centos5 |
Official 1.14 release; docs; changelog |
| User notes for 1.14-3260:
Reorganization and addition of cryo-EM tools
- phenix.mtriage - assess map and model quality
- phenix.auto_sharpen - map sharpening
- phenix.map_symmetry - identify symmetry in maps
- phenix.map_box - cut out unique parts of maps
- phenix.combine_focused_maps - combine different maps
- phenix.dock_in_map - automatically place a model into a map
- phenix.map_to_model - automatically build model into a map
- phenix.sequence_from_map - identify sequence from a map
- phenix.real_space_refine - improved refining to models
- phenix.validation_cryoem - separate tool for comprehensive validation of models and maps
Phaser
- Bug fixes
- Improved data information content functionality
Ligands
- Better support for metals and metal clusters
- Added support for QM package, Orca
Other improvements
- Better performance
- NCS search
- Generating secondary structure restraints
- Clashscore calculation
- phenix.ligand_identification - option to generate ligand library based on sequence and structural homologs of input
|
| 1.13-2998 | 2017-12-23 | successful |
ci, intel-windows, intel-windows-x86_64, intel-linux-2.6-centos5, mac-intel-osx-x86_64, intel-linux-2.6-x86_64-centos6, intel-linux-2.6-x86_64-centos5 |
Official 1.13 release; docs; changelog |
| User notes for 1.13-2998: Improvements:
- phenix.map_to_model - better symmetry support and improved runtime efficiency
- phenix.structure_search - structural library and internal support for mmCIF
- phenix.ligand_identification - limit ligand size for search
- Phaser 2.8.1 - various bug fixes
- Structure Comparison - more/improved validation information (ligands, waters, cis/trans peptides, HIS protonation)
- GUI - automatic validation after phenix.real_space_refine; visual improvements in validation
- Internal bug fixes and performance improvements
|
| 1.12-2829 | 2017-07-07 | successful |
ci, intel-windows-x86_64, mac-intel-osx-x86_64, intel-windows, intel-linux-2.6-x86_64-centos5, intel-linux-2.6-x86_64-centos6, intel-linux-2.6-centos5 |
Official 1.12 Release; docs; changelog |
| User notes for 1.12-2829: New Tools: phenix.secondary_structure_validation, Structure Comparison, phenix.mtriage, phenix.real_space_diff_map
Improvements: better sharpening algorithms in phenix.auto_sharpen; better iterative map improvement in phenix.map_to_model; individual mapping in phenix.map_to_object; better outlier rejection in ssm-rmsd calculation in phenix.find_alt_orig_sym_mate; Secondary structure restraints use angles for restraining hydrogen bonds; User-defined box in phenix.polder in addition to atom selection; various improvements to phenix.real_space_refine; can have different restraints for different copies of the same ligand in the same model; better control of peptide planes and omega angles; faster calculation of clashscore; improved handling of cis-peptides in ramalyze; various bug fixes and updated dependencies
GUI: new interfaces for phenix.mtriage, phenix.map_box, phenix.auto_sharpen, phenix.map_to_model, phenix.ncs_average, phenix.sculpt_ensemble |
| 1.11.1-2575 | 2016-10-26 | successful |
ci, intel-windows-x86_64, intel-windows, mac-intel-osx-x86_64, intel-linux-2.6-x86_64-centos6, intel-linux-2.6-centos5, intel-linux-2.6-x86_64-centos5 |
Official 1.11.1 Release; docs; changelog |
| User notes for 1.11.1-2575: Improved geometry restraints, improved NCS search, new map tools (phenix.polder for omit maps without bulk solvent in omitted region, phenix.model_map and phenix.mask for generating maps and bulk solvent masks, phenix.auto_sharpen for cleaning up maps, phenix.segment_and_split_map for segmenting maps), new model-building tools (phenix.map_to_model for low-resolution maps, phenix.chain_comparison for matching residues and direction), improved phenix.real_space_refine and added GUI, improve model geometry (phenix.model_idealization and phenix.geometry_minimization), improved Phaser, improved validation (phenix.reduce and phenix.ramalyze), simplified Rosetta installation, improved support for Amber, updated dependencies, Unicode support in GUI, unified interface for atom selections |
| 1.10.1-2155 | 2015-10-02 | successful |
(no logs found) |
Official 1.10.1 release; docs; changelog |
| User notes for 1.10.1-2155: New features include: CDL as the default protein restraints, tools for planning a SAD experiment and scaling/merging SAD data, refactored xtriage GUI, use of intensities in molecular replacement, occupancy refinement mode after MR to automatically prune the model, expanded real space refinement for cryo-EM (and X-ray) data, NCS constraints in refinement, improved rotamer fitting in refinement, improved and consolidated secondary structure restraints, validation of peptide planes, protein backbone validation using Cablam, structure search tool, updated feature enhanced map protocol, TLS analysis tools, new continuous integration build system (BuildBot), and many other new utilities and fixes. Includes a Centos6 installer. Fixes for the following issues: Incorrect location used for heavy atom files when running AutoBuild in certain circumstances; Errors when adding hydrogens to waters in ReadySet; Errors when using GUI helper applications that handle sequences (e.g. Blast search) |
