|
Size: 3187
Comment:
|
Size: 1642
Comment:
|
| Deletions are marked like this. | Additions are marked like this. |
| Line 3: | Line 3: |
| This page will be updated frequently until the final EMAN2.1 release. | '''NOTICE''' - projects in EMAN2.1 are not backwards compatible with EMAN2.0x due to the retirement of BDB. An upgrade program (e2projectupdate21.py) is provided to duplicate EMAN2.0x projects and make them 2.1 compatible, but it is strongly recommended that you NOT delete your 2.0x projects after conversion until you are sure that it worked completely. |
| Line 5: | Line 5: |
| The current release of EMAN2.1 is an ''alpha'' release. In software parlance, this means it is an early pre-release without complete functionality. Some aspects of EMAN2.07 which worked perfectly in EMAN2.07 do not yet function properly in EMAN2.1alpha. This is due to the wide-reaching changes we've made in 2.1 to make it easier to use, and resolve all of the major user complaints about the 2.0x releases. DANGER - projects in EMAN2.1 are not backwards compatible with EMAN2.0x due to the retirement of BDB. An upgrade program is provided to duplicate EMAN2.0x projects and make them 2.1 compatible, but this is still a preliminary version, so it is strongly recommended that you NOT delete your 2.0x projects after conversion. === Major changes in 2.1 (incomplete) === * The BDB system has been completely retired (still usable for access to old projects, but new BDB's are never automatically created by e2* programs) |
=== Major changes in EMAN 2.1 === |
| Line 13: | Line 8: |
| * Typically 2-10x faster than EMAN2.07 due to parameter optimization | * Typically 2-5x faster than EMAN2.07 due to parameter optimization * Typically 10-20x faster than Relion |
| Line 17: | Line 13: |
| * The much hated BDB system has been completely retired for EMAN2 programs * (it is still possible to read BDB files, of course and is still used in SPARX) |
|
| Line 18: | Line 16: |
| * Convert EMAN2.1 projects to Relion, Frealign and XMIPP3.0, for comparative refinement * Import Relion and Frealign refinements to EMAN2.1, also for comparative refinement |
* Convert EMAN2.1 projects to Relion or Frealign, for comparative refinement * Import Relion refinements to EMAN2.1, also for comparative refinement * Ability to use CTFFIND3 if desired |
| Line 21: | Line 20: |
| * Support for DM4, FEI Falcon and other file format improvements | * Support for DM4, FEI Falcon, MRCS and other file format improvements |
| Line 23: | Line 22: |
| * Experimental Direct Detector movie-mode support | * (Experimental) Direct Detector movie-mode support |
| Line 25: | Line 24: |
=== Major features which are working in 2.1alpha1 === * e2projectupdate21 to convert EMAN2.0x files to EMAN2.1 (works, but may have bugs) * Micrograph evaluation * e2boxer, particle import, box file import * all CTF estimation/correction tools * set building (manual bad particle marking not fully functional) * 2-D reference-free class-averaging * initial model building * 3-D refinement with new e2refine-easy * Resolution plotting * Euler angle distribution analysis * Most command-line tools (e2proc2d, e2proc3d, etc.) === Major features which do NOT yet work in 2.1alpha1 === * Tilt validation/RCT * Simultaneous multi-model refinement * XMIPP3 connectivity * e2evalparticles only partially functional We expect to have a sequence of alpha (feature incomplete) and beta (feature complete but may have bugs) releases through July/August 2013. During that time, adventurous users are encouraged to download the test releases and try them out. Just remember that projects used in EMAN2.1 cannot be reverted back to 2.0. The upgrade program will duplicate EMAN2.0 projects during conversion so you don't lose anything. |
Current EMAN2.1 Release Information
NOTICE - projects in EMAN2.1 are not backwards compatible with EMAN2.0x due to the retirement of BDB. An upgrade program (e2projectupdate21.py) is provided to duplicate EMAN2.0x projects and make them 2.1 compatible, but it is strongly recommended that you NOT delete your 2.0x projects after conversion until you are sure that it worked completely.
Major changes in EMAN 2.1
- New e2refine_easy.py
- Automatically computes gold-standard resolution as part of refinement (no extra computation)
- Typically 2-5x faster than EMAN2.07 due to parameter optimization
- Typically 10-20x faster than Relion
- Most parameters automatically selected (user can override if needed)
- Generates full refinement report explaining which parameters were used and why
- Automatic filtration of structures during refinement
- The much hated BDB system has been completely retired for EMAN2 programs
- (it is still possible to read BDB files, of course and is still used in SPARX)
- Improved infrastructure for single particle tomography
- Convert EMAN2.1 projects to Relion or Frealign, for comparative refinement
- Import Relion refinements to EMAN2.1, also for comparative refinement
- Ability to use CTFFIND3 if desired
- New 3-D viewer with support for multiple models, slices, isosurfaces, annotation, etc.
- Support for DM4, FEI Falcon, MRCS and other file format improvements
- MPI support for clusters now shared with SPARX with an easy to use installer
- (Experimental) Direct Detector movie-mode support
- Integrated tilt-validation and RCT