History of Changes and Known Bugs
If you find a bug or have a suggestion not on the list, please
let me know.
Known bugs in the current version
- New 3dit,3dit2 feature doesn't work completely. 3dit rounds are skipped. Make3diter can still be run manually.
- Error in unhp option in proc3d. If apix is not specified, it doesn't function.
v1.0 beta1 (3) - released 1/10/2000
Changes
- Documentation updated, much more complete.
- New 'tree' option produces 2-5x speedup in refinements.
- Redid parallelism, now supports workstation clusters as well as shared/distributed memory supercomputers.
- New '3dit' and '3dit2' options for better 3D models from class averages.
- New ctfit interface with database features for tracking changes in microscope/sample quality.
- Median filters in boxer to aid in locating particles.
- Fixed bug in t-test, previously used 1/4 data rather than 1/2.
- Added print button to image windows.
- Fixed masking/padding problems so edgemean is used rather than mean.
- Fixed bug requiring initial drag in astigmatism slider on some SGIs.
- New filefilt option in proc3d allows generic filtering.
- Fixed bug in r/w certain MRC files.
- Fixed display of angles in Euler view in eman. Selected point in asym tri was updated incorrectly.
- Inconsistencies in step 1 and step 3 in use of CTF correction.
- Classalign2 used to require median option when CTF correction was disabled. No longer.
- Basic write support for VTK file format.
Known deficiencies/planned improvements
- This is a BETA release. That is, it still has a few bugs, and there
are still a few holes in the documentation. If you find a bug, PLEASE report it.
If you're looking for missing documention, let me know. Requested items receive
higher priority.
- Optional Wiener filtration in CTF correction
- Structure factors from PDB for Wiener filtration and CTF parameter determination.
- Image drag/drop not finished yet.
- More lowpass filter types neeeded.
- Spider file support doesn't handel Euler angle conversion yet.
- Support for 12 bit tiffs.
v1.0 alpha3 - released 8/30/99
Changes
- A serious bug in automatic boxing has been fixed
- New option in boxer allows automatic box alignment for focal pairs
- Fixed single image display in ctfit
- Switched from QT1.44 -> QT2.0.1
- Easier directory navigation in 'eman' file browser
- Middle mouse button on plots brings up an inspector with picture saving
v1.0 alpha2 - released 8/8/99
Changes
- Many bug fixes in boxer.
- particle view is now scalable
- clicking on a particle to center it in the image view now works when
the image view is scaled
- Autoboxing thresholds work properly
- When the particle view is more than 32768 pixels high, the display works now
- All programs can now read Spider files, proc2d can write Spider files
- Support for 'stack' files seems ok, single images may or may not work
- Euler angles are not read properly from the Spider file headers yet.
- When writing Spider files, all files will be 'stacks'
- New option in refine: sep= allows particles to be put in multiple classes.
This can make a BIG improvement, and only takes about 5-10% longer to run.
- New 'Analyze' menu in eman/
- Initial version of multirefine for functional state separation.
- Multiple image view control panel (middle click) has many new options. drag/drop,
delete, save file, etc.
- cls files now have 4 digits, ie. cls012 -> cls0012
- misc bugfixes
v1.0 alpha1 - released 6/20/99
- boxer crashes if you run it without specifying an image file to box.
- Documentation is in a sorry state. Some links are missing.
- Can only read single image Spider files. Stacks are broken.
- The tutorial doesn't use the user parameters as much as it should.
- 'D' symmetry support isn't perfect yet.
- Bug with reading 3D models in ctfit. Power spect. looks wrong.
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