Appion » TiltPicker

v2.0 -- April XX, 2010

NOTES:

TiltPicker bugs are now tracked via the AMI redmine server, visit
 http://emg.nysbc.org/projects/tiltpicker/
 to file any bugs

BUGS:

• Particle picking outside image area is now not allowed
• Made sure all functions are available from the top menu
• When saving a file, it checks the extension and adds one if it does not exist
• Shortened button row, for smaller screens
• Fixed polygon tool for rectagular images
• Fixed reversal of tilt axis angles
• Fixed improper print of DoG picker particle contrast messages on command line.
• Faster polygon removal

FEATURES:

• Added transfer picks option (Alt-X)
• Added complete features for DoG picker:
  - specify multiple size
  - show DoG maps in GUI for advanced threshold/size tweaking
• Added particle cutoff tool to remove all particles with error above cutoff
• Users can now open new images from the menu
• Added About TiltPicker screen
• Print version and citation info upon launch on command line
• Users can now reject the results from DoG picker if the picks were bad
• A dialog asks for confirmation to reset or clear parameters
• Added TiltPick2Spi.py program to split single TiltPicker file into 3 spider files
• Changed default shapes to differently sized circles, this is customizable on command line
• Added more dialogs and checking to prevent user error
• Better documentation in docs/USAGE.txt

v1.0 -- Jan 22, 2009

• Better output file writing; completely rewritten
• Can now both read and write SPIDER, Text and Pickle files
• Add all button the menus at the top
• Set minimum window size to work well on 1024x768 laptop
• Fixed problem with DoG picker on rectangular images
• Removed numextension requirement from polygon tool
• Enable guess shift functionality
• Better bad picks processing
• Ability to read SPIDER images, did not realize this was missing
• Added ApTiltAutoPicker.py, type --help to see options
• Set SPIDER file format as the default output
• Published paper:
  N.R. Voss, C.K. Yoshioka, M. Radermacher, C.S. Potter and B. Carragher
  "DoG Picker and TiltPicker: software tools to facilitate particle
  selection in single particle electron microscopy."
  DOI: http://dx.doi.org/10.1016/j.jsb.2009.01.004

v0.9.1 -- May 22, 2008

• Fixed bug when saving files of uneven number of particles

v0.9 -- May 21, 2008

• Added aligned x,y to txt format
• Removed radermacher module requirement, but still recommended
• Removed numextension module requirement
• Change mask to not alter levels so much
• Fixed crashed when only one worst pick is chosen
• Fixed guess xy-shift for large tilts
• Set max peaks in DoG picker
• Range to search for particle pair is limited by particle size in DoG picker
• ~_{Sort particles based on distance from upper-left corner; helps for finding unmatched particles}~
• Added "Auto Optimize" button, to auto run "Find Theta", "Optimize Angles", and "Mask Region"
• Set upper limit of bad particles to 10
• Fixed overlap import to database

v0.8 -- Feb 1, 2008

• Removed 'from gui.wx', should fix some importing bugs
• Reset mask with reset button
• Add DoG auto picking (experimental)
• Add clear bad picks & remove clear all picks buttons
• Show particles with largest error 4*stdev and min filter
• Added number of triangles used to find theta dialog
• Changed bad picks behavior to always highlight worst particle
• Added 'Guess Shift' for pipeline tilt picker
• Calculates percent overlap when mask is selected
• Added selection polygon removal tool
• Better particle pick importing no more orphans
• Better polygon removal no more orphans
• Tried to organize buttons better, still needs work
• Does allow you to quit with uneven # of particles
• Bad picks shows unmatched particles

v0.7 -- Dec 5, 2007

• Added FAQ based on emails I have received
• Add error values to text file output
• Auto-save feature to prevent against crashing
• Show particles with largest error: if error > mean+3*stdev then yellow cross
• Fix for xy-shifting
• Fix for import Leginon tilt data
• Fix for error values in text file

v0.6.4 -- Nov 27, 2007

• Removed requirement for apVersion from apParam

v0.6.3 -- Nov 27, 2007

• Removed requirement for sinedon and sinedon.cfg from apParam
• Changed gamma and phi angles to agree with WEB
• Fixed mask regions for non-square images
• Remove save buttons from bottom button row to make room for future buttons

v0.6.2 -- Nov 20, 2007

• Fixed reading of JPEG, PNG, TIFF images
• Clean up help function
• Created ChangeLog file

v0.6.1 -- Nov 19, 2007

• Fix for module installations
• Created INSTALL file
• Added Apache 2.0 LICENSE file
• Ctrl-A does 'apply' NOT 'save as'

v0.6 -- Nov 7, 2007

• Major feature changes
• Use optparse for command line parsing
• Fix SPIDER commenting
• Allow adjusting of icon shapes & sizes

v0.5 -- Oct 2, 2007

• First full-featured release