EMAN2.11

Release Date

2015-06-05

Summary

This is a new feature and bugfix release for EMAN2.1. It adds a number of experimental new features and corrects a number of minor, but annoying, bugs in the 2.1 release version.

Description

PLEASE READ THE INSTALLATION INSTRUCTIONS ON THE WIKI:

http://blake.bcm.edu/emanwiki/EMAN2

(scroll down to the bottom of this page for the actual downloads)

As a reminder, EMAN2.1 has changed substantially from EMAN2.0:

• No more annoying BDB storage, simple image files with human readable metadata files
• Gold-standard refinements
• Interconversion with Relion, Frealign, CTFFIND and other software
• All new file browser with integrated 3D multimodel multimode display, image viewer and plotting
• Support for 25+ different file formats, including all of the major detector formats
• Subtomogram averaging, tilt validation, random conical tilt, and other new methods

Platform notes:

• Linux - if you get an error about Qt version conflicts, try removing EMAN2/extlib/lib/libQt*
• Mac - Note that you MUST have 10.7 (Lion) or newer, and your environment must be configured to use the system-provided python interpreter
• Windows - The 32 bit version will work fine on 64 bit Windows, with some memory limitations for very large files.

Version changes

New Features:

• e2refinevariance working again
• Work with downsampled particles in the same project as the originals to combmine speed with final high resolution refinement
• e2proc3d on stacks of volumes now uses much less RAM and is much faster
• New subtomogram alignment options with improved speed particularly for large particles
• Experimental per-particle CTF correction for subtomogram averaging
• MRC particle stacks can now be read by any program directly as a stack of particles (must use .mrcs extension)
• Minor resolution improvement in single particle reconstruction do to improvement in reconstruction algorithm
• e2proc2d and e2proc3d options to select exact data output --mode for all formats (float, int, byte, etc.)
• Updated support for FEI SER format
• Support for EMX data exchange format
• Support for CTFFIND parameter import
• Initial support for display of atoms in 3-D
• New e2proclst program for creating and manipulating .lst files
• Improved whole image CTF fitting in e2evalimage

Significant Bugfixes:

• Fixed a bug that occasionally caused some very high resolution noise to appear in 3-D reconstructions
• Fixed problem causing strange edge effects to sometimes appear in unmasked reconstructions
• Fixed a bug causing strange edge effects and poor centering in some 2-D class-averages.
• Fixed a problem with marking bad particles manually.
• Some fixes for CTF correction with astigmatism
• New eman2.py program to reduce new user confusion