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CHANGELOG.md

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v1.0.1 (2016-06-30)

  • Several protocol fixes:
    • Fixed bug when creating the output for Frealign (in some cases some information from input particles was not properly propagated)
    • Fixed some bugs in movie alignment protocols (summovie and unblur) and tests added
    • Some minor bugs fixed in Relion protocols
    • Bugs fixed in Resmap protocol when using two half volumes
  • Fixed several bugs in Spider protocols:
    • converting input particles with alignment
    • wrong regular expression for replacing some variables in script template
    • parsing of the resulting dendrogram
    • some additional validations and removed unused code
  • Bugfixes and inprovements in Xmipp protocols:
    • Protocols screen-classes merged into one: compare-reprojections
    • Complete refactoring of operate-particles and operate-volumes protocols (previously called 2D and 3D calculator). Tests added
  • Picking and Viewer:
    • Warning if particles are picked in a temporary folder and the SetOfParticles was not created
    • Improved implementation of assign-tiltpairs protocol in Xmipp and some refactoring of picking methods
    • Fixed bug that caused GUI to freeze sometimes
    • Some bugs fixed when displaying and exporting particles
    • Sorting arrows displayed after sorting by a column. Hourglass displayed while sorting.
    • Some bug fixed when creating subset from classes
  • Other fixes or improvements:
    • ImageHandler's methods convert and writeStack now accepts alignment parameters
    • Fixed bug when displaying Movies summary (sqlite files were not closed)
    • Fixed bug when spawning Eman process to write particles
    • Added REMOTE_MESA_LIB environment var for using OpenGL in remote desktops
    • Created a LegacyProtocol class to read deprecated protocols
    • Cleanup in some tests and added new ones for core classes or functions

v1.0.0 (2016-02-20) Augusto

  • Allows to combine several EM software packages (~ 100 protocols):
    • All protocols from Xmipp
    • Most of protocols from Relion
    • MDA protocols from Spider
    • Some protocols from Eman2/Sparx
    • From Grigorieff lab: CTFFIND, FREALIGN, unblur and summovie.
    • A few tools from Bsoft
    • ResMap, gEMpicker, dogpicker, motioncorr
  • Full tracking and reproducibility:
    • Display runs as a list or a tree.
    • Inspect the parameters of a previous run
    • Repeat one or several runs
    • Export/Import a workflow template
  • Data analysis:
    • Visualization and operation with Sets. (Particles, Micrographs, CTFs, etc)
    • Visualization of Volumes
    • Resolution and angular distribution plots