Release Notes

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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

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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

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Legacy release notes