Scipion-em

Latest version: v3.9.3

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3.7.0

Users:
- Allowing drag and drop a coordinate when picking
- Allowing to create subsets from the selection in the metadataviewer plotter
- Fixing an error creating subset through new metadataviewer
- NEW PROTOCOL - Crossed subset protocol: Creates a subset of the main set based on a matching field in another set.
- ChimeraX resolution viewer compatible with WSL.
- Fix: Wizard for choosing a Mask radius returns integer.
- Describes better and register variables for the new GUI to edit variables
- NEW PROTOCOL - data summary: Aggregates (COUNT, MAX, MIN, AVG) any set data based on its fields
- Importing coordinates from cryoSPARC
- Fix: The coordinate viewer shows the complete list of micrographs when a subset has been generated and there are only coordinates for some micrographs in this subset
- Allows to run the whole workflow until 3D processing with trigger points
- Allowing the use of a pattern for the import of the gain file.

Developers:
- Plugin._defineVar and _defineEmVar offers description(str) and varType(VarTypes) as optional arguments to better describe the variable devel
- Modify the finishing condition of the parent protocol "extract particles". Now, it checks if the input coords are closed and if all mics and CTFs have been processed.

3.6.0

Users:
- Adapted to Sprites
- Add a new 2D coordinate viewer
- 2 level sets (like tilt series) copy enable flag in subitems when subsetting.

Developers:
- Add a new parameter in the classifyItems method(raiseOnNextFailure). This parameter is a boolean flag indicating
whether to raise an exception if there is a failure while attempting to retrieve the next element from itemDataIterator.

3.5.1

3.5.0

Users:
- add wait protocol. This protocol wait N seconds and then ends.
It is helpful to schedule other protocols using the option "wait for"
- Fix: .em files are handled by xmipp (dimensions now are correct)
- Add symmetry option to export_DB protocol. This will produce the list
of symmetry matrices that PDBe asks for when deposition a new atomic structure
Developers:
- Add method setWrongDefocus to CTFModel (code centralization)
- Add FlexHub model (objects and base methods)

3.4.0

Users:
- Fix: CTFTomoSeries manual subset should work
- Windows' ChimeraX properly called from WSL installations
Developers:
- add attribute isSubParticles to SetOfParticles
- modify __str__ to print SubParticles when appropriate
- remove setOf in SetOfImages.__str__
- EMSet.copyItems and createCopy accepts "itemSelectedCallback" falling back to isEnabled.
- getVersionFromPath improved: works with cuda-11.4.safe (uses regex looking up for numbers)

3.3.1

- Improving performance of the metadataviewer.
- Metadataviewer integration with Chimera and ImageJ - Subsets: Tolerates missing properties in sqlite but present in run.db (CTFTomoseries without TS pointer)

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