Scipion-em

users:
- New protocol: Mathematical operator.
- Import sequence protocol can now download sequences from GeneBank. In the past only
UniProt was accessible. In general Unitprot does not have information about
proteins not well know AKA "uncharacterized proteins"
- "import particles" protocol accepts cryoSCPARC particles files
- Import coordinates fixed for complex streaming cases.
- Extract particles does not need SetOfMicrographs is "same as coordinates" is used.
- AtomStruct attributes viewer now can plot attributes over the structure sequence

developers:
- Methods to guess the cuda version from a variable that point to a folder in Plugin class:
(Plugin.guessCudaVersion(varname)). Follows links.
- Allow indirect pointers in SetOfClasses.
- Warning added in SetOfCoordinates.setMicrographs when not using an indirect pointer.
- Warning added in SetOfClasses.setImages when not using an indirect pointer.
- data.py test_workflow_mixed.py and uses logger instead of print

users:
- fixes numpy dependency conflict PyWavelets for python3.6-> scipy <= 1.8.3

users:
- fixes numpy dependency conflict PyWavelets -> scipy 1.9 --> numpy > pyworkflow numpy.

users:
- "assign ctf" protocol now accepts SetOfParticles too.
- "subset" protocol accepts now a range of ids.
- FIX:import atomic structures now works also when files are named the same but in different folders.
developers:
- New model class: SetOfPrincipalComponents(SetOfNormalModes)
- New base wizard: VariableWizard - Wizard base where input and output paramNames can be modified and added, so
one wizard can be used in several protocols with parameters of different names.
- SelectChainWizard replaces GetStructureChainsWizard and uses VariableWizard
- SelectResidueWizard added: To select a residue
- SelectAttributeWizard added: Wizard to select attributes stored in a scipion object or set

users:
- Updating protocol box size related parameters. Now for sanity reasons, it outputs only even numbers.

users:
- Fixing an error calculating the FSC resolution value.
- FSC plots legend shows "resolution" ;-)
- Align movies protocols: possible outputs for even odd mics defined
- Import volume: fix downloading some old EMD id not numeric
- Hdf files can be open from the file browser
- Adding the protocol "box size related parameters" to estimate the different parameters needed for various pickers.

developers:
- New method at pwem/convert/headers.setMRCSamplingRate: sets the sampling rate of an mrc file. Image Object has it: volume.setMRCSamplingRate(3.5) should work.
- protcols.conf minimized only containig its own protocols
- Variable wizard with customizable target, input and output parameters