pwem.objects.data_flexhub module

class pwem.objects.data_flexhub.AtomStructFlex(progName='', **kwargs)[source]

Bases: AtomStruct

AtomStruct with flexibility information stored

copyInfo(other)[source]

getFlexInfo()[source]

getSamplingRate()[source]

getZFlex()[source]

getZRed()[source]

setAlignment(sr)[source]

setFlexInfo(flexInfo)[source]

setLocation(*args)[source]

Set the image location, see getLocation. Params:

First argument can be:

a tuple with (index, filename)

a index, this implies a second argument with filename

a filename, this implies index=NO_INDEX

setSamplingRate(sr)[source]

setZFlex(zFlex)[source]

setZRed(zRed)[source]

class pwem.objects.data_flexhub.ClassFlex(progName='', **kwargs)[source]

Bases: SetOfParticlesFlex

Class3D with flexibility information stored

REP_TYPE: alias of VolumeFlex

clone()[source]: Override the clone defined in Object to avoid copying _mapperPath property

close()[source]

copyInfo(other)[source]: Copy basic information (id and other properties) but not _mapperPath or _size from other set of micrographs to current one.

class pwem.objects.data_flexhub.ClassStructFlex(progName='', **kwargs)[source]

Bases: SetOfParticlesFlex

Class3D with flexibility information stored for structures

REP_TYPE: alias of AtomStructFlex

clone()[source]: Override the clone defined in Object to avoid copying _mapperPath property

close()[source]

copyInfo(other)[source]: Copy basic information (id and other properties) but not _mapperPath or _size from other set of micrographs to current one.

class pwem.objects.data_flexhub.FlexInfo(progName='', **kwargs)[source]

Bases: EMObject

Object storing any information needed by other protocols/plugins to work properly such us neural network paths, basis degrees…

copyInfo(other)[source]

getAttr(attrName)[source]

getProgName()[source]

setAttr(attrName, value)[source]

setProgName(progName)[source]

class pwem.objects.data_flexhub.ParticleFlex(progName='', **kwargs)[source]

Bases: Particle

Particle with flexibility information stored

Params:

Parameters: location – Could be a valid location: (index, filename)

or filename

copyInfo(other)[source]: Copy basic information

getFlexInfo()[source]

getZFlex()[source]

getZRed()[source]

setFlexInfo(flexInfo)[source]

setZFlex(zFlex)[source]

setZRed(zRed)[source]

class pwem.objects.data_flexhub.SetOfAtomStructFlex(progName='', **kwargs)[source]

Bases: SetOfAtomStructs

Set containing AtomStructFlex items.

EXPOSE_ITEMS = True

ITEM_TYPE: alias of AtomStructFlex

copyInfo(other)[source]: Define a dummy copyInfo function to be used for some generic operations on sets.

getFlexInfo()[source]

getSamplingRate()[source]

setAlignment(sr)[source]

setFlexInfo(flexInfo)[source]

setSamplingRate(sr)[source]

class pwem.objects.data_flexhub.SetOfClassesFlex(**kwargs)[source]

Bases: SetOfClasses

SetOfClasses3D with flexibility information stored

ITEM_TYPE: alias of ClassFlex

REP_SET_TYPE: alias of SetOfVolumesFlex

REP_TYPE: alias of VolumeFlex

class pwem.objects.data_flexhub.SetOfClassesStructFlex(**kwargs)[source]

Bases: SetOfClasses

SetOfClasses3D with flexibility information stored for structures

ITEM_TYPE: alias of ClassStructFlex

REP_SET_TYPE: alias of SetOfAtomStructFlex

REP_TYPE: alias of AtomStructFlex

class pwem.objects.data_flexhub.SetOfParticlesFlex(progName='', **kwargs)[source]

Bases: SetOfParticles

SetOfParticles with flexibility information stored

ITEM_TYPE: alias of ParticleFlex

copyInfo(other)[source]: Copy basic information (voltage, spherical aberration and sampling rate) from other set of micrographs to current one.

getFlexInfo()[source]

setFlexInfo(flexInfo)[source]

class pwem.objects.data_flexhub.SetOfVolumesFlex(progName='', **kwargs)[source]

Bases: SetOfImages

Represents a set of Volumes with flexibility information stored

EXPOSE_ITEMS = True

ITEM_TYPE: alias of VolumeFlex

REP_TYPE: alias of VolumeFlex

getFlexInfo()[source]

setFlexInfo(flexInfo)[source]

class pwem.objects.data_flexhub.VolumeFlex(progName='', **kwargs)[source]

Bases: Volume

Volume with flexibility information stored

Params:

Parameters: location – Could be a valid location: (index, filename)

or filename

copyInfo(other)[source]: Copy basic information

getFlexInfo()[source]

getZFlex()[source]

getZRed()[source]

setFlexInfo(flexInfo)[source]

setZFlex(zFlex)[source]

setZRed(zRed)[source]