CardiacMotionPlugin Class Reference

Inheritance diagram for CardiacMotionPlugin:

Collaboration diagram for CardiacMotionPlugin:

Public Member Functions
def	__init__ (self)
def	init (self, plugid, win, mgr)
def	createProject (self, name, parentdir)
def	getCWD (self)
def	getLogFile (self, filename)
def	getLocalFile (self, name)
def	getUniqueObjName (self, name)
def	addObject (self, obj)
def	getServerAddrPort (self)
def	setServerAddrPort (self, addr, port)
def	loadNiftiFiles (self, filenames, task=None)
def	loadMetaFiles (self, filenames)
def	loadCHeartMesh (self, xfile, tfile, elemtype)
def	loadVTKFile (self, filename, trans=transform())
def	loadMagPhaseParRec (self, filename)
def	calculateMeshRegionThickness (self, objname, regionfieldname, percentThickness)
def	calculateMeshRegionAvgDisp (self, objname, regionfieldname)
def	calculateMeshRegionVolume (self, objname, regionfieldname, heartrate, regionrange=list(range(1, 17)))
def	calculateImageMaskVolume (self, objname, calculateInner, task=None)
def	calculateMeshStrainField (self, objname, ahafieldname, spacing, trackname)
def	calculateImageStrainField (self, objname, griddims, spacing, trackname)
def	calculateTorsion (self, objname, fieldname)
def	calculateSqueeze (self, objname, regionfieldname=None, regionvals=None, task=None)
def	calculatePhaseKineticEnergy (self, maskname, phaseXname, phaseYname, phaseZname, maskval=2)
Public Member Functions inherited from ImageScenePlugin
def	__init__ (self, name)
def	getIcon (self, obj)
def	getObjFiles (self, obj)
def	getReprTypes (self, obj)
def	getReprParams (self, obj, reprtype)
def	createObjPropBox (self, obj)
def	setCTImageRange (self, obj, isCT)
def	getMenu (self, obj)
def	objectMenuItem (self, obj, item)
def	updateObjPropBox (self, obj, prop)
def	updateReprPropBox (self, rep, prop)
def	createReprPropBox (self, rep)
def	applyMaterial (self, rep, mat, kwargs)
def	createRepr (self, obj, reprtype, kwargs)
def	createSceneObject (self, name, images, source=None, isTimeDependent=None)
def	clone (self, obj, name)
def	cropXY (self, obj, name, minx, miny, maxx, maxy)
def	extractTimesteps (self, obj, name, indices=None, timesteps=None, setTimestep=False)
def	createImageStackObject (self, name, width, height, slices, timesteps=1, pos=vec3(), rot=rotator(), spacing=vec3(1))
def	createRespacedObject (self, obj, name, spacing=vec3(1))
def	createIntersectObject (self, name, objs, timesteps=1, spacing=vec3(1))
def	createTestImage (self, w, h, d, timesteps=1, pos=vec3(), rot=rotator(), spacing=vec3(1))
def	createSequence (self, name, objs, timesteps=None)
def	createObjectFromArray (self, name, array, interval=1.0, toffset=0, pos=vec3(), rot=rotator(), spacing=vec3(1), task=None)
def	getImageObjectArray (self, obj, datatype=float)
Public Member Functions inherited from ScenePlugin
def	__init__ (self, name)
def	init (self, plugid, win, mgr)
def	cleanup (self)
def	findObject (self, name, assertFound=True)
def	removeFilesTask (self, fileglob)
def	getScriptCode (self, obj, kwargs)
def	getIcon (self, obj)
def	getMenu (self, obj)
def	getHelp (self)
def	acceptFile (self, filename)
def	loadObject (self, filename, name=None, kwargs)
def	saveObject (self, obj, path, overwrite=False, setFilenames=False, kwargs)
def	checkFileOverwrite (self, obj, dirpath, name=None)
def	getObjFiles (self, obj)
def	renameObjFiles (self, obj, oldname, overwrite=False)
def	copyObjFiles (self, obj, sdir, overwrite=False)
def	removeObject (self, obj)
def	createRepr (self, obj, reprtype, kwargs)
def	getReprParams (self, obj, reprtype)
def	getReprParamHelp (self, obj, reprtype)
def	getReprTypes (self, obj)
def	createHandles (self, rep, kwargs)
def	updateObjPropBox (self, obj, prop)
def	updateReprPropBox (self, rep, prop)
def	createObjPropBox (self, obj)
def	createReprPropBox (self, rep)
def	addSceneObject (self, obj)
def	addSceneObjectRepr (self, rep)
def	applyMaterial (self, rep, mat, kwargs)
def	objectMenuItem (self, obj, item)
Public Member Functions inherited from IRTKPluginMixin
def	init (self, plugid, win, mgr)
def	getCWD (self)
def	getNiftiFile (self, name)
def	getLogFile (self, name)
def	getLocalFile (self, name)
def	getUniqueObjName (self, name)
def	getTrackingDirs (self, root=None)
def	addObject (self, obj)
def	loadNiftiFiles (self, filenames, task)
def	getUniqueShortName (self, comps, kwargs)
def	getUniqueLocalFile (self, name)
def	getServerAddrPort (self)
def	setServerAddrPort (self, addr, port)
def	saveToNifti (self, objs, setObjArgs=False)
def	correctNiftiParams (self, sourceobj, destfile, makeProspective=False)
def	applyImageDof (self, inname, outname, doffile, cwd, correctNifti=True)
def	load3DTagSeries (self, tagobj, makeProspective, loadPlanes=False, makeDetag=True, spacing=vec3(1), tryFix=True)
def	createSegObject (self, srcname, segtype)
def	createTimeRegStack (self, template, stack, trname=None, loadObject=True)
def	spatialCorrect (self, target, before, after, prefix, extras=[], xyOnly=True, trans=True, logfile=None, cwd=None)
def	alignShortStack (self, saxname, segname, templatename=None)
def	alignIntersectImages (self, volume, intersects, tempDir=None, numIters=1, dilation=5, moveScale=0.1, task=None)
def	rigidRegisterStack (self, subjectname, rtargetname, htargetname, finalname, doffile, paramfile, correctNifti)
def	rigidRegisterStackList (self, subjectname, intermedname, targetnames)
def	readPolyNodes (self, filename)
def	writePolyNodes (self, filename, nodes)
def	createImageGrid (self, obj, w, h, d)
def	createIsotropicObject (self, obj, cropEmpty, spacing=1.0, task=None)
def	setObjectTimestep (self, objname, start, step, task=None)
def	invertTimesteps (self, sourceobj)
def	offsetTimesteps (self, sourceobj, suffix, value, makeProspective=False)
def	resampleObject (self, srcname, templatename, isIsotropic)
def	extractTimestepsToObject (self, srcname, indices=None, timesteps=None)
def	reorderMulticycleImage (self, srcname, starttime, timestep, task)
def	cropMotionObject (self, srcname, threshold, filtersize, task)
def	emptyCropObject (self, imgobj, loadObj=True)
def	refImageCrop (self, imgname, refname, mx, my)
def	extendImageStack (self, stack, mx=0, my=0, mz=0, value=0)
def	extendImageObject (self, obj, mx=0, my=0, mz=0, value=0, task=None)
def	registerImage2D (self, src, tgt, tempDir=None, spacing=10, model='BSplineFFD')
def	interpolateImages2D (self, im0, im1, numImgs, tempDir=None)
def	interpolateImageObject (self, obj, numAddedSlices, tempDir=None, task=None)
def	applyMotionTrack (self, obj_or_name, trackname_or_dir, addObject=True)
def	applyMotionTrackPoints (self, dirname, pts)
def	isServerAlive (self, serveraddr=None, serverport=None)
def	sendServerMsg (self, msg, args=(), buffsize=4096, timeout=10.0, serveraddr=None, serverport=None)
def	startMotionTrackServer (self, addr=None, port=None)
def	startMotionTrackJob (self, trackname, maskname, dirname, adaptive, chosenparam)
def	startGPUNRegMotionTrack (self, imgname, maskname, trackname, paramfile)
def	startRegisterMotionTrack (self, imgname, maskname, trackname, paramfile, model=None, onefile=False, task=None)
def	checkMotionTrackJobs (self, jids)

Public Attributes
	project
	ParRec
Public Attributes inherited from ScenePlugin
	plugid
	win
	mgr
	name
Public Attributes inherited from IRTKPluginMixin
	Nifti
	Dicom
	Meta
	Slice
	VTK
	CHeart
	Plot
	Segment
	serverdir
	irtkdir
	fixshort
	patient1e4
	patient1e6
	nreg_default
	gpu_nreg_default
	exesuffix
	irtkpath
	spatialcorrect
	rreg
	motiontrack
	gpu_nreg
	mirtkdir
	ffd_motion
	register
	info
	transimage
	transpts
	editimage
	decimatesurf
	convertdof
	composedofs

Private Member Functions
def	_newProjDialog (self)

Constructor & Destructor Documentation

__init__()

def __init__

(

self

)

Member Function Documentation

_newProjDialog()

def _newProjDialog (   self )

private

addObject()

def addObject	(		self,
			obj
	)

Here is the call graph for this function:

Here is the caller graph for this function:

calculateImageMaskVolume()

def calculateImageMaskVolume	(		self,
			objname,
			calculateInner,
			task = None
	)

Here is the call graph for this function:

calculateImageStrainField()

def calculateImageStrainField	(		self,
			objname,
			griddims,
			spacing,
			trackname
	)

calculateMeshRegionAvgDisp()

def calculateMeshRegionAvgDisp	(		self,
			objname,
			regionfieldname
	)

Here is the call graph for this function:

calculateMeshRegionThickness()

def calculateMeshRegionThickness	(		self,
			objname,
			regionfieldname,
			percentThickness
	)

Here is the call graph for this function:

calculateMeshRegionVolume()

def calculateMeshRegionVolume	(		self,
			objname,
			regionfieldname,
			heartrate,
			regionrange = list(range(1,17))
	)

Here is the call graph for this function:

calculateMeshStrainField()

def calculateMeshStrainField	(		self,
			objname,
			ahafieldname,
			spacing,
			trackname
	)

Here is the call graph for this function:

calculatePhaseKineticEnergy()

def calculatePhaseKineticEnergy	(		self,
			maskname,
			phaseXname,
			phaseYname,
			phaseZname,
			maskval = 2
	)

calculateSqueeze()

def calculateSqueeze	(		self,
			objname,
			regionfieldname = None,
			regionvals = None,
			task = None
	)

calculateTorsion()

def calculateTorsion	(		self,
			objname,
			fieldname
	)

createProject()

def createProject	(		self,
			name,
			parentdir
	)

getCWD()

def getCWD

(

self

)

Here is the caller graph for this function:

getLocalFile()

def getLocalFile	(		self,
			name
	)

Here is the caller graph for this function:

getLogFile()

def getLogFile	(		self,
			filename
	)

Here is the caller graph for this function:

getServerAddrPort()

def getServerAddrPort

(

self

)

Here is the caller graph for this function:

getUniqueObjName()

def getUniqueObjName	(		self,
			name
	)

Here is the caller graph for this function:

init()

def init	(		self,
			plugid,
			win,
			mgr
	)

loadCHeartMesh()

def loadCHeartMesh	(		self,
			xfile,
			tfile,
			elemtype
	)

Here is the call graph for this function:

loadMagPhaseParRec()

def loadMagPhaseParRec	(		self,
			filename
	)

Here is the call graph for this function:

loadMetaFiles()

def loadMetaFiles	(		self,
			filenames
	)

Same thing as loadNiftiFiles() just for MetaImage format.

Here is the call graph for this function:

loadNiftiFiles()

def loadNiftiFiles	(		self,
			filenames,
			task = None
	)

Here is the caller graph for this function:

loadVTKFile()

def loadVTKFile	(		self,
			filename,
			trans = transform()
	)

Here is the call graph for this function:

setServerAddrPort()

def setServerAddrPort	(		self,
			addr,
			port
	)

Here is the call graph for this function:

Here is the caller graph for this function:

Member Data Documentation

ParRec

ParRec

project

project

---

The documentation for this class was generated from the following file:

• eidolon/plugins/CardiacMotionPlugin.py