Python
0.7
Getting started
Introduction
Installation
Getting started
Conventions used in spam
How to Contribute
Scripts
Scripts in spam
Tutorials
Gallery of Tutorials
Examples
Gallery of Examples
Some notes
Stitching overlapping volumes
Using VTK files in Paraview
Reference documentation
Indices and tables
Repository
Source Code
Python
Index
Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
L
|
M
|
O
|
P
|
Q
|
R
|
S
|
T
|
U
|
V
|
W
A
applyMeshTransformation() (in module spam.DIC.deform)
applyPhi() (in module spam.DIC.deform)
applyPhiField() (in module spam.DIC.deform)
applyPhiPython() (in module spam.DIC.deform)
applyRegistrationToPoints() (in module spam.DIC.kinematics)
average() (in module spam.filters.movingFilters)
B
ballVolume() (in module spam.excursions.elkc)
BCFieldFromDVCField() (in module spam.mesh.unstructured)
BCFromDVCParser() (in module spam.helpers.optionsParser)
betaCovariance() (in module spam.measurements.covariance)
binaryDilation() (in module spam.filters.morphologicalOperations)
binaryErosion() (in module spam.filters.morphologicalOperations)
binaryGeodesicReconstruction() (in module spam.filters.morphologicalOperations)
binaryMorphologicalGradient() (in module spam.filters.morphologicalOperations)
binning() (in module spam.DIC.deform)
boundingBoxes() (in module spam.label.label)
C
centresOfMass() (in module spam.label.label)
changeAxis() (spam.visual.visualClass.ereg method)
changeBins() (spam.visual.visualClass.JHist method)
changeCB() (spam.visual.visualClass.ereg method)
changeColorF() (spam.visual.visualClass.ereg method)
changeComp() (spam.visual.visualClass.ereg method)
changeDistance() (spam.visual.visualClass.JHist method)
changeDistanceType() (spam.visual.visualClass.PhaseDiagram method)
changeImage() (spam.visual.visualClass.QtCropWidget method)
changeNBP() (spam.visual.visualClass.JHist method)
changeSigma() (spam.visual.visualClass.PhaseDiagram method)
checkerBoard() (in module spam.helpers.imageManipulation)
checkSlave() (spam.visual.visualClass.ereg method)
clearImage() (spam.visual.QtImageViewer.QtImageViewer method)
computeAngle() (in module spam.plotting.orientationPlotter)
computeConvexVolume() (in module spam.label.label)
computeHistogram() (spam.visual.visualClass.JHist method)
computePhaseDiagram() (spam.visual.visualClass.PhaseDiagram method)
computePhi() (in module spam.deformation.deformationFunction)
computeRigidPhi() (in module spam.deformation.deformationFunction)
contactingLabels() (in module spam.label.contacts)
contactOrientations() (in module spam.label.contacts)
contactOrientationsAssembly() (in module spam.label.contacts)
contactPoints() (in module spam.label.contacts)
convertLabelToFloat() (in module spam.label.label)
convertUnsignedIntegers() (in module spam.helpers.imageManipulation)
convexFillHoles() (in module spam.label.label)
convexVolume() (in module spam.label.label)
covarianceAlongAxis() (in module spam.measurements.covariance)
covarianceSubPixel() (in module spam.measurements.covariance)
createCuboid() (in module spam.mesh.unstructured)
createCylinder() (in module spam.mesh.unstructured)
createCylindricalMask() (in module spam.mesh.structured)
createLexicoCoordinates() (in module spam.mesh.structured)
crop() (in module spam.helpers.imageManipulation)
D
ddicParser() (in module spam.helpers.optionsParser)
DEBUG (spam.helpers.test.TestSpam attribute)
decomposeF() (in module spam.deformation.deformationFunction)
decomposeFfield() (in module spam.deformation.deformationField)
decomposePhi() (in module spam.deformation.deformationFunction)
decomposePhiField() (in module spam.deformation.deformationField)
deformImageParser() (in module spam.helpers.optionsParser)
detectOverSegmentation() (in module spam.label.label)
detectUnderSegmentation() (in module spam.label.label)
directionalErosion() (in module spam.filters.morphologicalOperations)
discreteStrainsCalcParser() (in module spam.helpers.optionsParser)
displaySettings() (in module spam.helpers.optionsParser)
distanceField() (in module spam.filters)
(in module spam.filters.distanceField)
distanceMax() (spam.visual.visualClass.PhaseDiagram method)
distributionDensity() (in module spam.plotting.orientationPlotter)
E
elementaryStiffnessMatrix() (in module spam.mesh.tetrahedra)
ellipseAxes() (in module spam.label.label)
equalize() (spam.visual.visualClass.ereg method)
equivalentRadii() (in module spam.label.label)
ereg (class in spam.visual.visualClass)
eregDiscreteParser() (in module spam.helpers.optionsParser)
eregParser() (in module spam.helpers.optionsParser)
erodeLabels() (in module spam.label.label)
Error
estimateDisplacementFromQuadraticFit() (in module spam.DIC.kinematics)
estimateLocalQuadraticCoherency() (in module spam.DIC.kinematics)
eulerCharacteristic() (in module spam.measurements.globalDescriptors)
expectedMesures() (in module spam.excursions.elkc)
F
fabricTensor() (in module spam.orientations.analyse)
fetchTwoGrains() (in module spam.label.contacts)
FfieldBagi() (in module spam.deformation.deformationField)
FfieldRegularGeers() (in module spam.deformation.deformationField)
FfieldRegularQ8() (in module spam.deformation.deformationField)
fieldGaussToUniform() (in module spam.excursions.randomFields)
fieldUniformToGauss() (in module spam.excursions.randomFields)
filterIsolatedCells() (in module spam.label.label)
filterPhiField() (in module spam.helpers.optionsParser)
FinalStep (class in spam.visual.visualClass)
findFullCoverage() (spam.visual.visualClass.PhaseDiagram method)
findHistogramPeaks() (in module spam.helpers.histogramTools)
fitCovariance() (in module spam.measurements.covariance)
fitEllipsoid() (spam.visual.visualClass.JHist method)
fitVonMisesFisher() (in module spam.orientations.analyse)
fixOversegmentation() (in module spam.label.label)
fixUndersegmentation() (in module spam.label.label)
flag() (in module spam.excursions.elkc)
G
gaussianCovariance() (in module spam.measurements.covariance)
gaussianMinkowskiFunctionals() (in module spam.excursions.elkc)
gaussianMixtureParameters() (in module spam.DIC.multimodal)
gdicParser() (in module spam.helpers.optionsParser)
generateIcosphere() (in module spam.orientations.generate)
generateIsotropic() (in module spam.orientations.generate)
generateVonMisesFisher() (in module spam.orientations.generate)
generic() (in module spam.measurements.globalDescriptors)
getCorrelationLengthFormArea() (in module spam.excursions.elkc)
getDisplacementFromNeighbours() (in module spam.DIC.kinematics)
getImagettes() (in module spam.DIC.grid)
getImagettesLabelled() (in module spam.label.label)
getLabel() (in module spam.label.label)
getNeighbours() (in module spam.label.label)
getThresholdFromVolume() (in module spam.excursions.elkc)
globalCorrelation() (in module spam.DIC.globalDVC)
globalStiffnessMatrix() (in module spam.mesh.tetrahedra)
gmshToSpam() (in module spam.mesh.unstructured)
greyDilation() (in module spam.filters.morphologicalOperations)
greyErosion() (in module spam.filters.morphologicalOperations)
greyMorphologicalGradient() (in module spam.filters.morphologicalOperations)
H
hasImage() (spam.visual.QtImageViewer.QtImageViewer method)
hdfReader() (in module spam.helpers.optionsParser)
hermitePolynomial() (in module spam.excursions.elkc)
hessian() (in module spam.filters.movingFilters)
histogramNorm() (in module spam.helpers.histogramTools)
I
image() (spam.visual.QtImageViewer.QtImageViewer method)
InputError
interpolatePhiField() (in module spam.DIC.kinematics)
ITKwatershedParser() (in module spam.helpers.optionsParser)
J
JHist (class in spam.visual.visualClass)
L
labelledContacts() (in module spam.label.contacts)
labelsOnEdges() (in module spam.label.label)
labelTetrahedra() (in module spam.label.label)
labelTetrahedraForScipyDelaunay() (in module spam.label.label)
ldicParser() (in module spam.helpers.optionsParser)
leftMouseButtonDoubleClicked (spam.visual.QtImageViewer.QtImageViewer attribute)
leftMouseButtonPressed (spam.visual.QtImageViewer.QtImageViewer attribute)
leftMouseButtonReleased (spam.visual.QtImageViewer.QtImageViewer attribute)
lkcCuboid() (in module spam.excursions.elkc)
load() (in module spam.datasets)
loadConcreteNe() (in module spam.datasets)
loadConcreteXr() (in module spam.datasets)
loadDEMboxsizeCentreRadius() (in module spam.datasets)
loadDEMspheresMMR() (in module spam.datasets)
loadDEMtouchingGrainsAndBranchVector() (in module spam.datasets)
loadImageFromFile() (spam.visual.QtImageViewer.QtImageViewer method)
loadPickle() (in module spam.datasets)
loadSnow() (in module spam.datasets)
loadStructuredMesh() (in module spam.datasets)
loadtiff() (in module spam.datasets)
loadUniformDEMboxsizeCentreRadius() (in module spam.datasets)
loadUnstructuredMesh() (in module spam.datasets)
localDetection() (in module spam.label.contacts)
localDetectionAssembly() (in module spam.label.contacts)
M
makeBlurryNoisySphere() (in module spam.kalisphera.kalisphera)
makeBlurryNoisySpheroid() (in module spam.kalisphera.spheroid)
makeGrid() (in module spam.DIC.grid)
makeLabelsSequential() (in module spam.label.label)
makeSphere() (in module spam.kalisphera.kalisphera)
meanOrientation() (in module spam.orientations.analyse)
mergeRegistrationAndDiscreteFields() (in module spam.DIC.kinematics)
mergeRegularGridAndDiscrete() (in module spam.DIC.kinematics)
mesh() (in module spam.helpers.optionsParser)
meshSubdomains() (in module spam.helpers.optionsParser)
modifyPhi() (spam.visual.visualClass.ereg method)
module
spam
spam.datasets
spam.deformation
spam.deformation.deformationField
spam.deformation.deformationFunction
spam.DIC
spam.DIC.deform
spam.DIC.globalDVC
spam.DIC.grid
spam.DIC.kinematics
spam.DIC.multimodal
spam.DIC.pixelSearch
spam.DIC.registration
spam.errors
spam.excursions
spam.excursions.elkc
spam.excursions.randomFields
spam.filters
spam.filters.distanceField
spam.filters.morphologicalOperations
spam.filters.movingFilters
spam.helpers
spam.helpers.histogramTools
spam.helpers.imageManipulation
spam.helpers.optionsParser
spam.helpers.test
spam.helpers.tsvio
spam.helpers.vtkio
spam.kalisphera
spam.kalisphera.kalisphera
spam.kalisphera.spheroid
spam.label
spam.label.contacts
spam.label.ITKwatershed
spam.label.label
spam.measurements
spam.measurements.covariance
spam.measurements.globalDescriptors
spam.measurements.porosityField
spam.mesh
spam.mesh.objects
spam.mesh.projection
spam.mesh.structured
spam.mesh.tetrahedra
spam.mesh.unstructured
spam.orientations
spam.orientations.analyse
spam.orientations.generate
spam.plotting
spam.plotting.greyLevelHistogram
spam.plotting.multivariateGaussians
spam.plotting.orientationPlotter
spam.plotting.particleSizeDistribution
spam.plotting.tetrahedraPlotter
spam.tests
spam.visual
spam.visual.QtImageViewer
spam.visual.visualClass
momentOfInertia() (in module spam.label.label)
morphologicalReconstruction() (in module spam.filters.morphologicalOperations)
mouseDoubleClickEvent() (spam.visual.QtImageViewer.QtImageViewer method)
mousePressEvent() (spam.visual.QtImageViewer.QtImageViewer method)
mouseReleaseEvent() (spam.visual.QtImageViewer.QtImageViewer method)
moveLabels() (in module spam.label.label)
moveLabelsParser() (in module spam.helpers.optionsParser)
multimodalRegistration() (in module spam.DIC.multimodal)
multiModalRegistrationParser() (in module spam.helpers.optionsParser)
multipleShifts() (in module spam.helpers.imageManipulation)
O
output() (spam.visual.visualClass.ereg method)
(spam.visual.visualClass.QtCropWidget method)
P
packObjectsFromList() (in module spam.mesh.objects)
packSpheres() (in module spam.mesh.objects)
parametersLogToGauss() (in module spam.excursions.randomFields)
passPhiField() (in module spam.helpers.optionsParser)
perimeter() (in module spam.measurements.globalDescriptors)
PhaseDiagram (class in spam.visual.visualClass)
phaseDiagram() (in module spam.DIC.multimodal)
pixelSearch() (in module spam.DIC)
(in module spam.DIC.pixelSearch)
(in module spam.helpers.optionsParser)
pixelSearchPropagate() (in module spam.helpers.optionsParser)
pixmap() (spam.visual.QtImageViewer.QtImageViewer method)
plotDelaunay3D() (in module spam.plotting.tetrahedraPlotter)
plotGreyLevelHistogram() (in module spam.plotting.greyLevelHistogram)
plotMultivariateGaussians() (in module spam.plotting.multivariateGaussians)
plotOrientations() (in module spam.plotting.orientationPlotter)
plotParticleSizeDistribution() (in module spam.plotting.particleSizeDistribution)
plotSphericalHistogram() (in module spam.plotting.orientationPlotter)
plusOrMinusDist() (spam.visual.visualClass.JHist method)
plusOrMinusNBP() (spam.visual.visualClass.JHist method)
porosityField() (in module spam.measurements.porosityField)
projectField() (in module spam.mesh.projection)
projectObjects() (in module spam.mesh.projection)
projectOrientation() (in module spam.orientations.analyse)
projectTetFieldToGrains() (in module spam.mesh.unstructured)
Q
QtCropWidget (class in spam.visual.visualClass)
QtImageViewer (class in spam.visual.QtImageViewer)
R
rankPoints() (in module spam.mesh.unstructured)
readCorrelationTSV() (in module spam.helpers.tsvio)
readStrainTSV() (in module spam.helpers.tsvio)
readStructuredVTK() (in module spam.helpers.vtkio)
readUnstructuredVTK() (in module spam.helpers.vtkio)
rebuildImage() (in module spam.helpers.imageManipulation)
reFit() (spam.visual.visualClass.JHist method)
register() (in module spam.DIC.registration)
(in module spam.helpers.optionsParser)
registerMultiscale() (in module spam.DIC.registration)
regularStrainParser() (in module spam.helpers.optionsParser)
removeLabels() (in module spam.label.label)
rescale() (in module spam.helpers.imageManipulation)
rescaleToInteger() (in module spam.helpers.imageManipulation)
resetIdentity() (spam.visual.visualClass.ereg method)
resetTSV() (spam.visual.visualClass.ereg method)
resizeEvent() (spam.visual.QtImageViewer.QtImageViewer method)
rightMouseButtonDoubleClicked (spam.visual.QtImageViewer.QtImageViewer attribute)
rightMouseButtonPressed (spam.visual.QtImageViewer.QtImageViewer attribute)
rightMouseButtonReleased (spam.visual.QtImageViewer.QtImageViewer attribute)
S
saveTSV() (spam.visual.visualClass.ereg method)
saveTSVCrop() (spam.visual.visualClass.QtCropWidget method)
secondSpectralMoment() (in module spam.excursions.elkc)
setImage() (spam.visual.QtImageViewer.QtImageViewer method)
setUp() (spam.helpers.test.TestSpam method)
setVoronoi() (in module spam.label.label)
shapeFunctions() (in module spam.mesh.tetrahedra)
showHistogram() (spam.visual.visualClass.JHist method)
showImages() (spam.visual.visualClass.ereg method)
(spam.visual.visualClass.QtCropWidget method)
showPhaseDiagram() (spam.visual.visualClass.PhaseDiagram method)
simulateRandomField() (in module spam.excursions.randomFields)
singleShift() (in module spam.helpers.imageManipulation)
slicePadded() (in module spam.helpers.imageManipulation)
slideIm1() (spam.visual.visualClass.ereg method)
slideIm1Max() (spam.visual.visualClass.JHist method)
slideIm1Min() (spam.visual.visualClass.JHist method)
slideIm2() (spam.visual.visualClass.ereg method)
slideIm2Max() (spam.visual.visualClass.JHist method)
slideIm2Min() (spam.visual.visualClass.JHist method)
slideIndexedValChange() (spam.visual.visualClass.JHist method)
slideXMax() (spam.visual.visualClass.QtCropWidget method)
slideXMin() (spam.visual.visualClass.QtCropWidget method)
slideXView() (spam.visual.visualClass.QtCropWidget method)
slideYMax() (spam.visual.visualClass.QtCropWidget method)
slideYMin() (spam.visual.visualClass.QtCropWidget method)
slideYView() (spam.visual.visualClass.QtCropWidget method)
slideZMax() (spam.visual.visualClass.QtCropWidget method)
slideZMin() (spam.visual.visualClass.QtCropWidget method)
slideZView() (spam.visual.visualClass.QtCropWidget method)
spam
module
spam.datasets
module
spam.deformation
module
spam.deformation.deformationField
module
spam.deformation.deformationFunction
module
spam.DIC
module
spam.DIC.deform
module
spam.DIC.globalDVC
module
spam.DIC.grid
module
spam.DIC.kinematics
module
spam.DIC.multimodal
module
spam.DIC.pixelSearch
module
spam.DIC.registration
module
spam.errors
module
spam.excursions
module
spam.excursions.elkc
module
spam.excursions.randomFields
module
spam.filters
module
spam.filters.distanceField
module
spam.filters.morphologicalOperations
module
spam.filters.movingFilters
module
spam.helpers
module
spam.helpers.histogramTools
module
spam.helpers.imageManipulation
module
spam.helpers.optionsParser
module
spam.helpers.test
module
spam.helpers.tsvio
module
spam.helpers.vtkio
module
spam.kalisphera
module
spam.kalisphera.kalisphera
module
spam.kalisphera.spheroid
module
spam.label
module
spam.label.contacts
module
spam.label.ITKwatershed
module
spam.label.label
module
spam.measurements
module
spam.measurements.covariance
module
spam.measurements.globalDescriptors
module
spam.measurements.porosityField
module
spam.mesh
module
spam.mesh.objects
module
spam.mesh.projection
module
spam.mesh.structured
module
spam.mesh.tetrahedra
module
spam.mesh.unstructured
module
spam.orientations
module
spam.orientations.analyse
module
spam.orientations.generate
module
spam.plotting
module
spam.plotting.greyLevelHistogram
module
spam.plotting.multivariateGaussians
module
spam.plotting.orientationPlotter
module
spam.plotting.particleSizeDistribution
module
spam.plotting.tetrahedraPlotter
module
spam.tests
module
spam.visual
module
spam.visual.QtImageViewer
module
spam.visual.visualClass
module
splitImage() (in module spam.helpers.imageManipulation)
stackToArray() (in module spam.helpers.imageManipulation)
starCorrelation() (spam.visual.visualClass.FinalStep method)
str2bool() (in module spam.helpers.optionsParser)
structuringElement() (in module spam.mesh.structured)
surfaceArea() (in module spam.measurements.globalDescriptors)
T
tearDown() (spam.helpers.test.TestSpam method)
TestSpam (class in spam.helpers.test)
tetCentroid() (in module spam.mesh.tetrahedra)
tetVolume() (in module spam.mesh.tetrahedra)
tetVolumes() (in module spam.mesh.unstructured)
TIFFtoVTK() (in module spam.helpers.vtkio)
totalCurvature() (in module spam.measurements.globalDescriptors)
triangulate() (in module spam.mesh.unstructured)
trueSphericity() (in module spam.label.label)
TSVtoTIFF() (in module spam.helpers.tsvio)
TSVtoVTK() (in module spam.helpers.tsvio)
U
updateViewer() (spam.visual.QtImageViewer.QtImageViewer method)
V
validate() (spam.visual.visualClass.ereg method)
variance() (in module spam.filters.movingFilters)
volume() (in module spam.measurements.globalDescriptors)
volumes() (in module spam.label.label)
W
watershed() (in module spam.label.ITKwatershed)
writeGlyphsVTK() (in module spam.helpers.vtkio)
writeRegistrationTSV() (in module spam.helpers.tsvio)
writeStrainTSV() (in module spam.helpers.tsvio)
writeStructuredVTK() (in module spam.helpers.vtkio)
writeUnstructuredVTK() (in module spam.helpers.vtkio)