def singleAnalysis(cls):
# ----DATA-----
DATA_PATH = pyCGM2.TEST_DATA_PATH + "operations\\plot\\gaitPlot\\"
modelledFilenames = ["gait Trial 03 - viconName.c3d"]
#---- c3d manager
#--------------------------------------------------------------------------
c3dmanagerProcedure = c3dManager.UniqueC3dSetProcedure(
DATA_PATH, modelledFilenames)
cmf = c3dManager.C3dManagerFilter(c3dmanagerProcedure)
cmf.enableEmg(False)
trialManager = cmf.generate()
#---- Analysis
#--------------------------------------------------------------------------
modelInfo = None
subjectInfo = None
experimentalInfo = None
analysisInstance = analysis.makeAnalysis(DATA_PATH, modelledFilenames,
None, None, None)
# viewer
kv = plotViewers.SpatioTemporalPlotViewer(analysisInstance)
kv.setNormativeDataset(normativeDatasets.NormalSTP())
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(DATA_PATH, "stp", "pdf")
pf.plot()
plt.show()
def plot_spatioTemporal(DATA_PATH,
analysis,
exportPdf=False,
outputName=None,
show=True,
title=None,
exportPng=False):
"""
plot_spatioTemporal : display spatio-temporal parameters as horizontal histogram
:param DATA_PATH [str]: path to your data
:param analysis [pyCGM2.Processing.analysis.Analysis]: pyCGM2 analysis instance
**optional**
:param exportPdf [bool]: save as pdf (False[default])
:param outputName [string]: name of your pdf file (None[default] export your pdf with name : Global Analysis)
:param show [bool]: enable matplotlib show function
:param title [string]: change default title of the plot panel
"""
if outputName is None: outputName = "pyCGM2-analysis"
if exportPdf or exportPng:
filenameOut = outputName + "-SpatioTemporal parameters"
stpv = plotViewers.SpatioTemporalPlotViewer(analysis)
stpv.setNormativeDataset(normativeDatasets.NormalSTP())
# filter
stppf = plotFilters.PlottingFilter()
stppf.setViewer(stpv)
if title is not None: stppf.setTitle(title + "-SpatioTemporal parameters")
if exportPdf: stppf.setExport(DATA_PATH, filenameOut, "pdf")
fig = stppf.plot()
if show: plt.show()
if exportPng:
fig.savefig(DATA_PATH + filenameOut + ".png")
return fig, filenameOut + ".png"
else:
return fig
def test_singleAnalysis(self):
# ----DATA-----
DATA_PATH = pyCGM2.TEST_DATA_PATH + "GaitData\CGM1-NormalGaitData-Events\Hånnibøl Lecter\\"
modelledFilenames = ["gait Trial 01.c3d", "gait Trial 02.c3d"]
#---- Analysis
#--------------------------------------------------------------------------
modelInfo = None
subjectInfo = None
experimentalInfo = None
analysisInstance = analysis.makeAnalysis(DATA_PATH, modelledFilenames)
# viewer
kv = plotViewers.SpatioTemporalPlotViewer(analysisInstance)
kv.setNormativeDataset(normativeDatasets.NormalSTP())
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.plot()
def singleAnalysis(cls):
# ----DATA-----
DATA_PATH = pyCGM2.TEST_DATA_PATH + "operations\\plot\\gaitPlot\\"
modelledFilenames = ["gait Trial 03 - viconName.c3d"]
#---- c3d manager
#--------------------------------------------------------------------------
c3dmanagerProcedure = c3dManager.UniqueC3dSetProcedure(
DATA_PATH, modelledFilenames)
cmf = c3dManager.C3dManagerFilter(c3dmanagerProcedure)
cmf.enableEmg(False)
trialManager = cmf.generate()
#---- Analysis
#--------------------------------------------------------------------------
modelInfo = None
subjectInfo = None
experimentalInfo = None
analysis = gaitSmartFunctions.make_analysis(
trialManager, cgm.CGM1LowerLimbs.ANALYSIS_KINEMATIC_LABELS_DICT,
cgm.CGM1LowerLimbs.ANALYSIS_KINETIC_LABELS_DICT, modelInfo,
subjectInfo, experimentalInfo)
# viewer
kv = plotViewers.SpatioTemporalPlotViewer(analysis)
kv.setNormativeDataset(normativeDatasets.NormalSTP())
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(DATA_PATH, "stp", "pdf")
pf.plot()
plt.show()
def cgm_gaitPlots(modelVersion,
analysis,
kineticFlag,
outputPath,
pdfFilename,
pointLabelSuffix="",
normativeDataset=None):
# filter 0 - stp panel
#-------------------------------------------
# pstViewer
stpv = plotViewers.SpatioTemporalPlotViewer(analysis)
stpv.setNormativeDataset(normativeDatasets.NormalSTP())
# filter
stppf = plotFilters.PlottingFilter()
stppf.setViewer(stpv)
stppf.setExport(outputPath, str(pdfFilename + "-stp"), "pdf")
stppf.plot()
# filter 1 - descriptive kinematic panel
#-------------------------------------------
# viewer
if modelVersion in [
"CGM1.0", "CGM1.1", "CGM2.1", "CGM2.2", "CGM2.2e", "CGM2.3",
"CGM2.3e"
]:
kv = plotViewers.LowerLimbKinematicsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
elif modelVersion in ["CGM2.4", "CGM2.4e"]:
kv = plotViewers.LowerLimbMultiFootKinematicsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
else:
raise Exception("[pyCGM2] Model version not known")
kv.setConcretePlotFunction(plot.gaitDescriptivePlot)
if normativeDataset is not None:
kv.setNormativeDataset(normativeDataset)
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(outputPath, str(pdfFilename + "-descriptive Kinematics"),
"pdf")
pf.plot()
# filter 2 - consistency kinematic panel
#-------------------------------------------
# viewer
if modelVersion in [
"CGM1.0", "CGM1.1", "CGM2.1", "CGM2.2", "CGM2.2e", "CGM2.3",
"CGM2.3e"
]:
kv = plotViewers.LowerLimbKinematicsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
elif modelVersion in ["CGM2.4", "CGM2.4e"]:
kv = plotViewers.LowerLimbMultiFootKinematicsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
else:
raise Exception("[pyCGM2] Model version not known")
kv.setConcretePlotFunction(plot.gaitConsistencyPlot)
if normativeDataset is not None:
kv.setNormativeDataset(normativeDataset)
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(outputPath, str(pdfFilename + "-consistency Kinematics"),
"pdf")
pf.plot()
if kineticFlag:
# filter 1 - descriptive kinematic panel
#-------------------------------------------
# viewer
if modelVersion in [
"CGM1.0", "CGM1.1", "CGM2.1", "CGM2.2", "CGM2.2e", "CGM2.3",
"CGM2.3e", "CGM2.4", "CGM2.4e"
]:
kv = plotViewers.LowerLimbKineticsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
kv.setConcretePlotFunction(plot.gaitDescriptivePlot)
if normativeDataset is not None:
kv.setNormativeDataset(normativeDataset)
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(outputPath, str(pdfFilename + "-descriptive Kinetics"),
"pdf")
pf.plot()
# filter 2 - consistency kinematic panel
#-------------------------------------------
# viewer
if modelVersion in [
"CGM1.0", "CGM1.1", "CGM2.1", "CGM2.2", "CGM2.2e", "CGM2.3",
"CGM2.3e", "CGM2.4", "CGM2.4e"
]:
kv = plotViewers.LowerLimbKineticsPlotViewer(
analysis, pointLabelSuffix=pointLabelSuffix)
kv.setConcretePlotFunction(plot.gaitConsistencyPlot)
if normativeDataset is not None:
kv.setNormativeDataset(normativeDataset)
# filter
pf = plotFilters.PlottingFilter()
pf.setViewer(kv)
pf.setExport(outputPath, str(pdfFilename + "-consistency Kinetics"),
"pdf")
pf.plot()