def userSettingsOnly(cls):
DATA_PATH = pyCGM2.TEST_DATA_PATH + "Configurator\\CGM1\\onlyUserSettings\\"
#internalSettings = files.openFile(pyCGM2_GLOBAL_SETTINGS_PATH,"CGM1-pyCGM2.settings")
userSettings = files.openFile(DATA_PATH, "CGM1.userSettings")
manager = ModelManager.CGM1ConfigManager(userSettings)
manager.contruct()
manager.getFinalSettings()
def customTranslators(cls):
DATA_PATH = pyCGM2.TEST_DATA_PATH + "Configurator\\CGM1\\customTranslators\\"
#internalSettings = files.openFile(pyCGM2_GLOBAL_SETTINGS_PATH,"CGM1-pyCGM2.settings")
userSettings = files.openFile(DATA_PATH, "CGM1.userSettings")
translators = files.openFile(DATA_PATH, "CGM1.translators")
manager = ModelManager.CGM1ConfigManager(userSettings,
localTranslators=translators)
manager.contruct()
manager.getFinalSettings()
def mpFromVsk(cls):
DATA_PATH = pyCGM2.TEST_DATA_PATH + "Configurator\\CGM1\\vskIn\\"
#internalSettings = files.openFile(pyCGM2_GLOBAL_SETTINGS_PATH,"CGM1-pyCGM2.settings")
userSettings = files.openFile(DATA_PATH, "CGM1.userSettings")
vsk = vskTools.Vsk(str(DATA_PATH + "CGM1.vsk"))
manager = ModelManager.CGM1ConfigManager(userSettings, vsk=vsk)
manager.contruct()
manager.getFinalSettings()
def allCustom(cls):
DATA_PATH = pyCGM2.TEST_DATA_PATH + "Configurator\\CGM1\\allCustom\\"
#internalSettings = files.openFile(pyCGM2_GLOBAL_SETTINGS_PATH,"CGM1-pyCGM2.settings")
userSettings = files.openFile(DATA_PATH, "CGM1.userSettings")
translators = files.openFile(DATA_PATH, "CGM1.translators")
customAdvancedSettings = files.openFile(DATA_PATH,
"CGM1-pyCGM2.settings")
vsk = vskTools.Vsk(str(DATA_PATH + "CGM1.vsk"))
manager = ModelManager.CGM1ConfigManager(
userSettings,
localInternalSettings=customAdvancedSettings,
localTranslators=translators,
vsk=vsk)
manager.contruct()
manager.getFinalSettings()
def main(args):
DATA_PATH = os.getcwd()+"\\"
# User Settings
if os.path.isfile(DATA_PATH + args.userFile):
userSettings = files.openFile(DATA_PATH,args.userFile)
else:
raise Exception ("user setting file not found")
# internal (expert) Settings
if args.expertFile:
if os.path.isfile(DATA_PATH + args.expertFile):
internalSettings = files.openFile(DATA_PATH,args.expertFile)
else:
raise Exception ("expert setting file not found")
else:
internalSettings = None
# translators
if os.path.isfile(DATA_PATH + "CGM1_1.translators"):
translators = files.openFile(DATA_PATH,"CGM1_1.translators")
else:
translators = None
# --- Manager ----
manager = ModelManager.CGM1_1ConfigManager(userSettings,localInternalSettings=internalSettings,localTranslators=translators)
manager.contruct()
finalSettings = manager.getFinalSettings()
files.prettyDictPrint(finalSettings)
logging.info("=============Calibration=============")
model,finalAcqStatic = cgm1_1.calibrate(DATA_PATH,
manager.staticTrial,
manager.translators,
manager.requiredMp,
manager.optionalMp,
manager.leftFlatFoot,
manager.rightFlatFoot,
manager.markerDiameter,
manager.pointSuffix,
displayCoordinateSystem=True)
btkTools.smartWriter(finalAcqStatic, str(DATA_PATH+finalSettings["Calibration"]["StaticTrial"]))#[:-4]+"-pyCGM2modelled.c3d"))
logging.info("Static Calibration -----> Done")
manager.updateMp(model)
#files.prettyDictPrint(manager.finalSettings)
logging.info("=============Fitting=============")
for trial in manager.dynamicTrials:
mfpa = None if trial["Mfpa"] == "Auto" else trial["Mfpa"]
reconstructFilenameLabelled = trial["File"]
acqGait = cgm1_1.fitting(model,DATA_PATH, reconstructFilenameLabelled,
manager.translators,
manager.markerDiameter,
manager.pointSuffix,
mfpa,
manager.momentProjection,
displayCoordinateSystem=True)
btkTools.smartWriter(acqGait, str(DATA_PATH+reconstructFilenameLabelled))#[:-4]+"-pyCGM2modelled.c3d"))
logging.info("---->dynamic trial (%s) processed" %(reconstructFilenameLabelled))
logging.info("=============Writing of final Settings=============")
i = 0
while os.path.exists("CGM1.1 [%s].completeSettings" % i):
i += 1
filename = "CGM1.1 [" + str(i)+"].completeSettings"
files.saveJson(DATA_PATH, filename, finalSettings)
logging.info("---->complete settings (%s) exported" %(filename))
raw_input("Press return to exit..")
def get_calibration_arguments_and_model_manager(model_type, data_path,
session_xml, point_suffix):
settings = get_settings(model_type)
translators = settings["Translators"]
required_mp, optional_mp = qtmTools.SubjectMp(session_xml)
static_session_xml_soup = utils.find_static(session_xml)
calibration_filename = qtmTools.getFilename(static_session_xml_soup)
leftFlatFoot = toBool(static_session_xml_soup.Left_foot_flat)
rightFlatFoot = toBool(static_session_xml_soup.Right_foot_flat)
headFlat = toBool(static_session_xml_soup.Head_flat)
markerDiameter = float(
static_session_xml_soup.Marker_diameter.text) * 1000.0
dynamic_measurements = qtmTools.findDynamic(session_xml)
user_settings = {
"Calibration": {
"Left flat foot": leftFlatFoot,
"Right flat foot": rightFlatFoot,
"Head flat": headFlat,
"StaticTrial": calibration_filename
},
"Global": {
"Marker diameter": markerDiameter,
"Point suffix": point_suffix
},
"MP": {
"Required": required_mp,
"Optional": optional_mp
},
"Fitting": {
"Trials": dynamic_measurements
}
}
if model_type == "CGM1":
model_manager = ModelManager.CGM1ConfigManager(
user_settings,
localInternalSettings=settings,
localTranslators={"Translators": translators})
model_manager.contruct()
calibration_arguments = (
data_path + "\\",
model_manager.staticTrial,
model_manager.translators,
model_manager.requiredMp,
model_manager.optionalMp,
model_manager.leftFlatFoot,
model_manager.rightFlatFoot,
model_manager.headFlat,
model_manager.markerDiameter,
model_manager.pointSuffix,
)
elif model_type == "CGM2_3":
model_manager = ModelManager.CGM2_3ConfigManager(
user_settings,
localInternalSettings=settings,
localTranslators={"Translators": translators})
model_manager.contruct()
finalSettings = model_manager.getFinalSettings()
calibration_arguments = (
data_path + "\\",
model_manager.staticTrial,
model_manager.translators,
finalSettings,
model_manager.requiredMp,
model_manager.optionalMp,
model_manager.enableIK,
model_manager.leftFlatFoot,
model_manager.rightFlatFoot,
model_manager.headFlat,
model_manager.markerDiameter,
model_manager.hjcMethod,
model_manager.pointSuffix,
)
else:
raise Exception(
"Processing for model_type={} is not implemented".format(
model_type))
return calibration_arguments, model_manager
def main(args):
DATA_PATH = os.getcwd() + "\\"
# User Settings
if os.path.isfile(DATA_PATH + args.userFile):
userSettings = files.openFile(DATA_PATH, args.userFile)
else:
raise Exception("user setting file not found")
# internal (expert) Settings
if args.expertFile:
if os.path.isfile(DATA_PATH + args.expertFile):
internalSettings = files.openFile(DATA_PATH, args.expertFile)
else:
raise Exception("expert setting file not found")
else:
internalSettings = None
# translators
if os.path.isfile(DATA_PATH + "CGM1_1.translators"):
translators = files.openFile(DATA_PATH, "CGM1_1.translators")
else:
translators = None
# --- Manager ----
manager = ModelManager.CGM1_1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators)
manager.contruct()
finalSettings = manager.getFinalSettings()
# files.prettyDictPrint(finalSettings)
# logging.info("=============Calibration=============")
model, finalAcqStatic = cgm1_1.calibrate(DATA_PATH,
manager.staticTrial,
manager.translators,
manager.requiredMp,
manager.optionalMp,
manager.leftFlatFoot,
manager.rightFlatFoot,
manager.headFlat,
manager.markerDiameter,
manager.pointSuffix,
displayCoordinateSystem=True)
btkTools.smartWriter(
finalAcqStatic,
str(DATA_PATH + finalSettings["Calibration"]["StaticTrial"][:-4]) +
'.C3D') #+"-pyCGM2modelled.c3d"
# logging.info("Static Calibration -----> Done")
manager.updateMp(model)
#files.prettyDictPrint(manager.finalSettings)
# logging.info("=============Fitting=============")
for trial in manager.dynamicTrials:
mfpa = None if trial["Mfpa"] == "Auto" else trial["Mfpa"]
reconstructFilenameLabelled = trial["File"]
acqGait = cgm1_1.fitting(model,
DATA_PATH,
reconstructFilenameLabelled,
manager.translators,
manager.markerDiameter,
manager.pointSuffix,
mfpa,
manager.momentProjection,
displayCoordinateSystem=True)
btkTools.smartWriter(
acqGait,
str(DATA_PATH + reconstructFilenameLabelled[:-4]) +
'.C3D') #+"-pyCGM2modelled.c3d"
def getCGMmanager(CGMversion,
userSettings,
internalSettings=None,
translators=None,
localIkWeight=None,
vsk=None):
# --- Manager ----
if model == "CGM1.0":
manager = ModelManager.CGM1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM1.1":
manager = ModelManager.CGM1_1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.1":
manager = ModelManager.CGM2_1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.2":
manager = ModelManager.CGM2_2ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.3":
manager = ModelManager.CGM2_3ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.4":
manager = ModelManager.CGM2_4ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.5":
manager = ModelManager.CGM2_5ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
else:
raise Exception(
"[pyCGM2] : Model version not known (choice CGM1.0 to CGM2.5 )")
manager.contruct()
return manager
def getCGMmanager(CGMversion,
userSettings,
internalSettings=None,
translators=None,
localIkWeight=None,
vsk=None):
"""
return CGM settings
:param CGMversion [str]: CGM version name
:param userSettings [dict]: content of the userSettings yaml file
**optional**
:param internalSettings [dict]: content of the internalSettings yaml file
:param translators [dict]: content of the translators file
:param localIkWeight [dict]: content of the localIkweight file
:param vsk [file]: vsk file
**Return**
:param [dict]: eventual CGM settings
"""
# --- Manager ----
if model == "CGM1.0":
manager = ModelManager.CGM1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM1.1":
manager = ModelManager.CGM1_1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.1":
manager = ModelManager.CGM2_1ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.2":
manager = ModelManager.CGM2_2ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.3":
manager = ModelManager.CGM2_3ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.4":
manager = ModelManager.CGM2_4ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
elif model == "CGM2.5":
manager = ModelManager.CGM2_5ConfigManager(
userSettings,
localInternalSettings=internalSettings,
localTranslators=translators,
localIkWeight=localIkWeight,
vsk=vsk)
else:
raise Exception(
"[pyCGM2] : Model version not known (choice CGM1.0 to CGM2.5 )")
manager.contruct()
return manager