def _runStructuredLearning(self,
z_range,
maxObj,
maxNearestNeighbors,
maxDist,
divThreshold,
scales,
size_range,
withDivisions,
borderAwareWidth,
withClassifierPrior,
withBatchProcessing=False,
progressWindow=None,
progressVisitor=CommandLineProgressVisitor()
):
if not withBatchProcessing:
gui = self.parent.parent.trackingApplet._gui.currentGui()
self.progressWindow = progressWindow
self.progressVisitor=progressVisitor
emptyAnnotations = False
empty = self.Annotations.value == {} or \
"divisions" in list(self.Annotations.value.keys()) and self.Annotations.value["divisions"]=={} and \
"labels" in self.Annotations.value.keys() and self.Annotations.value["labels"]=={}
if empty and not withBatchProcessing:
gui._criticalMessage("Error: Weights can not be calculated because training annotations are missing. " +\
"Go back to Training applet!")
emptyAnnotations = emptyAnnotations or empty
if emptyAnnotations:
return [self.DetectionWeight.value, self.DivisionWeight.value, self.TransitionWeight.value, self.AppearanceWeight.value, self.DisappearanceWeight.value]
median_obj_size = [0]
from_z = z_range[0]
to_z = z_range[1]
ndim=3
if (to_z - from_z == 0):
ndim=2
time_range = [0, self.LabelImage.meta.shape[0]-1]
x_range = [0, self.LabelImage.meta.shape[1]]
y_range = [0, self.LabelImage.meta.shape[2]]
z_range = [0, self.LabelImage.meta.shape[3]]
parameters = self.Parameters.value
parameters['maxDist'] = maxDist
parameters['maxObj'] = maxObj
parameters['divThreshold'] = divThreshold
parameters['withDivisions'] = withDivisions
parameters['withClassifierPrior'] = withClassifierPrior
parameters['borderAwareWidth'] = borderAwareWidth
parameters['scales'] = scales
parameters['time_range'] = [min(time_range), max(time_range)]
parameters['x_range'] = x_range
parameters['y_range'] = y_range
parameters['z_range'] = z_range
parameters['max_nearest_neighbors'] = maxNearestNeighbors
parameters['withTracklets'] = False
# Set a size range with a minimum area equal to the max number of objects (since the GMM throws an error if we try to fit more gaussians than the number of pixels in the object)
size_range = (max(maxObj, size_range[0]), size_range[1])
parameters['size_range'] = size_range
self.Parameters.setValue(parameters, check_changed=False)
foundAllArcs = False
new_max_nearest_neighbors = max ([maxNearestNeighbors-1,1])
maxObjOK = True
parameters['max_nearest_neighbors'] = maxNearestNeighbors
while not foundAllArcs and maxObjOK and new_max_nearest_neighbors<10:
new_max_nearest_neighbors += 1
logger.info("new_max_nearest_neighbors: {}".format(new_max_nearest_neighbors))
time_range = list(range(0,self.LabelImage.meta.shape[0]))
parameters['max_nearest_neighbors'] = new_max_nearest_neighbors
self.Parameters.setValue(parameters, check_changed=False)
hypothesesGraph = self._createHypothesesGraph()
if hypothesesGraph.countNodes() == 0:
raise DatasetConstraintError('Structured Learning', 'Can not track frames with 0 objects, abort.')
logger.info("Structured Learning: Adding Training Annotations to Hypotheses Graph")
mergeMsgStr = "Your tracking annotations contradict this model assumptions! All tracks must be continuous; mergers may merge or split but all tracks in a merger appear/disappear together. " + \
"You may also have to improve division and/or object count classifier in order to match your tracking annotations with small uncertainty (see Uncertainty Layer in the classiefiers)."
foundAllArcs = True;
numAllAnnotatedDivisions = 0
self.features = self.ObjectFeatures(list(range(0,self.LabelImage.meta.shape[0]))).wait()
if foundAllArcs:
timeRange = [0,self.LabelImage.meta.shape[0]]
if "labels" in self.Annotations.value:
labels = self.Annotations.value["labels"]
for time in list(labels.keys()):
if time in range(timeRange[0],timeRange[1]+1):
if not foundAllArcs:
break
for label in list(labels[time].keys()):
if not foundAllArcs:
break
trackSet = labels[time][label]
center = self.features[time][default_features_key]['RegionCenter'][label]
trackCount = len(trackSet)
if trackCount > maxObj:
logger.info("Your track count for object {} in time frame {} is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!".format(label,time,trackCount,trackSet,maxObj))
logger.info("Either remove track(s) from this object or train the object count classifier with more labels!")
maxObjOK = False
self.raiseDatasetConstraintError(self.progressWindow, 'Structured Learning', "Your track count for object "+str(label)+" in time frame " +str(time)+ " equals "+str(trackCount)+"=|"+str(trackSet)+"|," + \
" which is greater than the maximum object number "+str(maxObj)+" defined by object count classifier! " + \
"Either remove track(s) from this object or train the object count classifier with more labels!")
for track in trackSet:
if not foundAllArcs:
logger.info("[structuredTrackingGui] Increasing max nearest neighbors!")
break
# is this a FIRST, INTERMEDIATE, LAST, SINGLETON(FIRST_LAST) object of a track (or FALSE_DETECTION)
type = self._type(time, track) # returns [type, previous_label] if type=="LAST" or "INTERMEDIATE" (else [type])
print ("time, track",time, track, "type",type)
if type == None:
self.raiseDatasetConstraintError(self.progressWindow, 'Structured Learning', mergeMsgStr)
elif type[0] in ["LAST", "INTERMEDIATE"]:
previous_label = int(type[1])
previousTrackSet = labels[time-1][previous_label]
intersectionSet = trackSet.intersection(previousTrackSet)
trackCountIntersection = len(intersectionSet)
if trackCountIntersection > maxObj:
logger.info("Your track count for transition ( {},{} ) ---> ( {},{} ) is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!".format(previous_label,time-1,label,time,trackCountIntersection,intersectionSet,maxObj))
logger.info("Either remove track(s) from these objects or train the object count classifier with more labels!")
maxObjOK = False
self.raiseDatasetConstraintError(self.progressWindow, 'Structured Learning', "Your track count for transition ("+str(previous_label)+","+str(time-1)+") ---> ("+str(label)+","+str(time)+") is "+str(trackCountIntersection)+"=|"+str(intersectionSet)+"|, " + \
"which is greater than maximum object number "+str(maxObj)+" defined by object count classifier!" + \
"Either remove track(s) from these objects or train the object count classifier with more labels!")
sink = (time, int(label))
foundAllArcs = False
for edge in list(hypothesesGraph._graph.in_edges(sink)): # an edge is a tuple of source and target nodes
logger.debug("Looking at in edge {} of node {}, searching for ({},{})".format(edge, sink, time-1, previous_label))
# print "Looking at in edge {} of node {}, searching for ({},{})".format(edge, sink, time-1, previous_label)
if edge[0][0] == time-1 and edge[0][1] == int(previous_label): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edge[edge[0]][edge[1]]['value'] = int(trackCountIntersection)
break
if not foundAllArcs:
logger.info("[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS t:{} id:{}".format(time-1, int(previous_label)))
# print "[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS t:{} id:{}".format(time-1, int(previous_label))
break
if type[0] in ["FIRST", "SINGLETON(FIRST_LAST)"] and time in self.appearances.keys() and label in self.appearances[time].keys() and track in self.appearances[time][label].keys() and self.appearances[time][label][track]:
# print("---> appearance",time,label,track)
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]['appearance'] = True
logger.debug("[structuredTrackingGui] APPEARANCE: {} {}".format(time, int(label)))
elif type[0] in ["LAST", "SINGLETON(FIRST_LAST)"] and time in self.disappearances.keys() and label in self.disappearances[time].keys() and track in self.disappearances[time][label].keys() and self.disappearances[time][label][track]:
# print("---> disappearance",time,label,track)
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]['disappearance'] = True
logger.debug("[structuredTrackingGui] DISAPPEARANCE: {} {}".format(time, int(label)))
if type == None:
self.raiseDatasetConstraintError(self.progressWindow, 'Structured Learning', mergeMsgStr)
elif type[0] in ["FIRST", "LAST", "INTERMEDIATE", "SINGLETON(FIRST_LAST)"]:
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]['value'] = trackCount
logger.debug("[structuredTrackingGui] NODE: {} {}".format(time, int(label)))
# print "[structuredTrackingGui] NODE: {} {} {}".format(time, int(label), int(trackCount))
else:
logger.debug("[structuredTrackingGui] NODE: {} {} NOT found".format(time, int(label)))
# print "[structuredTrackingGui] NODE: {} {} NOT found".format(time, int(label))
foundAllArcs = False
break
if foundAllArcs and "divisions" in list(self.Annotations.value.keys()):
divisions = self.Annotations.value["divisions"]
numAllAnnotatedDivisions = numAllAnnotatedDivisions + len(divisions)
for track in list(divisions.keys()):
if not foundAllArcs:
break
division = divisions[track]
time = int(division[1])
parent = int(self.getLabelTT(time, track))
if parent >=0:
children = [int(self.getLabelTT(time+1, division[0][i])) for i in [0, 1]]
parentNode = (time, parent)
hypothesesGraph._graph.node[parentNode]['divisionValue'] = 1
foundAllArcs = False
for child in children:
for edge in hypothesesGraph._graph.out_edges(parentNode): # an edge is a tuple of source and target nodes
if edge[1][0] == time+1 and edge[1][1] == int(child): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edge[edge[0]][edge[1]]['value'] = 1
break
if not foundAllArcs:
break
if not foundAllArcs:
logger.info("[structuredTrackingGui] Increasing max nearest neighbors! DIVISION {} {}".format(time, parent))
# print "[structuredTrackingGui] Increasing max nearest neighbors! DIVISION {} {}".format(time, parent)
break
logger.info("max nearest neighbors= {}".format(new_max_nearest_neighbors))
if new_max_nearest_neighbors > maxNearestNeighbors:
maxNearestNeighbors = new_max_nearest_neighbors
parameters['maxNearestNeighbors'] = maxNearestNeighbors
if not withBatchProcessing:
gui._drawer.maxNearestNeighborsSpinBox.setValue(maxNearestNeighbors)
detectionWeight = self.DetectionWeight.value
divisionWeight = self.DivisionWeight.value
transitionWeight = self.TransitionWeight.value
disappearanceWeight = self.DisappearanceWeight.value
appearanceWeight = self.AppearanceWeight.value
if not foundAllArcs:
logger.info("[structuredTracking] Increasing max nearest neighbors did not result in finding all training arcs!")
return [transitionWeight, detectionWeight, divisionWeight, appearanceWeight, disappearanceWeight]
hypothesesGraph.insertEnergies()
self.progressVisitor.showState("Structured learning")
self.progressVisitor.showProgress(0)
# crops away everything (arcs and nodes) that doesn't have 'value' set
prunedGraph = hypothesesGraph.pruneGraphToSolution(distanceToSolution=0) # width of non-annotated border needed for negative training examples
trackingGraph = prunedGraph.toTrackingGraph()
# trackingGraph.convexifyCosts()
model = trackingGraph.model
model['settings']['optimizerEpGap'] = 0.005
model['settings']['allowLengthOneTracks'] = False
gt = prunedGraph.getSolutionDictionary()
initialWeights = trackingGraph.weightsListToDict([transitionWeight, detectionWeight, divisionWeight, appearanceWeight, disappearanceWeight])
self.LearningHypothesesGraph.setValue(hypothesesGraph)
mht.trainWithWeightInitialization(model,gt, initialWeights)
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
self.progressVisitor.showProgress(1)
if not withBatchProcessing and withDivisions and numAllAnnotatedDivisions == 0 and not weights[2] == 0.0:
gui._informationMessage("Divisible objects are checked, but you did not annotate any divisions in your tracking training. " + \
"The resulting division weight might be arbitrarily and if there are divisions present in the dataset, " +\
"they might not be present in the tracking solution.")
norm = 0
for i in range(len(weights)):
norm += weights[i]*weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(old_div(weights[0],norm))
self.DetectionWeight.setValue(old_div(weights[1],norm))
self.DivisionWeight.setValue(old_div(weights[2],norm))
self.AppearanceWeight.setValue(old_div(weights[3],norm))
self.DisappearanceWeight.setValue(old_div(weights[4],norm))
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(self.DisappearanceWeight.value)
if not withBatchProcessing:
if self.DetectionWeight.value < 0.0:
gui._informationMessage ("Detection weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more training and recalculate the learning weights in order to improve your tracking solution.")
elif self.DivisionWeight.value < 0.0:
gui._informationMessage ("Division weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more division cells to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.TransitionWeight.value < 0.0:
gui._informationMessage ("Transition weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more transitions to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.AppearanceWeight.value < 0.0:
gui._informationMessage ("Appearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more appearances to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.DisappearanceWeight.value < 0.0:
gui._informationMessage ("Disappearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more disappearances to your training and recalculate the learning weights in order to improve your tracking solution.")
if self.DetectionWeight.value < 0.0 or self.DivisionWeight.value < 0.0 or self.TransitionWeight.value < 0.0 or \
self.AppearanceWeight.value < 0.0 or self.DisappearanceWeight.value < 0.0:
self.progressVisitor.showProgress(0)
model['settings']['nonNegativeWeightsOnly'] = True
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
norm = 0
for i in range(len(weights)):
norm += weights[i]*weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(old_div(weights[0],norm))
self.DetectionWeight.setValue(old_div(weights[1],norm))
self.DivisionWeight.setValue(old_div(weights[2],norm))
self.AppearanceWeight.setValue(old_div(weights[3],norm))
self.DisappearanceWeight.setValue(old_div(weights[4],norm))
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(self.DisappearanceWeight.value)
if self.progressWindow is not None:
self.progressWindow.onTrackDone()
logger.info("Structured Learning Tracking Weights (normalized):")
logger.info(" detection weight = {}".format(self.DetectionWeight.value))
logger.info(" division weight = {}".format(self.DivisionWeight.value))
logger.info(" transition weight = {}".format(self.TransitionWeight.value))
logger.info(" appearance weight = {}".format(self.AppearanceWeight.value))
logger.info(" disappearance weight = {}".format(self.DisappearanceWeight.value))
parameters['detWeight'] = self.DetectionWeight.value
parameters['divWeight'] = self.DivisionWeight.value
parameters['transWeight'] = self.TransitionWeight.value
parameters['appearanceCost'] = self.AppearanceWeight.value
parameters['disappearanceCost'] = self.DisappearanceWeight.value
self.Parameters.setValue(parameters)
self.Parameters.setDirty()
return [self.DetectionWeight.value, self.DivisionWeight.value, self.TransitionWeight.value, self.AppearanceWeight.value, self.DisappearanceWeight.value]
def _runStructuredLearning(
self,
z_range,
maxObj,
maxNearestNeighbors,
maxDist,
divThreshold,
scales,
size_range,
withDivisions,
borderAwareWidth,
withClassifierPrior,
withBatchProcessing=False,
progressWindow=None,
progressVisitor=CommandLineProgressVisitor(),
):
if not withBatchProcessing:
gui = self.parent.parent.trackingApplet._gui.currentGui()
self.progressWindow = progressWindow
self.progressVisitor = progressVisitor
emptyAnnotations = False
empty = (
self.Annotations.value == {}
or "divisions" in list(self.Annotations.value.keys())
and self.Annotations.value["divisions"] == {}
and "labels" in self.Annotations.value.keys()
and self.Annotations.value["labels"] == {}
)
if empty and not withBatchProcessing:
gui._criticalMessage(
"Error: Weights can not be calculated because training annotations are missing. "
+ "Go back to Training applet!"
)
emptyAnnotations = emptyAnnotations or empty
if emptyAnnotations:
return [
self.DetectionWeight.value,
self.DivisionWeight.value,
self.TransitionWeight.value,
self.AppearanceWeight.value,
self.DisappearanceWeight.value,
]
median_obj_size = [0]
from_z = z_range[0]
to_z = z_range[1]
ndim = 3
if to_z - from_z == 0:
ndim = 2
time_range = [0, self.LabelImage.meta.shape[0] - 1]
x_range = [0, self.LabelImage.meta.shape[1]]
y_range = [0, self.LabelImage.meta.shape[2]]
z_range = [0, self.LabelImage.meta.shape[3]]
parameters = self.Parameters.value
parameters["maxDist"] = maxDist
parameters["maxObj"] = maxObj
parameters["divThreshold"] = divThreshold
parameters["withDivisions"] = withDivisions
parameters["withClassifierPrior"] = withClassifierPrior
parameters["borderAwareWidth"] = borderAwareWidth
parameters["scales"] = scales
parameters["time_range"] = [min(time_range), max(time_range)]
parameters["x_range"] = x_range
parameters["y_range"] = y_range
parameters["z_range"] = z_range
parameters["max_nearest_neighbors"] = maxNearestNeighbors
parameters["withTracklets"] = False
# Set a size range with a minimum area equal to the max number of objects (since the GMM throws an error if we try to fit more gaussians than the number of pixels in the object)
size_range = (max(maxObj, size_range[0]), size_range[1])
parameters["size_range"] = size_range
self.Parameters.setValue(parameters, check_changed=False)
foundAllArcs = False
new_max_nearest_neighbors = max([maxNearestNeighbors - 1, 1])
maxObjOK = True
parameters["max_nearest_neighbors"] = maxNearestNeighbors
while not foundAllArcs and maxObjOK and new_max_nearest_neighbors < 10:
new_max_nearest_neighbors += 1
logger.info("new_max_nearest_neighbors: {}".format(new_max_nearest_neighbors))
time_range = list(range(0, self.LabelImage.meta.shape[0]))
parameters["max_nearest_neighbors"] = new_max_nearest_neighbors
self.Parameters.setValue(parameters, check_changed=False)
hypothesesGraph = self._createHypothesesGraph()
if hypothesesGraph.countNodes() == 0:
raise DatasetConstraintError("Structured Learning", "Can not track frames with 0 objects, abort.")
logger.info("Structured Learning: Adding Training Annotations to Hypotheses Graph")
mergeMsgStr = (
"Your tracking annotations contradict this model assumptions! All tracks must be continuous; mergers may merge or split but all tracks in a merger appear/disappear together. "
+ "You may also have to improve division and/or object count classifier in order to match your tracking annotations with small uncertainty (see Uncertainty Layer in the classiefiers)."
)
foundAllArcs = True
numAllAnnotatedDivisions = 0
self.features = self.ObjectFeatures(list(range(0, self.LabelImage.meta.shape[0]))).wait()
if foundAllArcs:
timeRange = [0, self.LabelImage.meta.shape[0]]
if "labels" in self.Annotations.value:
labels = self.Annotations.value["labels"]
for time in list(labels.keys()):
if time in range(timeRange[0], timeRange[1] + 1):
if not foundAllArcs:
break
for label in list(labels[time].keys()):
if not foundAllArcs:
break
trackSet = labels[time][label]
center = self.features[time][default_features_key]["RegionCenter"][label]
trackCount = len(trackSet)
if trackCount > maxObj:
logger.info(
"Your track count for object {} in time frame {} is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!".format(
label, time, trackCount, trackSet, maxObj
)
)
logger.info(
"Either remove track(s) from this object or train the object count classifier with more labels!"
)
maxObjOK = False
self.raiseDatasetConstraintError(
self.progressWindow,
"Structured Learning",
"Your track count for object "
+ str(label)
+ " in time frame "
+ str(time)
+ " equals "
+ str(trackCount)
+ "=|"
+ str(trackSet)
+ "|,"
+ " which is greater than the maximum object number "
+ str(maxObj)
+ " defined by object count classifier! "
+ "Either remove track(s) from this object or train the object count classifier with more labels!",
)
for track in trackSet:
if not foundAllArcs:
logger.info("[structuredTrackingGui] Increasing max nearest neighbors!")
break
# is this a FIRST, INTERMEDIATE, LAST, SINGLETON(FIRST_LAST) object of a track (or FALSE_DETECTION)
type = self._type(
time, track
) # returns [type, previous_label] if type=="LAST" or "INTERMEDIATE" (else [type])
print("time, track", time, track, "type", type)
if type == None:
self.raiseDatasetConstraintError(
self.progressWindow, "Structured Learning", mergeMsgStr
)
elif type[0] in ["LAST", "INTERMEDIATE"]:
previous_label = int(type[1])
previousTrackSet = labels[time - 1][previous_label]
intersectionSet = trackSet.intersection(previousTrackSet)
trackCountIntersection = len(intersectionSet)
if trackCountIntersection > maxObj:
logger.info(
"Your track count for transition ( {},{} ) ---> ( {},{} ) is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!".format(
previous_label,
time - 1,
label,
time,
trackCountIntersection,
intersectionSet,
maxObj,
)
)
logger.info(
"Either remove track(s) from these objects or train the object count classifier with more labels!"
)
maxObjOK = False
self.raiseDatasetConstraintError(
self.progressWindow,
"Structured Learning",
"Your track count for transition ("
+ str(previous_label)
+ ","
+ str(time - 1)
+ ") ---> ("
+ str(label)
+ ","
+ str(time)
+ ") is "
+ str(trackCountIntersection)
+ "=|"
+ str(intersectionSet)
+ "|, "
+ "which is greater than maximum object number "
+ str(maxObj)
+ " defined by object count classifier!"
+ "Either remove track(s) from these objects or train the object count classifier with more labels!",
)
sink = (time, int(label))
foundAllArcs = False
for edge in list(
hypothesesGraph._graph.in_edges(sink)
): # an edge is a tuple of source and target nodes
logger.debug(
"Looking at in edge {} of node {}, searching for ({},{})".format(
edge, sink, time - 1, previous_label
)
)
# print "Looking at in edge {} of node {}, searching for ({},{})".format(edge, sink, time-1, previous_label)
if edge[0][0] == time - 1 and edge[0][1] == int(
previous_label
): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edges[edge[0], edge[1]]["value"] = int(
trackCountIntersection
)
break
if not foundAllArcs:
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS t:{} id:{}".format(
time - 1, int(previous_label)
)
)
# print "[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS t:{} id:{}".format(time-1, int(previous_label))
break
if (
type[0] in ["FIRST", "SINGLETON(FIRST_LAST)"]
and time in self.appearances.keys()
and label in self.appearances[time].keys()
and track in self.appearances[time][label].keys()
and self.appearances[time][label][track]
):
# print("---> appearance",time,label,track)
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]["appearance"] = True
logger.debug(
"[structuredTrackingGui] APPEARANCE: {} {}".format(time, int(label))
)
elif (
type[0] in ["LAST", "SINGLETON(FIRST_LAST)"]
and time in self.disappearances.keys()
and label in self.disappearances[time].keys()
and track in self.disappearances[time][label].keys()
and self.disappearances[time][label][track]
):
# print("---> disappearance",time,label,track)
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]["disappearance"] = True
logger.debug(
"[structuredTrackingGui] DISAPPEARANCE: {} {}".format(time, int(label))
)
if type == None:
self.raiseDatasetConstraintError(
self.progressWindow, "Structured Learning", mergeMsgStr
)
elif type[0] in ["FIRST", "LAST", "INTERMEDIATE", "SINGLETON(FIRST_LAST)"]:
if (time, int(label)) in list(hypothesesGraph._graph.node.keys()):
hypothesesGraph._graph.node[(time, int(label))]["value"] = trackCount
logger.debug("[structuredTrackingGui] NODE: {} {}".format(time, int(label)))
# print "[structuredTrackingGui] NODE: {} {} {}".format(time, int(label), int(trackCount))
else:
logger.debug(
"[structuredTrackingGui] NODE: {} {} NOT found".format(time, int(label))
)
# print "[structuredTrackingGui] NODE: {} {} NOT found".format(time, int(label))
foundAllArcs = False
break
if foundAllArcs and "divisions" in list(self.Annotations.value.keys()):
divisions = self.Annotations.value["divisions"]
numAllAnnotatedDivisions = numAllAnnotatedDivisions + len(divisions)
for track in list(divisions.keys()):
if not foundAllArcs:
break
division = divisions[track]
time = int(division[1])
parent = int(self.getLabelTT(time, track))
if parent >= 0:
children = [int(self.getLabelTT(time + 1, division[0][i])) for i in [0, 1]]
parentNode = (time, parent)
hypothesesGraph._graph.node[parentNode]["divisionValue"] = 1
foundAllArcs = False
for child in children:
for edge in hypothesesGraph._graph.out_edges(
parentNode
): # an edge is a tuple of source and target nodes
if edge[1][0] == time + 1 and edge[1][1] == int(
child
): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edges[edge[0], edge[1]]["value"] = 1
break
if not foundAllArcs:
break
if not foundAllArcs:
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors! DIVISION {} {}".format(
time, parent
)
)
# print "[structuredTrackingGui] Increasing max nearest neighbors! DIVISION {} {}".format(time, parent)
break
logger.info("max nearest neighbors= {}".format(new_max_nearest_neighbors))
if new_max_nearest_neighbors > maxNearestNeighbors:
maxNearestNeighbors = new_max_nearest_neighbors
parameters["maxNearestNeighbors"] = maxNearestNeighbors
if not withBatchProcessing:
gui._drawer.maxNearestNeighborsSpinBox.setValue(maxNearestNeighbors)
detectionWeight = self.DetectionWeight.value
divisionWeight = self.DivisionWeight.value
transitionWeight = self.TransitionWeight.value
disappearanceWeight = self.DisappearanceWeight.value
appearanceWeight = self.AppearanceWeight.value
if not foundAllArcs:
logger.info(
"[structuredTracking] Increasing max nearest neighbors did not result in finding all training arcs!"
)
return [transitionWeight, detectionWeight, divisionWeight, appearanceWeight, disappearanceWeight]
hypothesesGraph.insertEnergies()
self.progressVisitor.showState("Structured learning")
self.progressVisitor.showProgress(0)
# crops away everything (arcs and nodes) that doesn't have 'value' set
prunedGraph = hypothesesGraph.pruneGraphToSolution(
distanceToSolution=0
) # width of non-annotated border needed for negative training examples
trackingGraph = prunedGraph.toTrackingGraph()
# trackingGraph.convexifyCosts()
model = trackingGraph.model
model["settings"]["optimizerEpGap"] = 0.005
model["settings"]["allowLengthOneTracks"] = False
gt = prunedGraph.getSolutionDictionary()
initialWeights = trackingGraph.weightsListToDict(
[transitionWeight, detectionWeight, divisionWeight, appearanceWeight, disappearanceWeight]
)
self.LearningHypothesesGraph.setValue(hypothesesGraph)
mht.trainWithWeightInitialization(model, gt, initialWeights)
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
self.progressVisitor.showProgress(1)
if not withBatchProcessing and withDivisions and numAllAnnotatedDivisions == 0 and not weights[2] == 0.0:
gui._informationMessage(
"Divisible objects are checked, but you did not annotate any divisions in your tracking training. "
+ "The resulting division weight might be arbitrarily and if there are divisions present in the dataset, "
+ "they might not be present in the tracking solution."
)
norm = 0
for i in range(len(weights)):
norm += weights[i] * weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(old_div(weights[0], norm))
self.DetectionWeight.setValue(old_div(weights[1], norm))
self.DivisionWeight.setValue(old_div(weights[2], norm))
self.AppearanceWeight.setValue(old_div(weights[3], norm))
self.DisappearanceWeight.setValue(old_div(weights[4], norm))
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(self.DisappearanceWeight.value)
if not withBatchProcessing:
if self.DetectionWeight.value < 0.0:
gui._informationMessage(
"Detection weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. "
+ "Furthermore, you should add more training and recalculate the learning weights in order to improve your tracking solution."
)
elif self.DivisionWeight.value < 0.0:
gui._informationMessage(
"Division weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. "
+ "Furthermore, you should add more division cells to your training and recalculate the learning weights in order to improve your tracking solution."
)
elif self.TransitionWeight.value < 0.0:
gui._informationMessage(
"Transition weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. "
+ "Furthermore, you should add more transitions to your training and recalculate the learning weights in order to improve your tracking solution."
)
elif self.AppearanceWeight.value < 0.0:
gui._informationMessage(
"Appearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. "
+ "Furthermore, you should add more appearances to your training and recalculate the learning weights in order to improve your tracking solution."
)
elif self.DisappearanceWeight.value < 0.0:
gui._informationMessage(
"Disappearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. "
+ "Furthermore, you should add more disappearances to your training and recalculate the learning weights in order to improve your tracking solution."
)
if (
self.DetectionWeight.value < 0.0
or self.DivisionWeight.value < 0.0
or self.TransitionWeight.value < 0.0
or self.AppearanceWeight.value < 0.0
or self.DisappearanceWeight.value < 0.0
):
self.progressVisitor.showProgress(0)
model["settings"]["nonNegativeWeightsOnly"] = True
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
norm = 0
for i in range(len(weights)):
norm += weights[i] * weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(old_div(weights[0], norm))
self.DetectionWeight.setValue(old_div(weights[1], norm))
self.DivisionWeight.setValue(old_div(weights[2], norm))
self.AppearanceWeight.setValue(old_div(weights[3], norm))
self.DisappearanceWeight.setValue(old_div(weights[4], norm))
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(self.DisappearanceWeight.value)
if self.progressWindow is not None:
self.progressWindow.onTrackDone()
logger.info("Structured Learning Tracking Weights (normalized):")
logger.info(" detection weight = {}".format(self.DetectionWeight.value))
logger.info(" division weight = {}".format(self.DivisionWeight.value))
logger.info(" transition weight = {}".format(self.TransitionWeight.value))
logger.info(" appearance weight = {}".format(self.AppearanceWeight.value))
logger.info(" disappearance weight = {}".format(self.DisappearanceWeight.value))
parameters["detWeight"] = self.DetectionWeight.value
parameters["divWeight"] = self.DivisionWeight.value
parameters["transWeight"] = self.TransitionWeight.value
parameters["appearanceCost"] = self.AppearanceWeight.value
parameters["disappearanceCost"] = self.DisappearanceWeight.value
self.Parameters.setValue(parameters)
self.Parameters.setDirty()
return [
self.DetectionWeight.value,
self.DivisionWeight.value,
self.TransitionWeight.value,
self.AppearanceWeight.value,
self.DisappearanceWeight.value,
]
def _runStructuredLearning(self,
z_range,
maxObj,
maxNearestNeighbors,
maxDist,
divThreshold,
scales,
size_range,
withDivisions,
borderAwareWidth,
withClassifierPrior,
withBatchProcessing=False):
if not withBatchProcessing:
gui = self.parent.parent.trackingApplet._gui.currentGui()
emptyAnnotations = False
for crop in self.Annotations.value.keys():
emptyCrop = self.Annotations.value[crop][
"divisions"] == {} and self.Annotations.value[crop][
"labels"] == {}
if emptyCrop and not withBatchProcessing:
gui._criticalMessage("Error: Weights can not be calculated because training annotations for crop {} are missing. ".format(crop) +\
"Go back to Training applet and Save your training for each crop.")
emptyAnnotations = emptyAnnotations or emptyCrop
if emptyAnnotations:
return [
self.DetectionWeight.value, self.DivisionWeight.value,
self.TransitionWeight.value, self.AppearanceWeight.value,
self.DisappearanceWeight.value
]
self._updateCropsFromOperator()
median_obj_size = [0]
from_z = z_range[0]
to_z = z_range[1]
ndim = 3
if (to_z - from_z == 0):
ndim = 2
time_range = [0, self.LabelImage.meta.shape[0] - 1]
x_range = [0, self.LabelImage.meta.shape[1]]
y_range = [0, self.LabelImage.meta.shape[2]]
z_range = [0, self.LabelImage.meta.shape[3]]
parameters = self.Parameters.value
parameters['maxDist'] = maxDist
parameters['maxObj'] = maxObj
parameters['divThreshold'] = divThreshold
parameters['withDivisions'] = withDivisions
parameters['withClassifierPrior'] = withClassifierPrior
parameters['borderAwareWidth'] = borderAwareWidth
parameters['scales'] = scales
parameters['time_range'] = [min(time_range), max(time_range)]
parameters['x_range'] = x_range
parameters['y_range'] = y_range
parameters['z_range'] = z_range
parameters['max_nearest_neighbors'] = maxNearestNeighbors
# Set a size range with a minimum area equal to the max number of objects (since the GMM throws an error if we try to fit more gaussians than the number of pixels in the object)
size_range = (max(maxObj, size_range[0]), size_range[1])
parameters['size_range'] = size_range
self.Parameters.setValue(parameters, check_changed=False)
foundAllArcs = False
new_max_nearest_neighbors = max([maxNearestNeighbors - 1, 1])
maxObjOK = True
parameters['max_nearest_neighbors'] = maxNearestNeighbors
while not foundAllArcs and maxObjOK and new_max_nearest_neighbors < 10:
new_max_nearest_neighbors += 1
logger.info("new_max_nearest_neighbors: {}".format(
new_max_nearest_neighbors))
time_range = range(0, self.LabelImage.meta.shape[0])
parameters['max_nearest_neighbors'] = new_max_nearest_neighbors
self.Parameters.setValue(parameters, check_changed=False)
hypothesesGraph = self._createHypothesesGraph()
if hypothesesGraph.countNodes() == 0:
raise DatasetConstraintError(
'Structured Learning',
'Can not track frames with 0 objects, abort.')
hypothesesGraph.insertEnergies()
# trackingGraph = hypothesesGraph.toTrackingGraph()
# import pprint
# pprint.pprint(trackingGraph.model)
maxDist = 200
sizeDependent = False
divThreshold = float(0.5)
logger.info(
"Structured Learning: Adding Training Annotations to Hypotheses Graph"
)
mergeMsgStr = "Your tracking annotations contradict this model assumptions! All tracks must be continuous, tracks of length one are not allowed, and mergers may merge or split but all tracks in a merger appear/disappear together."
foundAllArcs = True
numAllAnnotatedDivisions = 0
self.features = self.ObjectFeatures(
range(0, self.LabelImage.meta.shape[0])).wait()
for cropKey in self.Crops.value.keys():
if foundAllArcs:
if not cropKey in self.Annotations.value.keys():
if not withBatchProcessing:
gui._criticalMessage("You have not trained or saved your training for " + str(cropKey) + \
". \nGo back to the Training applet and save all your training!")
return [
self.DetectionWeight.value,
self.DivisionWeight.value,
self.TransitionWeight.value,
self.AppearanceWeight.value,
self.DisappearanceWeight.value
]
crop = self.Annotations.value[cropKey]
timeRange = self.Crops.value[cropKey]['time']
if "labels" in crop.keys():
labels = crop["labels"]
for time in labels.keys():
if time in range(timeRange[0], timeRange[1] + 1):
if not foundAllArcs:
break
for label in labels[time].keys():
if not foundAllArcs:
break
trackSet = labels[time][label]
center = self.features[time][
default_features_key]['RegionCenter'][
label]
trackCount = len(trackSet)
if trackCount > maxObj:
logger.info(
"Your track count for object {} in time frame {} is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!"
.format(label, time, trackCount,
trackSet, maxObj))
logger.info(
"Either remove track(s) from this object or train the object count classifier with more labels!"
)
maxObjOK = False
raise DatasetConstraintError('Structured Learning', "Your track count for object "+str(label)+" in time frame " +str(time)+ " equals "+str(trackCount)+"=|"+str(trackSet)+"|," + \
" which is greater than the maximum object number "+str(maxObj)+" defined by object count classifier! " + \
"Either remove track(s) from this object or train the object count classifier with more labels!")
for track in trackSet:
if not foundAllArcs:
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors!"
)
break
# is this a FIRST, INTERMEDIATE, LAST, SINGLETON(FIRST_LAST) object of a track (or FALSE_DETECTION)
type = self._type(
cropKey, time, track
) # returns [type, previous_label] if type=="LAST" or "INTERMEDIATE" (else [type])
if type == None:
raise DatasetConstraintError(
'Structured Learning',
mergeMsgStr)
elif type[0] in [
"LAST", "INTERMEDIATE",
"SINGLETON(FIRST_LAST)"
]:
if type[0] == "SINGLETON(FIRST_LAST)":
trackCountIntersection = len(
trackSet)
else:
previous_label = int(type[1])
previousTrackSet = labels[
time - 1][previous_label]
intersectionSet = trackSet.intersection(
previousTrackSet)
trackCountIntersection = len(
intersectionSet)
print "trackCountIntersection", trackCountIntersection
if trackCountIntersection > maxObj:
logger.info(
"Your track count for transition ( {},{} ) ---> ( {},{} ) is {} =| {} |, which is greater than maximum object number {} defined by object count classifier!"
.format(
previous_label,
time - 1, label, time,
trackCountIntersection,
intersectionSet,
maxObj))
logger.info(
"Either remove track(s) from these objects or train the object count classifier with more labels!"
)
maxObjOK = False
raise DatasetConstraintError('Structured Learning', "Your track count for transition ("+str(previous_label)+","+str(time-1)+") ---> ("+str(label)+","+str(time)+") is "+str(trackCountIntersection)+"=|"+str(intersectionSet)+"|, " + \
"which is greater than maximum object number "+str(maxObj)+" defined by object count classifier!" + \
"Either remove track(s) from these objects or train the object count classifier with more labels!")
sink = (time, int(label))
foundAllArcs = False
for edge in hypothesesGraph._graph.in_edges(
sink
): # an edge is a tuple of source and target nodes
logger.info(
"Looking at in edge {} of node {}, searching for ({},{})"
.format(
edge, sink, time - 1,
previous_label))
if edge[0][
0] == time - 1 and edge[
0][1] == int(
previous_label
): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edge[
edge[0]][edge[1]][
'value'] = int(
trackCountIntersection
)
print "[structuredTrackingGui] EDGE: ({},{})--->({},{})".format(
time - 1,
int(previous_label),
time, int(label))
break
if not foundAllArcs:
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS {} {}"
.format(
time - 1,
int(previous_label)))
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors! LABELS/MERGERS {} {}"
.format(time, int(label)))
break
if type == None:
raise DatasetConstraintError(
'Structured Learning', mergeMsgStr)
elif type[0] in [
"FIRST", "LAST", "INTERMEDIATE",
"SINGLETON(FIRST_LAST)"
]:
if (
time, int(label)
) in hypothesesGraph._graph.node.keys(
):
hypothesesGraph._graph.node[(
time, int(label)
)]['value'] = trackCount
logger.info(
"[structuredTrackingGui] NODE: {} {}"
.format(time, int(label)))
print "[structuredTrackingGui] NODE: {} {} {}".format(
time, int(label),
int(trackCount))
else:
logger.info(
"[structuredTrackingGui] NODE: {} {} NOT found"
.format(time, int(label)))
foundAllArcs = False
break
if foundAllArcs and "divisions" in crop.keys():
divisions = crop["divisions"]
numAllAnnotatedDivisions = numAllAnnotatedDivisions + len(
divisions)
for track in divisions.keys():
if not foundAllArcs:
break
division = divisions[track]
time = int(division[1])
parent = int(
self.getLabelInCrop(cropKey, time, track))
if parent >= 0:
children = [
int(
self.getLabelInCrop(
cropKey, time + 1, division[0][i]))
for i in [0, 1]
]
parentNode = (time, parent)
hypothesesGraph._graph.node[parentNode][
'divisionValue'] = 1
foundAllArcs = False
for child in children:
for edge in hypothesesGraph._graph.out_edges(
parentNode
): # an edge is a tuple of source and target nodes
if edge[1][0] == time + 1 and edge[1][
1] == int(
child
): # every node 'id' is a tuple (timestep, label), so we need the in-edge coming from previous_label
foundAllArcs = True
hypothesesGraph._graph.edge[
edge[0]][edge[1]]['value'] = 1
break
if not foundAllArcs:
break
if not foundAllArcs:
logger.info(
"[structuredTrackingGui] Increasing max nearest neighbors! DIVISION {} {}"
.format(time, parent))
break
logger.info(
"max nearest neighbors= {}".format(new_max_nearest_neighbors))
if new_max_nearest_neighbors > maxNearestNeighbors:
maxNearestNeighbors = new_max_nearest_neighbors
parameters['maxNearestNeighbors'] = maxNearestNeighbors
if not withBatchProcessing:
gui._drawer.maxNearestNeighborsSpinBox.setValue(
maxNearestNeighbors)
detectionWeight = self.DetectionWeight.value
divisionWeight = self.DivisionWeight.value
transitionWeight = self.TransitionWeight.value
disappearanceWeight = self.DisappearanceWeight.value
appearanceWeight = self.AppearanceWeight.value
if not foundAllArcs:
logger.info(
"[structuredTracking] Increasing max nearest neighbors did not result in finding all training arcs!"
)
return [
transitionWeight, detectionWeight, divisionWeight,
appearanceWeight, disappearanceWeight
]
hypothesesGraph.insertEnergies()
# crops away everything (arcs and nodes) that doesn't have 'value' set
prunedGraph = hypothesesGraph.pruneGraphToSolution(
distanceToSolution=0
) # width of non-annotated border needed for negative training examples
trackingGraph = prunedGraph.toTrackingGraph()
# trackingGraph.convexifyCosts()
model = trackingGraph.model
model['settings']['optimizerEpGap'] = 0.005
gt = prunedGraph.getSolutionDictionary()
initialWeights = trackingGraph.weightsListToDict([
transitionWeight, detectionWeight, divisionWeight,
appearanceWeight, disappearanceWeight
])
mht.trainWithWeightInitialization(model, gt, initialWeights)
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
if not withBatchProcessing and withDivisions and numAllAnnotatedDivisions == 0 and not weights[
2] == 0.0:
gui._informationMessage("Divisible objects are checked, but you did not annotate any divisions in your tracking training. " + \
"The resulting division weight might be arbitrarily and if there are divisions present in the dataset, " +\
"they might not be present in the tracking solution.")
norm = 0
for i in range(len(weights)):
norm += weights[i] * weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(weights[0] / norm)
self.DetectionWeight.setValue(weights[1] / norm)
self.DivisionWeight.setValue(weights[2] / norm)
self.AppearanceWeight.setValue(weights[3] / norm)
self.DisappearanceWeight.setValue(weights[4] / norm)
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(
self.DisappearanceWeight.value)
if not withBatchProcessing:
if self.DetectionWeight.value < 0.0:
gui._informationMessage ("Detection weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more training and recalculate the learning weights in order to improve your tracking solution.")
elif self.DivisionWeight.value < 0.0:
gui._informationMessage ("Division weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more division cells to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.TransitionWeight.value < 0.0:
gui._informationMessage ("Transition weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more transitions to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.AppearanceWeight.value < 0.0:
gui._informationMessage ("Appearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more appearances to your training and recalculate the learning weights in order to improve your tracking solution.")
elif self.DisappearanceWeight.value < 0.0:
gui._informationMessage ("Disappearance weight calculated was negative. Tracking solution will be re-calculated with non-negativity constraints for learning weights. " + \
"Furthermore, you should add more disappearances to your training and recalculate the learning weights in order to improve your tracking solution.")
if self.DetectionWeight.value < 0.0 or self.DivisionWeight.value < 0.0 or self.TransitionWeight.value < 0.0 or \
self.AppearanceWeight.value < 0.0 or self.DisappearanceWeight.value < 0.0:
model['settings']['nonNegativeWeightsOnly'] = True
weightsDict = mht.train(model, gt)
weights = trackingGraph.weightsDictToList(weightsDict)
norm = 0
for i in range(len(weights)):
norm += weights[i] * weights[i]
norm = math.sqrt(norm)
if norm > 0.0000001:
self.TransitionWeight.setValue(weights[0] / norm)
self.DetectionWeight.setValue(weights[1] / norm)
self.DivisionWeight.setValue(weights[2] / norm)
self.AppearanceWeight.setValue(weights[3] / norm)
self.DisappearanceWeight.setValue(weights[4] / norm)
if not withBatchProcessing:
gui._drawer.detWeightBox.setValue(self.DetectionWeight.value)
gui._drawer.divWeightBox.setValue(self.DivisionWeight.value)
gui._drawer.transWeightBox.setValue(
self.TransitionWeight.value)
gui._drawer.appearanceBox.setValue(self.AppearanceWeight.value)
gui._drawer.disappearanceBox.setValue(
self.DisappearanceWeight.value)
logger.info("Structured Learning Tracking Weights (normalized):")
logger.info(" detection weight = {}".format(
self.DetectionWeight.value))
logger.info(" division weight = {}".format(
self.DivisionWeight.value))
logger.info(" transition weight = {}".format(
self.TransitionWeight.value))
logger.info(" appearance weight = {}".format(
self.AppearanceWeight.value))
logger.info(" disappearance weight = {}".format(
self.DisappearanceWeight.value))
parameters['detWeight'] = self.DetectionWeight.value
parameters['divWeight'] = self.DivisionWeight.value
parameters['transWeight'] = self.TransitionWeight.value
parameters['appearanceCost'] = self.AppearanceWeight.value
parameters['disappearanceCost'] = self.DisappearanceWeight.value
self.Parameters.setValue(parameters)
return [
self.DetectionWeight.value, self.DivisionWeight.value,
self.TransitionWeight.value, self.AppearanceWeight.value,
self.DisappearanceWeight.value
]