def get_distances_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride', 'max_simplices', 'persistence_degree',
'kernel_scale', 'persistence_epsilon']
if config.post_process != None :
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'ScaleSpaceSimilarities', gz)
def get_kernel_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'kernel_gamma'
]
if config.post_process != None:
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'RBFKernel', gz)
def get_distances_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride', 'max_simplices',
'persistence_degree', 'kernel_scale', 'persistence_epsilon'
]
if config.post_process != None:
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'ScaleSpaceSimilarities', gz)
def get_learning_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride', 'learning_C', 'invariant_epsilon'
]
if config.post_process != None:
fields.extend(['post_process', 'post_process_arg'])
return get_filename(
config, fields,
(config.status +
'Learning') if config.status != None else 'FeatureLearning', gz)
def get_learning_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride'
]
if config.post_process != None:
fields.extend(['post_process', 'post_process_arg'])
if config.status == 'LandscapeDistances':
fields.append('max_simplices')
elif config.status == 'ScaleSpaceSimilarity':
fields.append('max_simplices')
fields.append('kernel_scale')
return get_filename(
config, fields,
(config.status +
'Learning') if config.status != None else 'DistanceLearning', gz)
def get_learning_filename(config, gz=True) :
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'window_size', 'window_stride', 'learning_C', 'invariant_epsilon']
if config.post_process != None :
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, (config.status + 'Learning') if config.status != None else 'FeatureLearning', gz)
def get_segment_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'window_size', 'window_stride']
return get_filename(config, fields, 'WalkingSegments', gz)
parser.add_argument("--infile", "-i", nargs="+")
parser.add_argument("--outfile", "-o")
parser.add_argument("--ratio", "-r", type=float, default=0.5)
parser.add_argument("--pool", "-p")
args = parser.parse_args(sys.argv[1:])
kernels_json = [
load_data(infile, 'kernel', None, None, sys.argv[0] + ": ")
for infile in args.infile
]
kernels = [
Kernel.fromJSONDict(kernel_json) for kernel_json in kernels_json
]
if len(kernels) == 2:
weights = [args.ratio, 1.0 - args.ratio]
else:
weights = None
average_kernel = AverageKernel(kernels, weights)
if args.outfile == None:
args.outfile = get_filename(average_kernel.config, [
'max_simplices', 'persistence_epsilon', 'segment_filename',
'segment_stride', 'segment_size', 'window_size', 'window_stride',
'kernel_scale', 'kernel_gamma', 'invariant_epsilon', 'data_file',
'data_index', 'label_index', 'persistence_degree', 'data_type',
'post_process', 'post_process_arg'
], "AverageKernel")
print "Writing %s" % (args.outfile, )
save_data(args.outfile, average_kernel.toJSONDict())
kernel_matrix = [[numpy.average([k.kernel_matrix[i][j] for k in kernels]) for i in range(kernel_dimension)] for j in range(kernel_dimension)]
return Kernel(config, kernel_matrix, segment_info)
if __name__ == "__main__" :
parser = argparse.ArgumentParser(description="Tool to take multiple Kernels and average them")
parser.add_argument("--infile", "-i", nargs="+")
parser.add_argument("--outfile", "-o")
parser.add_argument("--ratio", "-r", type=float, default=0.5)
parser.add_argument("--pool", "-p")
args = parser.parse_args(sys.argv[1:])
kernels_json = [load_data(infile, 'kernel', None, None, sys.argv[0]+": ") for infile in args.infile]
kernels = [Kernel.fromJSONDict(kernel_json) for kernel_json in kernels_json]
if len(kernels) == 2 :
weights = [args.ratio, 1.0 - args.ratio]
else :
weights = None
average_kernel = AverageKernel(kernels, weights)
if args.outfile == None :
args.outfile = get_filename(average_kernel.config,
['max_simplices', 'persistence_epsilon',
'segment_filename', 'segment_stride', 'segment_size',
'window_size', 'window_stride',
'kernel_scale', 'kernel_gamma', 'invariant_epsilon',
'data_file', 'data_index', 'label_index', 'persistence_degree',
'data_type', 'post_process', 'post_process_arg'], "AverageKernel")
print "Writing %s" % (args.outfile,)
save_data(args.outfile, average_kernel.toJSONDict())
def get_segment_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride'
]
return get_filename(config, fields, 'KitchenMocapSegments', False)
def get_segment_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride'
]
return get_filename(config, fields, 'NormalizePost', gz)
def get_segment_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size',
'segment_stride', 'window_size', 'window_stride']
return get_filename(config, fields, 'NormalizePost', gz)
def get_distances_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'window_size', 'window_stride']
if config.post_process != None :
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'EuclideanDistances', gz)
def get_features_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'window_size', 'window_stride', 'invariant_epsilon']
if config.post_process != None :
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'ChaoticInvariantFeatures', gz)
def get_segment_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride'
]
return get_filename(config, fields, 'PAMAPSegments', gz)
def get_distances_filename(config, gz=True):
fields = [
'data_file', 'data_index', 'segment_size', 'segment_stride',
'window_size', 'window_stride', 'max_simplices'
]
return get_filename(config, fields, 'BottleneckDistances', gz)
def get_distances_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'window_size', 'window_stride', 'max_simplices']
return get_filename(config, fields, 'WassersteinDistances', gz)
def get_kernel_filename(config, gz=True):
fields = ['data_file', 'data_index', 'segment_size', 'segment_stride', 'kernel_gamma']
if config.post_process != None :
fields.extend(['post_process', 'post_process_arg'])
return get_filename(config, fields, 'RBFKernel', gz)