def avemlist(input_filename, output_filename):
argc = 3
argv = (ctypes.c_char_p * argc)()
argv[:] = [asciiString(elt) for elt in ["avemlist",
input_filename,
output_filename]]
c_avemlist.avemlist(argc, argv)
def applyDriftCorrection(mlist_filename, drift_filename):
argc = 3
argv = (ctypes.c_char_p * argc)()
argv[:] = [asciiString(elt) for elt in ["apply-drift-correction",
mlist_filename,
drift_filename]]
adc.applyDriftCorrection(argc, argv)
def fitz(i3_filename, cutoff, wx_params, wy_params, z_min, z_max, z_step=1.0):
"""
This expects all z related parameters to be in nanometers.
"""
c_fitz.fitz(asciiString(i3_filename), numpy.ascontiguousarray(wx_params),
numpy.ascontiguousarray(wy_params), cutoff, z_min, z_max,
z_step)
def applyDriftCorrection(mlist_filename, drift_filename):
argc = 3
argv = (ctypes.c_char_p * argc)()
argv[:] = [
asciiString(elt)
for elt in ["apply-drift-correction", mlist_filename, drift_filename]
]
adc.applyDriftCorrection(argc, argv)
def avemlist(input_filename, output_filename):
argc = 3
argv = (ctypes.c_char_p * argc)()
argv[:] = [
asciiString(elt)
for elt in ["avemlist", input_filename, output_filename]
]
c_avemlist.avemlist(argc, argv)
def tracker(mlist_filename, descriptor, radius, zmin, zmax, save_track_id = 0):
argc = 7
argv = (ctypes.c_char_p * argc)()
argv[:] = [asciiString(elt) for elt in ["tracker",
mlist_filename,
descriptor,
radius,
zmin,
zmax,
save_track_id]]
c_tracker.tracker(argc, argv)
def fitz(i3_filename, cutoff, wx_params, wy_params, z_min, z_max, z_step = 1.0):
"""
This expects all z related parameters to be in nanometers.
"""
c_fitz.fitz(asciiString(i3_filename),
numpy.ascontiguousarray(wx_params),
numpy.ascontiguousarray(wy_params),
cutoff,
z_min,
z_max,
z_step)
def avemlist(input_filename, output_filename):
# Load input file meta data (if any).
meta_data = readinsight3.loadI3Metadata(input_filename)
argc = 3
argv = (ctypes.c_char_p * argc)()
argv[:] = [
asciiString(elt)
for elt in ["avemlist", input_filename, output_filename]
]
c_avemlist.avemlist(argc, argv)
# Add the same meta data to the output file.
if meta_data is not None:
with open(output_filename, 'ab') as fp:
fp.write(ElementTree.tostring(meta_data, 'ISO-8859-1'))