def get_data(self):
prefix = self.get_prefix()
if prefix:
self.import_file = prefix
else:
self.import_file = self.get_directory()
filenames = self.get_files()
v0 = self.read_image(filenames[0])
x = NXfield(range(v0.shape[1]), dtype=np.uint16, name='x')
y = NXfield(range(v0.shape[0]), dtype=np.uint16, name='y')
z = NXfield(range(1, len(filenames) + 1), dtype=np.uint16, name='z')
v = NXfield(shape=(len(filenames), v0.shape[0], v0.shape[1]),
dtype=v0.dtype,
name='v')
v[0] = v0
if v._memfile:
chunk_size = v._memfile['data'].chunks[0]
else:
chunk_size = v.shape[0] / 10
self.progress_bar.setVisible(True)
self.progress_bar.setRange(0, len(filenames))
for i in range(0, len(filenames)):
try:
files = []
for j in range(i, i + chunk_size):
files.append(filenames[j])
self.progress_bar.setValue(j)
self.update_progress()
v[i:i + chunk_size, :, :] = self.read_images(files)
except IndexError as error:
pass
global maximum
v.maximum = maximum
return NXentry(NXdata(v, (z, y, x)))
def get_data(self):
prefix = self.get_prefix()
if prefix:
self.import_file = prefix
else:
self.import_file = self.get_directory()
filenames = self.get_files()
v0 = self.read_image(filenames[0])
x = NXfield(range(v0.shape[1]), dtype=np.uint16, name='x')
y = NXfield(range(v0.shape[0]), dtype=np.uint16, name='y')
z = NXfield(range(1,len(filenames)+1), dtype=np.uint16, name='z')
v = NXfield(shape=(len(filenames),v0.shape[0],v0.shape[1]),
dtype=v0.dtype, name='v')
v[0] = v0
if v._memfile:
chunk_size = v._memfile['data'].chunks[0]
else:
chunk_size = v.shape[0]/10
self.progress_bar.setVisible(True)
self.progress_bar.setRange(0, len(filenames))
for i in range(0, len(filenames)):
try:
files = []
for j in range(i,i+chunk_size):
files.append(filenames[j])
self.progress_bar.setValue(j)
self.update_progress()
v[i:i+chunk_size,:,:] = self.read_images(files)
except IndexError as error:
pass
global maximum
v.maximum = maximum
return NXentry(NXdata(v,(z,y,x)))
def get_data(self):
prefix = self.get_prefix()
if prefix:
self.import_file = prefix
else:
self.import_file = self.get_directory()
filenames = self.get_files()
try:
import fabio
except ImportError:
raise NeXusError("Please install the 'fabio' module")
im = self.read_image(filenames[0])
v0 = im.data
x = NXfield(range(v0.shape[1]), dtype=np.uint16, name='x')
y = NXfield(range(v0.shape[0]), dtype=np.uint16, name='y')
z = NXfield(range(1, len(filenames)+1), dtype=np.uint16, name='z')
v = NXfield(shape=(len(filenames), v0.shape[0], v0.shape[1]),
dtype=v0.dtype, name='v')
v[0] = v0
if v._memfile:
chunk_size = v._memfile['data'].chunks[0]
else:
chunk_size = v.shape[0]/10
self.progress_bar.setVisible(True)
self.progress_bar.setRange(0, len(filenames))
for i in range(0, len(filenames), chunk_size):
try:
files = []
for j in range(i, i+chunk_size):
files.append(filenames[j])
self.progress_bar.setValue(j)
self.update_progress()
v[i:i+chunk_size, :, :] = self.read_images(files)
except IndexError as error:
pass
global maximum
v.maximum = maximum
if im.getclassname() == 'CbfImage':
note = NXnote(type='text/plain', file_name=self.import_file)
note.data = im.header.pop('_array_data.header_contents', '')
note.description = im.header.pop(
'_array_data.header_convention', '')
else:
note = None
header = NXcollection()
for key, value in im.header.items():
header[key] = value
if note:
return NXentry(
NXdata(
v, (z, y, x),
CBF_header=note, header=header))
else:
return NXentry(NXdata(v, (z, y, x), header=header))