def OpenBitmapFiles(self, bmp_data, rec_data):
name = rec_data[0]
orientation = rec_data[1]
sp_x = float(rec_data[2])
sp_y = float(rec_data[3])
sp_z = float(rec_data[4])
interval = int(rec_data[5])
interval += 1
filelist = bmp_data.GetOnlyBitmapPath()[::interval]
bits = bmp_data.GetFirstPixelSize()
sx, sy = size = bmp_data.GetFirstBitmapSize()
n_slices = len(filelist)
resolution_percentage = utils.calculate_resizing_tofitmemory(
int(sx), int(sy), n_slices, bits / 8)
zspacing = sp_z * interval
xyspacing = (sp_y, sp_x)
if resolution_percentage < 1.0:
re_dialog = dialog.ResizeImageDialog()
re_dialog.SetValue(int(resolution_percentage * 100))
re_dialog_value = re_dialog.ShowModal()
re_dialog.Close()
if re_dialog_value == wx.ID_OK:
percentage = re_dialog.GetValue()
resolution_percentage = percentage / 100.0
else:
return
xyspacing = xyspacing[0] / resolution_percentage, xyspacing[
1] / resolution_percentage
self.matrix, scalar_range, self.filename = image_utils.bitmap2memmap(
filelist, size, orientation, (sp_z, sp_y, sp_x),
resolution_percentage)
self.Slice = sl.Slice()
self.Slice.matrix = self.matrix
self.Slice.matrix_filename = self.filename
if orientation == 'AXIAL':
self.Slice.spacing = xyspacing[0], xyspacing[1], zspacing
elif orientation == 'CORONAL':
self.Slice.spacing = xyspacing[0], zspacing, xyspacing[1]
elif orientation == 'SAGITTAL':
self.Slice.spacing = zspacing, xyspacing[1], xyspacing[0]
self.Slice.window_level = float(self.matrix.max() / 4)
self.Slice.window_width = float(self.matrix.max())
scalar_range = int(self.matrix.min()), int(self.matrix.max())
Publisher.sendMessage('Update threshold limits list',
threshold_range=scalar_range)
return self.matrix, self.filename #, dicom
def OpenBitmapFiles(self, bmp_data, rec_data):
name = rec_data[0]
orientation = rec_data[1]
sp_x = float(rec_data[2])
sp_y = float(rec_data[3])
sp_z = float(rec_data[4])
interval = int(rec_data[5])
interval += 1
filelist = bmp_data.GetOnlyBitmapPath()[::interval]
bits = bmp_data.GetFirstPixelSize()
sx, sy = size = bmp_data.GetFirstBitmapSize()
n_slices = len(filelist)
resolution_percentage = utils.calculate_resizing_tofitmemory(int(sx), int(sy), n_slices, bits/8)
zspacing = sp_z * interval
xyspacing = (sp_y, sp_x)
if resolution_percentage < 1.0:
re_dialog = dialog.ResizeImageDialog()
re_dialog.SetValue(int(resolution_percentage*100))
re_dialog_value = re_dialog.ShowModal()
re_dialog.Close()
if re_dialog_value == wx.ID_OK:
percentage = re_dialog.GetValue()
resolution_percentage = percentage / 100.0
else:
return
xyspacing = xyspacing[0] / resolution_percentage, xyspacing[1] / resolution_percentage
self.matrix, scalar_range, self.filename = image_utils.bitmap2memmap(filelist, size,
orientation, (sp_z, sp_y, sp_x),resolution_percentage)
self.Slice = sl.Slice()
self.Slice.matrix = self.matrix
self.Slice.matrix_filename = self.filename
if orientation == 'AXIAL':
self.Slice.spacing = xyspacing[0], xyspacing[1], zspacing
elif orientation == 'CORONAL':
self.Slice.spacing = xyspacing[0], zspacing, xyspacing[1]
elif orientation == 'SAGITTAL':
self.Slice.spacing = zspacing, xyspacing[1], xyspacing[0]
self.Slice.window_level = float(self.matrix.max()/4)
self.Slice.window_width = float(self.matrix.max())
scalar_range = int(self.matrix.min()), int(self.matrix.max())
Publisher.sendMessage('Update threshold limits list',
threshold_range=scalar_range)
return self.matrix, self.filename#, dicom
def OpenDicomGroup(self, dicom_group, interval, file_range, gui=True):
# Retrieve general DICOM headers
dicom = dicom_group.GetDicomSample()
# Create imagedata
interval += 1
filelist = dicom_group.GetFilenameList()[::interval]
if not filelist:
utils.debug("Not used the IPPSorter")
filelist = [
i.image.file
for i in dicom_group.GetHandSortedList()[::interval]
]
if file_range is not None and file_range[
0] is not None and file_range[1] > file_range[0]:
filelist = filelist[file_range[0]:file_range[1] + 1]
zspacing = dicom_group.zspacing * interval
size = dicom.image.size
bits = dicom.image.bits_allocad
sop_class_uid = dicom.acquisition.sop_class_uid
xyspacing = dicom.image.spacing
orientation = dicom.image.orientation_label
wl = float(dicom.image.level)
ww = float(dicom.image.window)
if sop_class_uid == '1.2.840.10008.5.1.4.1.1.7': #Secondary Capture Image Storage
use_dcmspacing = 1
else:
use_dcmspacing = 0
imagedata = None
if dicom.image.number_of_frames == 1:
sx, sy = size
n_slices = len(filelist)
resolution_percentage = utils.calculate_resizing_tofitmemory(
int(sx), int(sy), n_slices, bits / 8)
if resolution_percentage < 1.0 and gui:
re_dialog = dialog.ResizeImageDialog()
re_dialog.SetValue(int(resolution_percentage * 100))
re_dialog_value = re_dialog.ShowModal()
re_dialog.Close()
if re_dialog_value == wx.ID_OK:
percentage = re_dialog.GetValue()
resolution_percentage = percentage / 100.0
else:
return
xyspacing = xyspacing[0] / resolution_percentage, xyspacing[
1] / resolution_percentage
self.matrix, scalar_range, self.filename = image_utils.dcm2memmap(
filelist, size, orientation, resolution_percentage)
if orientation == 'AXIAL':
spacing = xyspacing[0], xyspacing[1], zspacing
elif orientation == 'CORONAL':
spacing = xyspacing[0], zspacing, xyspacing[1]
elif orientation == 'SAGITTAL':
spacing = zspacing, xyspacing[1], xyspacing[0]
else:
print(">>>>>> filelist", filelist)
self.matrix, scalar_range, spacing, self.filename = image_utils.dcmmf2memmap(
filelist[0], orientation)
print(">>>>>> spacing", spacing)
self.Slice = sl.Slice()
self.Slice.matrix = self.matrix
self.Slice.matrix_filename = self.filename
self.Slice.spacing = spacing
# 1(a): Fix gantry tilt, if any
tilt_value = dicom.acquisition.tilt
if (tilt_value) and (gui):
# Tell user gantry tilt and fix, according to answer
message = _("Fix gantry tilt applying the degrees below")
value = -1 * tilt_value
tilt_value = dialog.ShowNumberDialog(message, value)
image_utils.FixGantryTilt(self.matrix, self.Slice.spacing,
tilt_value)
elif (tilt_value) and not (gui):
tilt_value = -1 * tilt_value
image_utils.FixGantryTilt(self.matrix, self.Slice.spacing,
tilt_value)
self.Slice.window_level = wl
self.Slice.window_width = ww
scalar_range = int(self.matrix.min()), int(self.matrix.max())
Publisher.sendMessage('Update threshold limits list',
threshold_range=scalar_range)
return self.matrix, self.filename, dicom
def OpenDicomGroup(self, dicom_group, interval, file_range, gui=True):
# Retrieve general DICOM headers
dicom = dicom_group.GetDicomSample()
# Create imagedata
interval += 1
filelist = dicom_group.GetFilenameList()[::interval]
if not filelist:
utils.debug("Not used the IPPSorter")
filelist = [i.image.file for i in dicom_group.GetHandSortedList()[::interval]]
if file_range is not None and file_range[0] is not None and file_range[1] > file_range[0]:
filelist = filelist[file_range[0]:file_range[1] + 1]
zspacing = dicom_group.zspacing * interval
size = dicom.image.size
bits = dicom.image.bits_allocad
sop_class_uid = dicom.acquisition.sop_class_uid
xyspacing = dicom.image.spacing
orientation = dicom.image.orientation_label
wl = float(dicom.image.level)
ww = float(dicom.image.window)
if sop_class_uid == '1.2.840.10008.5.1.4.1.1.7': #Secondary Capture Image Storage
use_dcmspacing = 1
else:
use_dcmspacing = 0
imagedata = None
if dicom.image.number_of_frames == 1:
sx, sy = size
n_slices = len(filelist)
resolution_percentage = utils.calculate_resizing_tofitmemory(int(sx), int(sy), n_slices, bits/8)
if resolution_percentage < 1.0 and gui:
re_dialog = dialog.ResizeImageDialog()
re_dialog.SetValue(int(resolution_percentage*100))
re_dialog_value = re_dialog.ShowModal()
re_dialog.Close()
if re_dialog_value == wx.ID_OK:
percentage = re_dialog.GetValue()
resolution_percentage = percentage / 100.0
else:
return
xyspacing = xyspacing[0] / resolution_percentage, xyspacing[1] / resolution_percentage
self.matrix, scalar_range, self.filename = image_utils.dcm2memmap(filelist, size,
orientation, resolution_percentage)
print(xyspacing, zspacing)
if orientation == 'AXIAL':
spacing = xyspacing[0], xyspacing[1], zspacing
elif orientation == 'CORONAL':
spacing = xyspacing[0], zspacing, xyspacing[1]
elif orientation == 'SAGITTAL':
spacing = zspacing, xyspacing[1], xyspacing[0]
else:
self.matrix, spacing, scalar_range, self.filename = image_utils.dcmmf2memmap(filelist[0], orientation)
self.Slice = sl.Slice()
self.Slice.matrix = self.matrix
self.Slice.matrix_filename = self.filename
self.Slice.spacing = spacing
# 1(a): Fix gantry tilt, if any
tilt_value = dicom.acquisition.tilt
if (tilt_value) and (gui):
# Tell user gantry tilt and fix, according to answer
message = _("Fix gantry tilt applying the degrees below")
value = -1*tilt_value
tilt_value = dialog.ShowNumberDialog(message, value)
image_utils.FixGantryTilt(self.matrix, self.Slice.spacing, tilt_value)
elif (tilt_value) and not (gui):
tilt_value = -1*tilt_value
image_utils.FixGantryTilt(self.matrix, self.Slice.spacing, tilt_value)
self.Slice.window_level = wl
self.Slice.window_width = ww
scalar_range = int(self.matrix.min()), int(self.matrix.max())
Publisher.sendMessage('Update threshold limits list',
threshold_range=scalar_range)
return self.matrix, self.filename, dicom