def _make_landmark_transform_cmd(self, landmarks_in, landmarks_out,
transform_path):
st.check_exists(landmarks_in, "Landmarks")
dim_str = " -dim %d" % (self.dim)
cmd = self.bin_path + "ACTransformLandmarks" + exe_extension
st.check_exists(cmd, "Executable")
cmd = cmd + " -in " + landmarks_in + " -out " + landmarks_out + " -transform " + transform_path + dim_str
return cmd
def _make_random_transforms_cmd(self,
in_path,
out_path,
count,
param=None):
if param is None:
param = self.get_random_transforms_param_defaults()
st.check_exists(in_path, "Input")
dim_str = " -dim %d" % (self.dim)
count_str = " -count %d" % (count)
cmd = self.bin_path + "ACRandomTransforms" + exe_extension
cmd = cmd + " -in " + in_path + " -out " + out_path + dim_str + count_str + st.param_dict_to_string(
param)
return cmd
def _make_register_cmd(self,
ref_im_path,
flo_im_path,
out_path,
is_rigid,
param=None):
if param is None:
print("Using default param.")
param = self.get_register_param_defaults()
st.check_exists(ref_im_path, "Reference")
st.check_exists(ref_im_path, "Floating")
if self.dim == 2:
three_d_str = " -3d 0"
else:
three_d_str = " -3d 1"
if is_rigid:
rigid_str = " -rigid 1"
else:
rigid_str = " -rigid 0"
cmd = self.bin_path + "ACRegister" + exe_extension
st.check_exists(cmd, "Executable")
cmd = cmd + " -in1 " + ref_im_path + " -in2 " + flo_im_path + " -out " + out_path + rigid_str + three_d_str + st.param_dict_to_string(
param)
return cmd
def _make_label_overlap_cmd(self,
ref_im_path,
transformed_im_path,
out_path,
param=None):
if param is None:
param = self.get_label_overlap_param_defaults()
st.check_exists(ref_im_path, "Reference")
st.check_exists(transformed_im_path, "Transformed")
dim_str = " -dim %d" % (self.dim)
cmd = self.bin_path + "ACLabelOverlap" + exe_extension
st.check_exists(cmd, "Executable")
cmd = cmd + " -in1 " + ref_im_path + " -in2 " + transformed_im_path + " -out " + out_path + dim_str + st.param_dict_to_string(
param)
return cmd
def _make_transform_cmd(self,
ref_im_path,
flo_im_path,
out_path,
transform_path,
param=None):
if param is None:
param = self.get_transform_param_defaults()
st.check_exists(ref_im_path, "Reference")
st.check_exists(flo_im_path, "Floating")
dim_str = " -dim %d" % (self.dim)
cmd = self.bin_path + "ACTransform" + exe_extension
st.check_exists(cmd, "Executable")
cmd = cmd + " -ref " + ref_im_path + " -in " + flo_im_path + " -out " + out_path + " -transform " + transform_path + dim_str + st.param_dict_to_string(
param)
return cmd