code stringlengths 3 6.57k |
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warp.detach() |
numpy() |
np.moveaxis(warp, 1, -1) |
RegularGridInterpolator((x, y) |
RegularGridInterpolator((x, y) |
nib.freesurfer.read_geometry(lh_sphere) |
cartesian_to_spherical(coords[:, 0], coords[:, 1], coords[:, 2]) |
math.degrees(2 * np.pi) |
math.degrees(np.pi) |
t.reshape(-1, 1) |
p.reshape(-1, 1) |
np.concatenate((p, t) |
interpolate_function_x(pts) |
interpolate_function_y(pts) |
np.clip(y_prime, 0, 360) |
np.clip(x_prime, -90, 90) |
math.radians(i) |
math.radians(i) |
np.array(t_prime) |
np.array(p_prime) |
nib.freesurfer.read_morph_data(lh_sulc_sub) |
nib.freesurfer.read_morph_data(lh_sulc_atlas) |
nib.freesurfer.read_geometry(lh_sphere_sub) |
cartesian_to_spherical(coords_sub[:, 0], coords_sub[:, 1], coords_sub[:, 2]) |
nib.freesurfer.read_geometry(lh_sphere_atlas) |
cartesian_to_spherical(coords_atlas[:, 0], coords_atlas[:, 1], coords_atlas[:, 2]) |
nib.freesurfer.read_geometry(lh_sphere_freesurfer) |
plt.figure(figsize=(14, 7) |
fig.add_subplot(141) |
plt.title('Moving') |
fig.add_subplot(142) |
ax.scatter(phi_atlas.degree, theta_atlas.degree, s=0.1, c=lh_morph_sulc_atlas) |
plt.title('Fixed') |
fig.add_subplot(143) |
math.degrees(p) |
math.degrees(t) |
ax.scatter(phi_prime, thtea_prime, s=0.1, c=lh_morph_sulc_sub) |
plt.title('Moved') |
fig.add_subplot(144) |
ax.scatter(phi_reg.degree, theta_reg.degree, s=0.1, c=lh_morph_sulc_sub) |
plt.title('Moved FreeSurfer') |
plt.savefig(imagesavefilename) |
xyz2degree(lh_sphere, lh_sulc) |
return (x, y, z) |
nib.freesurfer.read_geometry(lh_sphere) |
cartesian_to_spherical(coords[:, 0], coords[:, 1], coords[:, 2]) |
to (512, 256) |
math.degrees(2 * np.pi) |
math.degrees(np.pi) |
np.clip(ys, 0, 511) |
np.clip(xs, 0, 255) |
nib.freesurfer.read_morph_data(lh_sulc) |
xs.astype(np.int32) |
ys.astype(np.int32) |
np.zeros((512, 256) |
xyz2degree2(phi, theta, lh_sulc) |
to (512, 256) |
math.degrees(2 * np.pi) |
math.degrees(np.pi) |
np.clip(ys, 0, 511) |
np.clip(xs, 0, 255) |
nib.freesurfer.read_morph_data(lh_sulc) |
xs.astype(np.int32) |
ys.astype(np.int32) |
np.zeros((512, 256) |
and (args.gpu != '-1') |
vxm.py.utils.load_volfile(args.moving, add_batch_axis=True, add_feat_axis=add_feat_axis) |
vxm.networks.VxmDense.load(args.model, device) |
model.to(device) |
model.eval() |
normalize_forword(moving, type=normalize_type) |
normalize_forword(fixed, type=normalize_type) |
domainnorm(moving) |
minmaxnormalize(moving) |
minmaxnormalize(fixed) |
torch.from_numpy(moving) |
to(device) |
float() |
permute(0, 3, 1, 2) |
torch.from_numpy(fixed) |
to(device) |
float() |
permute(0, 3, 1, 2) |
model(input_moving, input_fixed, registration=True) |
normalize_backword(moved, a_moving, b_moving, type=normalize_type) |
backdomainnorm(moved) |
nib.freesurfer.read_geometry(args.sphere_sub) |
np.empty(shape=c.shape) |
interpolate(warp, args.sphere_sub) |
spherical_to_cartesian(r, phi_prime, theta_prime) |
nib.freesurfer.io.write_geometry(args.sphere_reg, coords, faces) |
xyz2degree(lh_sphere_sub, lh_sulc_sub) |
xyz2degree2(phi_prime, theta_prime, lh_sulc_sub) |
xyz2degree(lh_sphere_freesurfer, lh_sulc_sub) |
print(np.nanmax(dif_moved_moving) |
np.nanmin(dif_moved_moving) |
np.nanmean(dif_moved_moving) |
plt.figure(figsize=(14, 7) |
plt.imshow(dif_moved_moving) |
plt.title('moved_moving') |
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