Mercurial > repos > greg > create_streamlines
changeset 4:3b5e09c727f5 draft
Uploaded
| author | greg |
|---|---|
| date | Tue, 28 Nov 2017 14:37:35 -0500 |
| parents | 51263bfe7b2c |
| children | c55029873167 |
| files | create_streamlines.py |
| diffstat | 1 files changed, 6 insertions(+), 3 deletions(-) [+] |
line wrap: on
line diff
--- a/create_streamlines.py Tue Nov 28 14:23:27 2017 -0500 +++ b/create_streamlines.py Tue Nov 28 14:37:35 2017 -0500 @@ -61,14 +61,17 @@ fvtk.add(r, cc_streamlines_actor) fvtk.add(r, cc_ROI_actor) # Save figures -fvtk.record(r, n_frames=1, out_path=args.output_corpuscallosum_axial, size=(800, 800)) +fvtk.record(r, n_frames=1, out_path="corpuscallosum_axial.png", size=(800, 800)) +shutil.move("corpuscallosum_axial.png", args.output_corpuscallosum_axial) fvtk.camera(r, [-1, 0, 0], [0, 0, 0], viewup=[0, 0, 1]) -fvtk.record(r, n_frames=1, out_path=args.output_corpuscallosum_sagittal, size=(800, 800)) +fvtk.record(r, n_frames=1, out_path="corpuscallosum_sagittal.png", size=(800, 800)) +shutil.move("corpuscallosum_sagittal.png", args.output_corpuscallosum_sagittal) M, grouping = utils.connectivity_matrix(cc_streamlines, labels, affine=affine, return_mapping=True, mapping_as_streamlines=True) M[:3, :] = 0 M[:, :3] = 0 plt.imshow(np.log1p(M), interpolation='nearest') -plt.savefig(args.output_connectivity) +plt.savefig("connectivity.png") +shutil.move("connectivity.png", args.output_connectivity) lr_superiorfrontal_track = grouping[11, 54] shape = labels.shape dm = utils.density_map(lr_superiorfrontal_track, shape, affine=affine)