Move demo to /docs and rename fibertube scripts

scilus · Sep 10, 2024 · de0e295 · de0e295
1 parent 8c26115
commit de0e295
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Showing 12 changed files with 11 additions and 11 deletions.
diff --git a/demo/DEMO.md → docs/fibertube/DEMO.md b/demo/DEMO.md → docs/fibertube/DEMO.md
diff --git a/demo/centerlines.trk → docs/fibertube/centerlines.trk b/demo/centerlines.trk → docs/fibertube/centerlines.trk
diff --git a/demo/centerlines_resampled.trk → docs/fibertube/centerlines_resampled.trk b/demo/centerlines_resampled.trk → docs/fibertube/centerlines_resampled.trk
diff --git a/demo/diameters.txt → docs/fibertube/diameters.txt b/demo/diameters.txt → docs/fibertube/diameters.txt
diff --git a/scilpy/image/volume_space_management.py b/scilpy/image/volume_space_management.py
@@ -3,9 +3,9 @@
 
 from numba_kdtree import KDTree
 from numba import njit
-from scilpy.tracking.fibertube import (streamlines_to_segments,
-                                       point_in_cylinder,
-                                       sphere_cylinder_intersection)
+from scilpy.tracking.fibertube_utils import (streamlines_to_segments,
+                                             point_in_cylinder,
+                                             sphere_cylinder_intersection)
 from scilpy.tractograms.streamline_operations import \
     get_streamlines_as_fixed_array
 from dipy.core.interpolation import trilinear_interpolate4d, \

diff --git a/scilpy/tracking/fibertube.py → scilpy/tracking/fibertube_utils.py b/scilpy/tracking/fibertube.py → scilpy/tracking/fibertube_utils.py
diff --git a/scilpy/tracking/seed.py b/scilpy/tracking/seed.py
@@ -2,7 +2,7 @@
 import numpy as np
 
 from dipy.io.stateful_tractogram import Space, Origin
-from scilpy.tracking.fibertube import sample_cylinder
+from scilpy.tracking.fibertube_utils import sample_cylinder
 
 
 class SeedGenerator:

diff --git a/scilpy/tractanalysis/fibertube_scoring.py b/scilpy/tractanalysis/fibertube_scoring.py
@@ -6,11 +6,11 @@
 from numba_kdtree import KDTree as nbKDTree
 from scipy.spatial import KDTree
 from scipy.spatial.transform import Rotation
-from scilpy.tracking.fibertube import (streamlines_to_segments,
-                                       point_in_cylinder,
-                                       dist_segment_segment,
-                                       dist_point_segment,
-                                       sphere_cylinder_intersection)
+from scilpy.tracking.fibertube_utils import (streamlines_to_segments,
+                                             point_in_cylinder,
+                                             dist_segment_segment,
+                                             dist_point_segment,
+                                             sphere_cylinder_intersection)
 from scilpy.tracking.utils import tqdm_if_verbose
 
 

diff --git a/scilpy/tractograms/intersection_finder.py b/scilpy/tractograms/intersection_finder.py
@@ -4,8 +4,8 @@
 import numpy as np
 
 from scipy.spatial import KDTree
-from scilpy.tracking.fibertube import (streamlines_to_segments,
-                                       dist_segment_segment)
+from scilpy.tracking.fibertube_utils import (streamlines_to_segments,
+                                             dist_segment_segment)
 from dipy.io.stateful_tractogram import StatefulTractogram
 from scilpy.tracking.utils import tqdm_if_verbose
 

diff --git a/scripts/scil_ft_reconstruction_metrics.py → scripts/scil_fibertube_score_tractogram.py b/scripts/scil_ft_reconstruction_metrics.py → scripts/scil_fibertube_score_tractogram.py
diff --git a/scripts/scil_ft_tracking.py → scripts/scil_fibertube_tracking.py b/scripts/scil_ft_tracking.py → scripts/scil_fibertube_tracking.py
diff --git a/scripts/scil_ft_visualize_collisions.py → scripts/scil_viz_tractogram_collisions.py b/scripts/scil_ft_visualize_collisions.py → scripts/scil_viz_tractogram_collisions.py