from fury import layout
from fury.actors.odf_slicer import OdfSlicerActor
from fury.actors.peak import PeakActor
-from fury.actors.tensor import double_cone , main_dir_uncertainty , tensor_ellipsoid
+from fury.actors.tensor import (
+ double_cone ,
+ main_dir_uncertainty ,
+ tensor_ellipsoid ,
+ )
from fury.colormap import colormap_lookup_table
from fury.deprecator import deprecate_with_version , deprecated_params
from fury.io import load_image
@@ -598,7 +602,9 @@ Source code for fury.actor
ex1 , ex2 , ey1 , ey2 , ez1 , ez2 = vtk_resliced_data . GetExtent ()
- resliced = numpy_support . vtk_to_numpy ( vtk_resliced_data . GetPointData () . GetScalars ())
+ resliced = numpy_support . vtk_to_numpy (
+ vtk_resliced_data . GetPointData () . GetScalars ()
+ )
# swap axes here
if data . ndim == 4 :
@@ -764,7 +770,9 @@ Source code for fury.actor
triangle_poly_data . SetPoints ( points )
if colors is not None :
- triangle_poly_data . GetPointData () . SetScalars ( numpy_to_vtk_colors ( 255 * colors ))
+ triangle_poly_data . GetPointData () . SetScalars (
+ numpy_to_vtk_colors ( 255 * colors )
+ )
if faces is None :
tri = Delaunay ( vertices [:, [ 0 , 1 ]])
@@ -1109,7 +1117,10 @@ Source code for fury.actor
poly_mapper = set_input ( PolyDataMapper (), next_input )
if replace_strips :
triangle_filter = set_input ( TriangleFilter (), next_input )
- poly_mapper = set_input ( PolyDataMapper (), triangle_filter . GetOutputPort ())
+ poly_mapper = set_input (
+ PolyDataMapper (),
+ triangle_filter . GetOutputPort ()
+ )
else :
poly_mapper = set_input ( PolyDataMapper (), next_input )
@@ -1273,7 +1284,11 @@ Source code for fury.actor
if program is not None :
program . SetUniformf ( 'linewidth' , linewidth )
- replace_shader_in_actor ( actor , 'geometry' , import_fury_shader ( 'line.geom' ))
+ replace_shader_in_actor (
+ actor ,
+ 'geometry' ,
+ import_fury_shader ( 'line.geom' )
+ )
add_shader_callback ( actor , callback )
if fake_tube :
@@ -1320,7 +1335,11 @@ Source code for fury.actor
[docs]
def axes (
-
scale = ( 1 , 1 , 1 ), colorx = ( 1 , 0 , 0 ), colory = ( 0 , 1 , 0 ), colorz = ( 0 , 0 , 1 ), opacity = 1
+
scale = ( 1 , 1 , 1 ),
+
colorx = ( 1 , 0 , 0 ),
+
colory = ( 0 , 1 , 0 ),
+
colorz = ( 0 , 0 , 1 ),
+
opacity = 1
):
"""Create an actor with the coordinate's system axes where
red = x, green = y, blue = z.
@@ -1345,7 +1364,11 @@
Source code for fury.actor
"""
centers = np . zeros (( 3 , 3 ))
dirs = np . array ([[ 1 , 0 , 0 ], [ 0 , 1 , 0 ], [ 0 , 0 , 1 ]])
- colors = np . array ([ colorx + ( opacity ,), colory + ( opacity ,), colorz + ( opacity ,)])
+ colors = np . array (
+ [ colorx + ( opacity ,),
+ colory + ( opacity ,),
+ colorz + ( opacity ,)]
+ )
scales = np . asarray ( scale )
arrow_actor = arrow ( centers , dirs , colors , scales , repeat_primitive = False )
@@ -1442,7 +1465,10 @@ Source code for fury.actor
if len ( vertices ) != B_matrix . shape [ 1 ]:
raise ValueError (
'Invalid number of SH coefficients. '
- 'Expected {0} , got {1} .' . format ( len ( vertices ), B_matrix . shape [ 1 ])
+ 'Expected {0} , got {1} .' . format (
+ len ( vertices ),
+ B_matrix . shape [ 1 ]
+ )
)
# create and return an instance of OdfSlicerActor
@@ -1637,7 +1663,7 @@ Source code for fury.actor
def display_extent ( self , x1 , x2 , y1 , y2 , z1 , z2 ):
tmp_mask = np . zeros ( evals . shape [: 3 ], dtype = bool )
- tmp_mask [ x1 : x2 + 1 , y1 : y2 + 1 , z1 : z2 + 1 ] = True
+ tmp_mask [ x1 : x2 + 1 , y1 : y2 + 1 , z1 : z2 + 1 ] = True
tmp_mask = np . bitwise_and ( tmp_mask , mask )
self . mapper = _tensor_slicer_mapper (
@@ -1766,7 +1792,10 @@ Source code for fury.actor
all_faces = np . concatenate ( all_faces )
cols = np . ascontiguousarray (
- np . reshape ( cols , ( cols . shape [ 0 ] * cols . shape [ 1 ], cols . shape [ 2 ])), dtype = 'f4'
+ np . reshape (
+ cols ,
+ ( cols . shape [ 0 ] * cols . shape [ 1 ],
+ cols . shape [ 2 ])), dtype = 'f4'
)
vtk_colors = numpy_support . numpy_to_vtk (
@@ -1864,7 +1893,7 @@ Source code for fury.actor
def display_extent ( self , x1 , x2 , y1 , y2 , z1 , z2 ):
tmp_mask = np . zeros ( grid_shape , dtype = bool )
- tmp_mask [ x1 : x2 + 1 , y1 : y2 + 1 , z1 : z2 + 1 ] = True
+ tmp_mask [ x1 : x2 + 1 , y1 : y2 + 1 , z1 : z2 + 1 ] = True
tmp_mask = np . bitwise_and ( tmp_mask , mask )
ijk = np . ascontiguousarray ( np . array ( np . nonzero ( tmp_mask )) . T )
@@ -1895,7 +1924,10 @@ Source code for fury.actor
)
)
else :
- dirs = np . vstack (( xyz , peaks_dirs [ tuple ( center )][ i ] * pv + xyz ))
+ dirs = np . vstack ((
+ xyz ,
+ peaks_dirs [ tuple ( center )][ i ] * pv + xyz )
+ )
list_dirs . append ( dirs )
self . line = line (
@@ -2091,7 +2123,9 @@ Source code for fury.actor
if points . shape [ 1 ] != 3 :
raise ValueError (
'Invalid points. The shape of the last dimension '
- 'must be 3. Your data has a last dimension of {} .' . format ( points . shape [ 1 ])
+ 'must be 3. Your data has a last dimension of {} .' . format (
+ points . shape [ 1 ]
+ )
)
vtk_vertices = Points ()
@@ -2316,11 +2350,13 @@ Source code for fury.actor
vertices : ndarray, shape (N, 3)
The point cloud defining the sphere.
faces : ndarray, shape (M, 3)
- If faces is None then a sphere is created based on theta and phi angles.
+ If faces is None then a sphere is created based on theta
+ and phi angles.
If not then a sphere is created with the provided vertices and faces.
repeat_primitive: bool
If True, cylinder will be generated with primitives
- If False, repeat_sources will be invoked to use VTK filters for cylinder.
+ If False,
+ repeat_sources will be invoked to use VTK filters for cylinder.
Returns
-------
@@ -2370,7 +2406,13 @@ Source code for fury.actor
src . SetCapping ( capped )
src . SetResolution ( resolution )
src . SetRadius ( radius )
- rotate = np . array ([[ 0 , 1 , 0 , 0 ], [ - 1 , 0 , 0 , 0 ], [ 0 , 0 , 1 , 0 ], [ 0 , 0 , 0 , 1 ]])
+ rotate = np . array (
+ [[ 0 , 1 , 0 , 0 ],
+ [ - 1 , 0 , 0 , 0 ],
+ [ 0 , 0 , 1 , 0 ],
+ [ 0 , 0 , 0 , 1 ]
+ ]
+ )
else :
src = None
rotate = None
@@ -2451,7 +2493,13 @@ Source code for fury.actor
src . SetRadialResolution ( rresolution )
src . SetInnerRadius ( rinner )
src . SetOuterRadius ( router )
- rotate = np . array ([[ 0 , 0 , - 1 , 0 ], [ 0 , 1 , 0 , 0 ], [ 1 , 0 , 0 , 0 ], [ 0 , 0 , 0 , 1 ]])
+ rotate = np . array (
+ [[ 0 , 0 , - 1 , 0 ],
+ [ 0 , 1 , 0 , 0 ],
+ [ 1 , 0 , 0 , 0 ],
+ [ 0 , 0 , 0 , 1 ]
+ ]
+ )
else :
src = None
rotate = None
@@ -2523,7 +2571,11 @@ Source code for fury.actor
[docs]
-
def rectangle ( centers , directions = ( 1 , 0 , 0 ), colors = ( 1 , 0 , 0 ), scales = ( 1 , 2 , 0 )):
+
def rectangle (
+
centers ,
+
directions = ( 1 , 0 , 0 ),
+
colors = ( 1 , 0 , 0 ),
+
scales = ( 1 , 2 , 0 )):
"""Visualize one or many rectangles with different features.
Parameters
@@ -2556,13 +2608,21 @@
Source code for fury.actor
>>> # window.show(scene)
"""
- return square ( centers = centers , directions = directions , colors = colors , scales = scales )
+
return square (
+
centers = centers ,
+
directions = directions ,
+
colors = colors ,
+
scales = scales )
[docs]
-
@deprecated_params ([ 'size' , 'heights' ], [ 'scales' , 'scales' ], since = '0.6' , until = '0.8' )
+
@deprecated_params (
+
[ 'size' , 'heights' ],
+
[ 'scales' , 'scales' ],
+
since = '0.6' ,
+
until = '0.8' )
def box ( centers , directions = ( 1 , 0 , 0 ), colors = ( 1 , 0 , 0 ), scales = ( 1 , 2 , 3 )):
"""Visualize one or many boxes with different features.
@@ -2643,7 +2703,10 @@
Source code for fury.actor
>>> # window.show(scene)
"""
- return box ( centers = centers , directions = directions , colors = colors , scales = scales )
+
return box ( centers = centers ,
+
directions = directions ,
+
colors = colors ,
+
scales = scales )
@@ -2817,7 +2880,12 @@ Source code for fury.actor
vertices , faces = fp . prim_cone ( sectors = resolution )
res = fp . repeat_primitive (
- vertices , faces , centers , directions = directions , colors = colors , scales = heights
+ vertices ,
+ faces ,
+ centers ,
+ directions = directions ,
+ colors = colors ,
+ scales = heights
)
big_verts , big_faces , big_colors , _ = res
@@ -2883,7 +2951,10 @@ Source code for fury.actor
[docs]
-
def rhombicuboctahedron ( centers , directions = ( 1 , 0 , 0 ), colors = ( 1 , 0 , 0 ), scales = 1 ):
+
def rhombicuboctahedron ( centers ,
+
directions = ( 1 , 0 , 0 ),
+
colors = ( 1 , 0 , 0 ),
+
scales = 1 ):
"""Visualize one or many rhombicuboctahedron with different features.
Parameters
@@ -3504,7 +3575,9 @@
Source code for fury.actor
elif justification == 'right' :
tprop . SetJustificationToRight ()
else :
- raise ValueError ( "Unknown justification: ' {} '" . format ( justification ))
+ raise ValueError (
+ "Unknown justification: ' {} '" . format ( justification )
+ )
def vertical_justification ( self , justification ):
tprop = self . GetTextProperty ()
@@ -3516,7 +3589,9 @@ Source code for fury.actor
tprop . SetVerticalJustificationToBottom ()
else :
raise ValueError (
- "Unknown vertical justification: ' {} '" . format ( justification )
+ "Unknown vertical justification: ' {} '" . format (
+ justification
+ )
)
def font_style ( self , bold = False , italic = False , shadow = False ):
@@ -3832,7 +3907,9 @@ Source code for fury.actor
# We change the anchor of the container so
# the actor will be centered in the
# grid cell.
- actor_with_caption . anchor = actor_center - actor_with_caption . GetCenter ()
+ actor_with_caption . anchor = (
+ actor_center - actor_with_caption . GetCenter ()
+ )
actors_with_caption . append ( actor_with_caption )
actors = actors_with_caption
@@ -3869,7 +3946,12 @@ Source code for fury.actor
# width, height
vtk_image_data . SetDimensions ( pic . shape [ 1 ], pic . shape [ 0 ], 1 )
- vtk_image_data . SetExtent ( 0 , pic . shape [ 1 ] - 1 , 0 , pic . shape [ 0 ] - 1 , 0 , 0 )
+ vtk_image_data . SetExtent ( 0 ,
+ pic . shape [ 1 ] - 1 ,
+ 0 ,
+ pic . shape [ 0 ] - 1 ,
+ 0 ,
+ 0 )
pic_tmp = np . swapaxes ( pic , 0 , 1 )
pic_tmp = pic . reshape ( pic . shape [ 1 ] * pic . shape [ 0 ], 4 )
pic_tmp = np . ascontiguousarray ( pic_tmp )
@@ -3972,7 +4054,8 @@ Source code for fury.actor
"""
grid = texture_actor . GetTexture () . GetInput ()
dim = arr . shape [ - 1 ]
- img_data = np . flip ( arr . swapaxes ( 0 , 1 ), axis = 1 ) . reshape (( - 1 , dim ), order = 'F' )
+ img_data = np . flip ( arr . swapaxes ( 0 , 1 ),
+ axis = 1 ) . reshape (( - 1 , dim ), order = 'F' )
vtkarr = numpy_support . numpy_to_vtk ( img_data , deep = False )
grid . GetPointData () . SetScalars ( vtkarr ) Source code for fury.actor
[docs]
-
def sdf ( centers , directions = ( 1 , 0 , 0 ), colors = ( 1 , 0 , 0 ), primitives = 'torus' , scales = 1 ):
+
def sdf ( centers ,
+
directions = ( 1 , 0 , 0 ),
+
colors = ( 1 , 0 , 0 ),
+
primitives = 'torus' ,
+
scales = 1 ):
"""Create a SDF primitive based actor.
Parameters
@@ -4169,7 +4256,8 @@
Source code for fury.actor
else :
rep_scales = np . repeat ( scales , rep_centers . shape [ 0 ], axis = 0 )
- if isinstance ( directions , ( list , tuple , np . ndarray )) and len ( directions ) == 3 :
+ if isinstance ( directions ,
+ ( list , tuple , np . ndarray )) and len ( directions ) == 3 :
rep_directions = np . repeat ( directions , rep_centers . shape [ 0 ], axis = 0 )
else :
rep_directions = np . repeat ( directions , verts . shape [ 0 ], axis = 0 )
@@ -4184,9 +4272,15 @@ Source code for fury.actor
fs_dec_code = import_fury_shader ( 'sdf_dec.frag' )
fs_impl_code = import_fury_shader ( 'sdf_impl.frag' )
- shader_to_actor ( box_actor , 'vertex' , impl_code = vs_impl_code , decl_code = vs_dec_code )
+ shader_to_actor ( box_actor ,
+ 'vertex' ,
+ impl_code = vs_impl_code ,
+ decl_code = vs_dec_code )
shader_to_actor ( box_actor , 'fragment' , decl_code = fs_dec_code )
- shader_to_actor ( box_actor , 'fragment' , impl_code = fs_impl_code , block = 'light' )
+ shader_to_actor ( box_actor ,
+ 'fragment' ,
+ impl_code = fs_impl_code ,
+ block = 'light' )
return box_actor Source code for fury.actor
attribute_to_actor ( sq_actor , list_of_markers , 'marker' )
def callback (
- _caller , _event , calldata = None , uniform_type = 'f' , uniform_name = None , value = None
+ _caller ,
+ _event ,
+ calldata = None ,
+ uniform_type = 'f' ,
+ uniform_name = None ,
+ value = None
):
program = calldata
if program is not None :
- program . __getattribute__ ( f 'SetUniform { uniform_type } ' )( uniform_name , value )
+ program . __getattribute__ (
+ f 'SetUniform { uniform_type } '
+ )( uniform_name , value )
add_shader_callback (
sq_actor ,
- partial ( callback , uniform_type = 'f' , uniform_name = 'edgeWidth' , value = edge_width ),
+ partial ( callback ,
+ uniform_type = 'f' ,
+ uniform_name = 'edgeWidth' ,
+ value = edge_width ),
)
add_shader_callback (
sq_actor ,
@@ -4360,19 +4464,31 @@ Source code for fury.actor
add_shader_callback (
sq_actor ,
partial (
- callback , uniform_type = 'f' , uniform_name = 'edgeOpacity' , value = edge_opacity
+ callback ,
+ uniform_type = 'f' ,
+ uniform_name = 'edgeOpacity' ,
+ value = edge_opacity
),
)
add_shader_callback (
sq_actor ,
partial (
- callback , uniform_type = '3f' , uniform_name = 'edgeColor' , value = edge_color
+ callback ,
+ uniform_type = '3f' ,
+ uniform_name = 'edgeColor' ,
+ value = edge_color
),
)
- shader_to_actor ( sq_actor , 'vertex' , impl_code = vs_impl_code , decl_code = vs_dec_code )
+ shader_to_actor ( sq_actor ,
+ 'vertex' ,
+ impl_code = vs_impl_code ,
+ decl_code = vs_dec_code )
shader_to_actor ( sq_actor , 'fragment' , decl_code = fs_dec_code )
- shader_to_actor ( sq_actor , 'fragment' , impl_code = fs_impl_code , block = 'light' )
+ shader_to_actor ( sq_actor ,
+ 'fragment' ,
+ impl_code = fs_impl_code ,
+ block = 'light' )
return sq_actor fury.actors.odf_slicer — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.actors.odf_slicer — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.actors.peak — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.actors.peak — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.actors.tensor — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.actors.tensor — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.animation.animation — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.animation.animation — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.animation.animation
[docs]
-
def __init__ ( self , actors = None , length = None , loop = True , motion_path_res = None ):
+
def __init__ ( self , actors = None ,
+
length = None ,
+
loop = True ,
+
motion_path_res = None ):
super () . __init__ ()
self . _data = defaultdict ( dict )
@@ -463,7 +466,8 @@
Source code for fury.animation.animation
else :
self . _duration = max (
self . _max_timestamp ,
- max ([ 0 ] + [ anim . update_duration () for anim in self . child_animations ]),
+ max ([ 0 ] + [ anim . update_duration ()
+ for anim in self . child_animations ]),
)
return self . duration
@@ -570,7 +574,8 @@
Source code for fury.animation.animation
data [ attrib ] = {
'keyframes' : defaultdict ( dict ),
'interpolator' : {
- 'base' : linear_interpolator if attrib != 'rotation' else slerp ,
+ 'base' : ( linear_interpolator
+ if attrib != 'rotation' else slerp ),
'func' : None ,
'args' : defaultdict (),
},
@@ -594,7 +599,8 @@ Source code for fury.animation.animation
if attrib is None :
attribs = data . keys ()
return {
- attrib : data . get ( attrib , {}) . get ( 'keyframes' , {}) for attrib in attribs
+ attrib : data . get ( attrib ,
+ {}) . get ( 'keyframes' , {}) for attrib in attribs
}
return data . get ( attrib , {}) . get ( 'keyframes' , {}) Source code for fury.animation.animation
parent_in_scene = parent . _added_to_scene
if self . is_interpolatable ( 'in_scene' ):
- in_scene = parent_in_scene and self . get_value ( 'in_scene' , timestamp )
+ in_scene = parent_in_scene and self . get_value ( 'in_scene' ,
+ timestamp )
else :
in_scene = parent_in_scene
return in_scene Source code for fury.animation.animation
[docs]
-
def set_interpolator ( self , attrib , interpolator , is_evaluator = False , ** kwargs ):
+
def set_interpolator ( self , attrib , interpolator ,
+
is_evaluator = False , ** kwargs ):
"""Set keyframes interpolator for a certain property
Parameters
@@ -850,7 +858,8 @@
Source code for fury.animation.animation
[docs]
-
def set_position_interpolator ( self , interpolator , is_evaluator = False , ** kwargs ):
+
def set_position_interpolator ( self , interpolator ,
+
is_evaluator = False , ** kwargs ):
"""Set the position interpolator.
Parameters
@@ -919,7 +928,8 @@
Source code for fury.animation.animation
>>> Animation.set_rotation_interpolator(slerp)
"""
- self . set_interpolator ( 'rotation' , interpolator , is_evaluator = is_evaluator )
+
self . set_interpolator ( 'rotation' , interpolator ,
+
is_evaluator = is_evaluator )
@@ -963,7 +973,9 @@
Source code for fury.animation.animation
>>> Animation.set_opacity_interpolator(step_interpolator)
"""
- self . set_interpolator ( 'opacity' , interpolator , is_evaluator = is_evaluator )
+
self . set_interpolator ( 'opacity' ,
+
interpolator ,
+
is_evaluator = is_evaluator )
@@ -980,7 +992,8 @@
Source code for fury.animation.animation
"""
value = (
- self . _data . get ( attrib , {}) . get ( 'interpolator' , {}) . get ( 'func' )( timestamp )
+ self . _data . get ( attrib ,
+ {}) . get ( 'interpolator' , {}) . get ( 'func' )( timestamp )
)
return value
@@ -1731,7 +1744,11 @@
Source code for fury.animation.animation
[docs]
-
def __init__ ( self , camera = None , length = None , loop = True , motion_path_res = None ):
+
def __init__ ( self ,
+
camera = None ,
+
length = None ,
+
loop = True ,
+
motion_path_res = None ):
super ( CameraAnimation , self ) . __init__ (
length = length , loop = loop , motion_path_res = motion_path_res
)
@@ -1919,7 +1936,8 @@
Source code for fury.animation.animation
function that does not depend on keyframes.
"""
- self . set_interpolator ( 'view_up' , interpolator , is_evaluator = is_evaluator )
+
self . set_interpolator ( 'view_up' , interpolator ,
+
is_evaluator = is_evaluator )
@@ -1947,7 +1965,10 @@
Source code for fury.animation.animation
# camera axis is reverted
rot = - self . get_rotation ( time , as_quat = True )
rot = transform . Rotation . from_quat ( rot ) . as_matrix ()
- rot = np . array ([[ * rot [ 0 ], 0 ], [ * rot [ 1 ], 0 ], [ * rot [ 2 ], 0 ], [ 0 , 0 , 0 , 1 ]])
+ rot = np . array ([[ * rot [ 0 ], 0 ],
+ [ * rot [ 1 ], 0 ],
+ [ * rot [ 2 ], 0 ],
+ [ 0 , 0 , 0 , 1 ]])
rot = translation @ rot @ np . linalg . inv ( translation )
self . _camera . SetModelTransformMatrix ( rot . flatten ())
diff --git a/dev/_modules/fury/animation/helpers.html b/dev/_modules/fury/animation/helpers.html
index 9bacc60b8..45da283e9 100644
--- a/dev/_modules/fury/animation/helpers.html
+++ b/dev/_modules/fury/animation/helpers.html
@@ -7,7 +7,7 @@
fury.animation.helpers — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.animation.helpers — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.animation.helpers
"""
return np . asarray (
- [ keyframes . get ( t , {}) . get ( 'value' , None ) for t in sorted ( keyframes . keys ())]
+ [ keyframes . get ( t , {}) . get ( 'value' , None )
+ for t in sorted ( keyframes . keys ())]
) fury.animation.interpolator — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.animation.interpolator — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.animation.timeline — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.animation.timeline — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.animation.timeline
[docs]
-
def __init__ ( self , animations = None , playback_panel = False , loop = True , length = None ):
+
def __init__ ( self , animations = None ,
+
playback_panel = False ,
+
loop = True , length = None ):
self . _scene = None
self . playback_panel = None
@@ -768,7 +770,11 @@
Source code for fury.animation.timeline
render_window . SetSize ( * size )
if order_transparent :
- window . antialiasing ( scene , render_window , multi_samples , max_peels , 0 )
+ window . antialiasing ( scene ,
+ render_window ,
+ multi_samples ,
+ max_peels ,
+ 0 )
window_to_image_filter = WindowToImageFilter ()
diff --git a/dev/_modules/fury/colormap.html b/dev/_modules/fury/colormap.html
index 0b4d451a5..26d5e930e 100644
--- a/dev/_modules/fury/colormap.html
+++ b/dev/_modules/fury/colormap.html
@@ -7,7 +7,7 @@
fury.colormap — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.colormap — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.colormap
orient = np . abs ( np . divide ( v , orientn , where = orientn != 0 ))
else :
raise IOError (
- 'Wrong vector dimension, It should be an array' ' with a shape (N, 3)'
+ 'Wrong vector dimension, It should be an array'
+ ' with a shape (N, 3)'
)
return orient Source code for fury.colormap
"""
if cmap == 'rgb_standard' :
col_list = [
- orient2rgb ( streamline [ - 1 ] - streamline [ 0 ]) for streamline in streamlines
+ orient2rgb ( streamline [ - 1 ] - streamline [ 0 ])
+ for streamline in streamlines
]
if cmap == 'boys_standard' :
col_list = [
- boys2rgb ( streamline [ - 1 ] - streamline [ 0 ]) for streamline in streamlines
+ boys2rgb ( streamline [ - 1 ] - streamline [ 0 ])
+ for streamline in streamlines
]
return np . vstack ( col_list ) fury.convert — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.convert — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.convert
arr = load_image ( fname )
else :
fig . savefig (
- fname , dpi = dpi , transparent = transparent , bbox_inches = 'tight' , pad_inches = 0
+ fname ,
+ dpi = dpi ,
+ transparent = transparent ,
+ bbox_inches = 'tight' ,
+ pad_inches = 0
)
arr = load_image ( fname )
diff --git a/dev/_modules/fury/data/fetcher.html b/dev/_modules/fury/data/fetcher.html
index 58770a1a3..0694c1d59 100644
--- a/dev/_modules/fury/data/fetcher.html
+++ b/dev/_modules/fury/data/fetcher.html
@@ -7,7 +7,7 @@
fury.data.fetcher — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.data.fetcher — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.decorators — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.decorators — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.deprecator — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.deprecator — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.deprecator
"""
version_cmp = packaging . version . parse if have_pkg else None
- if any ([ re . match ( r '^[a-z, A-Z]' , v ) for v in [ version_str , pkg_version_str ]]):
+ if any ([ re . match ( r '^[a-z, A-Z]' , v )
+ for v in [ version_str , pkg_version_str ]]):
msg = 'Invalid version {0} or {1} ' . format ( version_str , pkg_version_str )
raise ValueError ( msg )
elif version_cmp ( version_str ) > version_cmp ( pkg_version_str ):
@@ -575,7 +576,8 @@ Source code for fury.deprecator
if until :
messages . append (
'* {0} {1} as of version: {2} ' . format (
- 'Raises' if is_bad_version ( until ) else 'Will raise' , error_class , until
+ 'Raises' if is_bad_version ( until )
+ else 'Will raise' , error_class , until
)
)
message = ' \n ' . join ( messages )
@@ -588,7 +590,8 @@ Source code for fury.deprecator
warnings . warn ( message , warn_class , stacklevel = 2 )
return func ( * args , ** kwargs )
- deprecated_func . __doc__ = _add_dep_doc ( deprecated_func . __doc__ , message )
+ deprecated_func . __doc__ = _add_dep_doc ( deprecated_func . __doc__ ,
+ message )
return deprecated_func
return deprecator Source code for fury.deprecator
if ( since [ i ], until [ i ]) != ( '' , '' ):
messages . append ( '' )
if since [ i ]:
- messages . append ( '* deprecated from version: ' + str ( since [ i ]))
+ messages . append ( '* deprecated from version: ' +
+ str ( since [ i ]))
if until [ i ]:
messages . append (
'* {0} {1} as of version: {2} ' . format (
- 'Raises' if is_bad_version ( until [ i ]) else 'Will raise' ,
+ 'Raises' if is_bad_version ( until [ i ])
+ else 'Will raise' ,
error_class ,
until [ i ],
)
@@ -808,11 +813,14 @@ Source code for fury.deprecator
kwargs [ key ] = value
if n_name is not None :
- message += '* Use argument " {} " instead.' . format ( n_name )
+ message += '* Use argument " {} " instead.' . format (
+ n_name
+ )
elif alternative :
message += '* Use {} instead.' . format ( alternative )
- if until [ i ] and is_bad_version ( until [ i ], version_comparator ):
+ if until [ i ] and is_bad_version ( until [ i ],
+ version_comparator ):
raise error_class ( message )
warnings . warn ( message , warn_class , stacklevel = 2 )
@@ -821,7 +829,8 @@ Source code for fury.deprecator
elif not n_name and positions [ i ] and len ( args ) > positions [ i ]:
if alternative :
message += '* Use {} instead.' . format ( alternative )
- if until [ i ] and is_bad_version ( until [ i ], version_comparator ):
+ if until [ i ] and is_bad_version ( until [ i ],
+ version_comparator ):
raise error_class ( message )
warnings . warn ( message , warn_class , stacklevel = 2 )
diff --git a/dev/_modules/fury/gltf.html b/dev/_modules/fury/gltf.html
index e34506e37..7c67e73b2 100644
--- a/dev/_modules/fury/gltf.html
+++ b/dev/_modules/fury/gltf.html
@@ -7,7 +7,7 @@
fury.gltf — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.gltf — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.gltf
[docs]
-
def transverse_node ( self , nextnode_id , matrix , parent = None , is_joint = False ):
+
def transverse_node ( self ,
+
nextnode_id ,
+
matrix ,
+
parent = None ,
+
is_joint = False
+
):
"""Load mesh and generates transformation matrix.
Parameters
@@ -592,7 +597,11 @@
Source code for fury.gltf
for bone , ibm in zip ( joints , ibms ):
self . bones . append ( bone )
self . ibms [ bone ] = ibm
- self . transverse_node ( joints [ 0 ], np . identity ( 4 ), parent , is_joint = True )
+ self . transverse_node (
+ joints [ 0 ],
+ np . identity ( 4 ),
+ parent , is_joint = True
+ )
if node . camera is not None :
camera_id = node . camera
@@ -630,7 +639,8 @@ Source code for fury.gltf
if attributes . NORMAL is not None and self . apply_normals :
normals = self . get_acc_data ( attributes . NORMAL )
- normals = transform . apply_transformation ( normals , transform_mat )
+ normals = transform . apply_transformation ( normals ,
+ transform_mat )
utils . set_polydata_normals ( polydata , normals )
if attributes . TEXCOORD_0 is not None :
@@ -705,14 +715,22 @@ Source code for fury.gltf
total_byte_offset = byte_offset + acc_byte_offset
buff_array = self . get_buff_array (
- buff_id , d_type [ 'dtype' ], byte_length , total_byte_offset , byte_stride
+ buff_id , d_type [ 'dtype' ],
+ byte_length ,
+ total_byte_offset ,
+ byte_stride
)
return buff_array [:, : a_type ]
[docs]
-
def get_buff_array ( self , buff_id , d_type , byte_length , byte_offset , byte_stride ):
+
def get_buff_array ( self ,
+
buff_id ,
+
d_type ,
+
byte_length ,
+
byte_offset ,
+
byte_stride ):
"""Extract the mesh data from buffer.
Parameters
@@ -746,9 +764,8 @@
Source code for fury.gltf
byte_stride = int ( byte_stride / 4 )
try :
- if uri . startswith ( 'data:application/octet-stream;base64' ) or uri . startswith (
- 'data:application/gltf-buffer;base64'
- ):
+ if ( uri . startswith ( 'data:application/octet-stream;base64' ) or
+ uri . startswith ( 'data:application/gltf-buffer;base64' )):
buff_data = uri . split ( ',' )[ 1 ]
buff_data = base64 . b64decode ( buff_data )
@@ -888,7 +905,9 @@ Source code for fury.gltf
zfar = perspective . zfar if perspective . zfar else 1000.0
znear = perspective . znear
vtk_cam . SetClippingRange ( znear , zfar )
- angle = perspective . yfov * 180 / np . pi if perspective . yfov else 30.0
+ angle = ( perspective . yfov * 180 / np . pi
+ if perspective . yfov else 30.0
+ )
vtk_cam . SetViewAngle ( angle )
if perspective . aspectRatio :
vtk_cam . SetExplicitAspectRatio ( perspective . aspectRatio )
@@ -929,7 +948,11 @@ Source code for fury.gltf
[docs]
-
def get_sampler_data ( self , sampler : gltflib . Sampler , node_id : int , transform_type ):
+
def get_sampler_data ( self ,
+
sampler : gltflib . Sampler ,
+
node_id : int ,
+
transform_type
+
):
"""Get the animation and transformation data from sampler.
Parameters
@@ -1150,10 +1173,16 @@
Source code for fury.gltf
parent_transform = np . identity ( 4 )
for child in _animation . child_animations :
self . transverse_animations (
- child , self . bones [ 0 ], timestamp , joint_matrices , parent_transform
+ child ,
+ self . bones [ 0 ],
+ timestamp ,
+ joint_matrices ,
+ parent_transform
)
for i , vertex in enumerate ( self . _vertices ):
- vertex [:] = self . apply_skin_matrix ( self . _vcopy [ i ], joint_matrices , i )
+ vertex [:] = self . apply_skin_matrix ( self . _vcopy [ i ],
+ joint_matrices ,
+ i )
actor_transf = self . transformations [ i ]
vertex [:] = transform . apply_transformation ( vertex , actor_transf )
utils . update_actor ( self . _actors [ i ])
@@ -1226,7 +1255,11 @@ Source code for fury.gltf
[docs]
-
def transverse_bones ( self , bone_id , channel_name , parent_animation : Animation ):
+
def transverse_bones ( self ,
+
bone_id ,
+
channel_name ,
+
parent_animation : Animation
+
):
"""Loop over the bones and add child bone animation to their parent
animation.
@@ -1274,7 +1307,8 @@
Source code for fury.gltf
"""
root_animations = {}
- self . _vertices = [ utils . vertices_from_actor ( act ) for act in self . actors ()]
+ self . _vertices = [ utils . vertices_from_actor ( act )
+ for act in self . actors ()]
self . _vcopy = [ np . copy ( vert ) for vert in self . _vertices ]
for name in self . animation_channels . keys ():
root_animation = Animation ()
@@ -1330,9 +1364,12 @@ Source code for fury.gltf
animation . update_animation ()
timestamp = animation . current_timestamp
for i , vertex in enumerate ( self . _vertices ):
- weights = animation . child_animations [ 0 ] . get_value ( 'morph' , timestamp )
+ weights = animation . child_animations [ 0 ] . get_value ( 'morph' ,
+ timestamp )
vertex [:] = self . apply_morph_vertices ( self . _vcopy [ i ], weights , i )
- vertex [:] = transform . apply_transformation ( vertex , self . transformations [ i ])
+ vertex [:] = transform . apply_transformation ( vertex ,
+ self . transformations [ i ]
+ )
utils . update_actor ( self . _actors [ i ])
utils . compute_bounds ( self . _actors [ i ]) Source code for fury.gltf
"""
animations = {}
- self . _vertices = [ utils . vertices_from_actor ( act ) for act in self . actors ()]
+ self . _vertices = [ utils . vertices_from_actor ( act )
+ for act in self . actors ()]
self . _vcopy = [ np . copy ( vert ) for vert in self . _vertices ]
for name , data in self . animation_channels . items ():
@@ -1429,7 +1467,9 @@ Source code for fury.gltf
for i , nodes in enumerate ( self . nodes ):
animation = Animation ()
transform_mat = self . transformations [ i ]
- position , rot , scale = transform . transform_from_matrix ( transform_mat )
+ position , rot , scale = transform . transform_from_matrix (
+ transform_mat
+ )
animation . set_keyframe ( 'position' , 0.0 , position )
if target_node in nodes :
@@ -1459,17 +1499,26 @@ Source code for fury.gltf
if prop == 'rotation' :
animation . set_rotation (
- time [ 0 ], trs , in_tangent = in_tan , out_tangent = out_tan
+ time [ 0 ],
+ trs ,
+ in_tangent = in_tan ,
+ out_tangent = out_tan
)
animation . set_rotation_interpolator ( rot_interp )
if prop == 'translation' :
animation . set_position (
- time [ 0 ], trs , in_tangent = in_tan , out_tangent = out_tan
+ time [ 0 ],
+ trs ,
+ in_tangent = in_tan ,
+ out_tangent = out_tan
)
animation . set_position_interpolator ( interpolator )
if prop == 'scale' :
animation . set_scale (
- time [ 0 ], trs , in_tangent = in_tan , out_tangent = out_tan
+ time [ 0 ],
+ trs ,
+ in_tangent = in_tan ,
+ out_tangent = out_tan
)
animation . set_scale_interpolator ( interpolator )
else :
@@ -1614,7 +1663,12 @@ Source code for fury.gltf
buff_file . write ( indices . tobytes ())
write_bufferview ( gltf , 0 , byteoffset , blength )
write_accessor (
- gltf , count , 0 , gltflib . UNSIGNED_SHORT , len ( indices ), gltflib . SCALAR
+ gltf ,
+ count ,
+ 0 ,
+ gltflib . UNSIGNED_SHORT ,
+ len ( indices ),
+ gltflib . SCALAR
)
byteoffset += blength
index = count
@@ -1893,7 +1947,14 @@ Source code for fury.gltf
[docs]
def write_accessor (
-
gltf , bufferview , byte_offset , comp_type , count , accssor_type , max = None , min = None
+
gltf ,
+
bufferview ,
+
byte_offset ,
+
comp_type ,
+
count ,
+
accssor_type ,
+
max = None ,
+
min = None
):
"""Write accessor in the gltf.
diff --git a/dev/_modules/fury/io.html b/dev/_modules/fury/io.html
index 31f43ca9e..e90aecc6b 100644
--- a/dev/_modules/fury/io.html
+++ b/dev/_modules/fury/io.html
@@ -7,7 +7,7 @@
-
fury.io — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.io — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
@@ -472,9 +472,8 @@
Source code for fury.io
desired image array
"""
- is_url = filename . lower () . startswith ( 'http://' ) or filename . lower () . startswith (
- 'https://'
- )
+ is_url = ( filename . lower () . startswith ( 'http://' ) or
+ filename . lower () . startswith ( 'https://' ))
if is_url :
image_name = os . path . basename ( filename )
@@ -501,7 +500,8 @@ Source code for fury.io
try :
image = pil_image . convert ( 'RGBA' )
except ValueError :
- raise RuntimeError ( 'Unknown image mode {} ' . format ( pil_image . mode ))
+ raise RuntimeError ( 'Unknown image mode {} ' . format (
+ pil_image . mode ))
image = np . asarray ( pil_image )
if as_vtktype :
@@ -513,7 +513,12 @@ Source code for fury.io
# width, height
vtk_image . SetDimensions ( image . shape [ 1 ], image . shape [ 0 ], depth )
- vtk_image . SetExtent ( 0 , image . shape [ 1 ] - 1 , 0 , image . shape [ 0 ] - 1 , 0 , 0 )
+ vtk_image . SetExtent ( 0 ,
+ image . shape [ 1 ] - 1 ,
+ 0 ,
+ image . shape [ 0 ] - 1 ,
+ 0 ,
+ 0 )
vtk_image . SetSpacing ( 1.0 , 1.0 , 1.0 )
vtk_image . SetOrigin ( 0.0 , 0.0 , 0.0 )
@@ -654,7 +659,9 @@ Source code for fury.io
im = Image . fromarray ( arr )
im . save ( filename , quality = compression_quality , dpi = dpi )
else :
- warnings . warn ( UserWarning ( 'DPI value is ignored while saving images via vtk.' ))
+ warnings . warn (
+ UserWarning ( 'DPI value is ignored while saving images via vtk.' )
+ )
if arr . ndim == 2 :
arr = arr [ ... , None ]
@@ -688,7 +695,11 @@ Source code for fury.io
writer . SetQuality ( compression_quality )
if extension . lower () in [ '.tif' , '.tiff' ]:
compression_type = compression_type or 'nocompression'
- l_compression = [ 'nocompression' , 'packbits' , 'jpeg' , 'deflate' , 'lzw' ]
+ l_compression = [ 'nocompression' ,
+ 'packbits' ,
+ 'jpeg' ,
+ 'deflate' ,
+ 'lzw' ]
if compression_type . lower () in l_compression :
comp_id = l_compression . index ( compression_type . lower ())
@@ -840,13 +851,14 @@ Source code for fury.io
nxt_col * sprite_size_y ,
)
- sprite_arr = sprite_sheet [ box [ 0 ] : box [ 2 ], box [ 1 ] : box [ 3 ]]
+ sprite_arr = sprite_sheet [ box [ 0 ]: box [ 2 ], box [ 1 ]: box [ 3 ]]
if as_vtktype :
with InTemporaryDirectory () as tdir :
tmp_img_path = os . path . join ( tdir , f ' { row }{ col } .png' )
save_image ( sprite_arr , tmp_img_path , compression_quality = 100 )
- sprite_dicts [( row , col )] = load_image ( tmp_img_path , as_vtktype = True )
+ sprite_dicts [( row , col )] = load_image ( tmp_img_path ,
+ as_vtktype = True )
else :
sprite_dicts [( row , col )] = sprite_arr
diff --git a/dev/_modules/fury/layout.html b/dev/_modules/fury/layout.html
index 5b179c600..c6dba5064 100644
--- a/dev/_modules/fury/layout.html
+++ b/dev/_modules/fury/layout.html
@@ -7,7 +7,7 @@
fury.layout — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.layout — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.layout
"""
if self . cell_shape == 'rect' :
- bounding_box_sizes = np . asarray ( list ( map ( self . compute_sizes , actors )))
+ bounding_box_sizes = np . asarray ( list ( map ( self . compute_sizes ,
+ actors )))
cell_shape = np . max ( bounding_box_sizes , axis = 0 )[: 2 ]
shapes = [ cell_shape ] * len ( actors )
elif self . cell_shape == 'square' :
- bounding_box_sizes = np . asarray ( list ( map ( self . compute_sizes , actors )))
+ bounding_box_sizes = np . asarray ( list ( map ( self . compute_sizes ,
+ actors )))
cell_shape = np . max ( bounding_box_sizes , axis = 0 )[: 2 ]
shapes = [( max ( cell_shape ),) * 2 ] * len ( actors )
elif self . cell_shape == 'diagonal' :
@@ -502,7 +504,9 @@ Source code for fury.layout
longest_diagonal = np . max ( diagonals )
shapes = [( longest_diagonal , longest_diagonal )] * len ( actors )
else :
- raise ValueError ( "Unknown cell shape: ' {0} '" . format ( self . cell_shape ))
+ raise ValueError ( "Unknown cell shape: ' {0} '" . format (
+ self . cell_shape
+ ))
return shapes Source code for fury.layout
# Add padding, if any, around every cell.
shapes = [ np . array ( self . cell_padding ) / 2.0 + s for s in shapes ]
- positions = get_grid_cells_position ( shapes , self . aspect_ratio , self . dim )
+ positions = get_grid_cells_position ( shapes ,
+ self . aspect_ratio ,
+ self . dim )
positions += self . position_offset
return positions Source code for fury.layout
if self . direction not in [ 'x+' , 'x-' ]:
raise ValueError ( f ' { direction } is not a valid direction' )
- super ( XLayout , self ) . __init__ ( cell_padding = cell_padding , cell_shape = cell_shape ) super ( XLayout , self ) . __init__ ( cell_padding = cell_padding ,
+ cell_shape = cell_shape )
@@ -816,7 +823,8 @@
Source code for fury.layout
if self . direction not in [ 'y+' , 'y-' ]:
raise ValueError ( f ' { direction } is not a valid direction' )
- super ( YLayout , self ) . __init__ ( cell_padding = cell_padding , cell_shape = cell_shape )
+
super ( YLayout , self ) . __init__ ( cell_padding = cell_padding ,
+
cell_shape = cell_shape )
@@ -913,7 +921,8 @@
Source code for fury.layout
if self . direction not in [ 'z+' , 'z-' ]:
raise ValueError ( f ' { direction } is not a valid direction' )
- super ( ZLayout , self ) . __init__ ( cell_padding = cell_padding , cell_shape = cell_shape )
+
super ( ZLayout , self ) . __init__ ( cell_padding = cell_padding ,
+
cell_shape = cell_shape )
@@ -937,7 +946,8 @@
Source code for fury.layout
actors = actors [:: - 1 ]
if self . cell_shape == 'rect' or self . cell_shape == 'square' :
- bounding_box_sizes = np . asarray ( list ( map ( get_bounding_box_sizes , actors )))
+ bounding_box_sizes = np . asarray ( list ( map ( get_bounding_box_sizes ,
+ actors )))
cell_shape = np . max ( bounding_box_sizes , axis = 0 )[ 2 ]
shapes = [ cell_shape ] * len ( actors )
elif self . cell_shape == 'diagonal' :
@@ -946,7 +956,9 @@ Source code for fury.layout
longest_diagonal = np . max ([ a . GetLength () for a in actors ])
shapes = [ longest_diagonal ] * len ( actors )
else :
- raise ValueError ( "Unknown cell shape: ' {0} '" . format ( self . cell_shape ))
+ raise ValueError ( "Unknown cell shape: ' {0} '" . format (
+ self . cell_shape
+ ))
return shapes fury.material — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.material — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.molecular — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.molecular — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.molecular
self . helix = helix
self . is_hetatm = is_hetatm
coords = numpy_to_vtk_points ( coords )
- atom_nums = nps . numpy_to_vtk ( atomic_numbers , array_type = VTK_UNSIGNED_SHORT )
+ atom_nums = nps . numpy_to_vtk ( atomic_numbers ,
+ array_type = VTK_UNSIGNED_SHORT )
atom_nums . SetName ( 'Atomic Numbers' )
fieldData = DataSetAttributes ()
fieldData . AddArray ( atom_nums )
@@ -1069,7 +1070,8 @@ Source code for fury.molecular
"""
if molecule . total_num_bonds == 0 :
raise ValueError (
- 'No bonding data available for the molecule! Stick ' 'model cannot be made!'
+ 'No bonding data available for the molecule! Stick '
+ 'model cannot be made!'
)
colormode = colormode . lower ()
mst_mapper = OpenGLMoleculeMapper ()
@@ -1126,13 +1128,15 @@ Source code for fury.molecular
resi = molecule . residue_seq [ i ]
for j , _ in enumerate ( molecule . sheet ):
sheet = molecule . sheet [ j ]
- if molecule . chain [ i ] != sheet [ 0 ] or resi < sheet [ 1 ] or resi > sheet [ 3 ]:
+ if ( molecule . chain [ i ] != sheet [ 0 ] or
+ resi < sheet [ 1 ] or resi > sheet [ 3 ]):
continue
secondary_structures [ i ] = ord ( 's' )
for j , _ in enumerate ( molecule . helix ):
helix = molecule . helix [ j ]
- if molecule . chain [ i ] != helix [ 0 ] or resi < helix [ 1 ] or resi > helix [ 3 ]:
+ if ( molecule . chain [ i ] != helix [ 0 ] or
+ resi < helix [ 1 ] or resi > helix [ 3 ]):
continue
secondary_structures [ i ] = ord ( 'h' )
@@ -1184,13 +1188,17 @@ Source code for fury.molecular
# for secondary structures begin
newarr = np . ones ( num_total_atoms )
- s_sb = nps . numpy_to_vtk ( num_array = newarr , deep = True , array_type = VTK_UNSIGNED_CHAR )
+ s_sb = nps . numpy_to_vtk ( num_array = newarr ,
+ deep = True ,
+ array_type = VTK_UNSIGNED_CHAR )
s_sb . SetName ( 'secondary_structures_begin' )
output . GetPointData () . AddArray ( s_sb )
# for secondary structures end
newarr = np . ones ( num_total_atoms )
- s_se = nps . numpy_to_vtk ( num_array = newarr , deep = True , array_type = VTK_UNSIGNED_CHAR )
+ s_se = nps . numpy_to_vtk ( num_array = newarr ,
+ deep = True ,
+ array_type = VTK_UNSIGNED_CHAR )
s_se . SetName ( 'secondary_structures_end' )
output . GetPointData () . AddArray ( s_se )
@@ -1215,10 +1223,14 @@ Source code for fury.molecular
rgb = np . ones (( num_total_atoms , 3 ))
for i in range ( num_total_atoms ):
- radii [ i ] = np . repeat ( table . atomic_radius ( all_atomic_numbers [ i ], 'VDW' ), 3 )
+ radii [ i ] = np . repeat ( table . atomic_radius (
+ all_atomic_numbers [ i ],
+ 'VDW' ), 3 )
rgb [ i ] = table . atom_color ( all_atomic_numbers [ i ])
- Rgb = nps . numpy_to_vtk ( num_array = rgb , deep = True , array_type = VTK_UNSIGNED_CHAR )
+ Rgb = nps . numpy_to_vtk ( num_array = rgb ,
+ deep = True ,
+ array_type = VTK_UNSIGNED_CHAR )
Rgb . SetName ( 'rgb_colors' )
output . GetPointData () . SetScalars ( Rgb )
diff --git a/dev/_modules/fury/pick.html b/dev/_modules/fury/pick.html
index 0a3f9ec6a..3ba65205b 100644
--- a/dev/_modules/fury/pick.html
+++ b/dev/_modules/fury/pick.html
@@ -7,7 +7,7 @@
fury.pick — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.pick — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.pick
[docs]
-
def __init__ ( self , vertices = True , faces = True , actors = True , world_coords = True ):
+
def __init__ (
+
self ,
+
vertices = True ,
+
faces = True ,
+
actors = True ,
+
world_coords = True ):
"""Initialize Picking Manager.
Parameters
@@ -608,28 +613,48 @@
Source code for fury.pick
res = self . hsel . Select ()
except OverflowError :
- return { 0 : { 'node' : None , 'vertex' : None , 'face' : None , 'actor' : None }}
+ return { 0 : {
+ 'node' : None ,
+ 'vertex' : None ,
+ 'face' : None ,
+ 'actor' : None
+ }}
num_nodes = res . GetNumberOfNodes ()
if num_nodes < 1 :
sel_node = None
- return { 0 : { 'node' : None , 'vertex' : None , 'face' : None , 'actor' : None }}
+ return { 0 : {
+ 'node' : None ,
+ 'vertex' : None ,
+ 'face' : None ,
+ 'actor' : None
+ }
+ }
else :
for i in range ( num_nodes ):
sel_node = res . GetNode ( i )
- info = { 'node' : None , 'vertex' : None , 'face' : None , 'actor' : None }
+ info = {
+ 'node' : None ,
+ 'vertex' : None ,
+ 'face' : None ,
+ 'actor' : None
+ }
if sel_node is not None :
selected_nodes = set (
np . floor (
- numpy_support . vtk_to_numpy ( sel_node . GetSelectionList ())
+ numpy_support . vtk_to_numpy (
+ sel_node . GetSelectionList ()
+ )
) . astype ( int )
)
info [ 'node' ] = sel_node
- info [ 'actor' ] = sel_node . GetProperties () . Get ( sel_node . PROP ())
+ info [ 'actor' ] = sel_node . GetProperties () . Get (
+ sel_node . PROP ()
+ )
if self . selected_type == 'faces' :
info [ 'face' ] = list ( selected_nodes )
if self . selected_type == 'vertex' :
diff --git a/dev/_modules/fury/pkg_info.html b/dev/_modules/fury/pkg_info.html
index 82a6d9773..c2f44ee19 100644
--- a/dev/_modules/fury/pkg_info.html
+++ b/dev/_modules/fury/pkg_info.html
@@ -7,7 +7,7 @@
fury.pkg_info — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.pkg_info — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
fury.primitive — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.primitive — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.primitive
[docs]
def repeat_primitive_function (
-
func , centers , func_args = [], directions = ( 1 , 0 , 0 ), colors = ( 1 , 0 , 0 ), scales = 1
+
func ,
+
centers ,
+
func_args = [],
+
directions = ( 1 , 0 , 0 ),
+
colors = ( 1 , 0 , 0 ),
+
scales = 1
):
"""Repeat Vertices and triangles of a specific primitive function.
@@ -545,7 +550,8 @@
Source code for fury.primitive
big_vertices *= scales
# update triangles
- big_triangles = np . array ( np . tile ( faces , ( centers . shape [ 0 ], 1 )), dtype = np . int32 )
+ big_triangles = np . array (
+ np . tile ( faces , ( centers . shape [ 0 ], 1 )), dtype = np . int32 )
big_triangles += np . repeat (
np . arange ( 0 , centers . shape [ 0 ] * unit_verts_size , step = unit_verts_size ),
unit_triangles_size ,
@@ -600,10 +606,12 @@ Source code for fury.primitive
else :
rotation_matrix = np . identity ( 3 )
- big_vertices [ pts * unit_verts_size : ( pts + 1 ) * unit_verts_size ] = np . dot (
- rotation_matrix [: 3 , : 3 ],
- big_vertices [ pts * unit_verts_size : ( pts + 1 ) * unit_verts_size ] . T ,
- ) . T
+ big_vertices [ pts * unit_verts_size : ( pts + 1 ) * unit_verts_size ] = (
+ np . dot ( rotation_matrix [: 3 , : 3 ],
+ big_vertices [ pts * unit_verts_size : (
+ pts + 1 ) * unit_verts_size ] . T ,
+ ) . T
+ )
# apply centers position
big_centers = np . repeat ( centers , unit_verts_size , axis = 0 )
@@ -627,7 +635,12 @@ Source code for fury.primitive
"""
vertices = np . array (
- [[ - 0.5 , - 0.5 , 0.0 ], [ - 0.5 , 0.5 , 0.0 ], [ 0.5 , 0.5 , 0.0 ], [ 0.5 , - 0.5 , 0.0 ]]
+ [
+ [ - 0.5 , - 0.5 , 0.0 ],
+ [ - 0.5 , 0.5 , 0.0 ],
+ [ 0.5 , 0.5 , 0.0 ],
+ [ 0.5 , - 0.5 , 0.0 ]
+ ]
)
triangles = np . array ([[ 0 , 1 , 2 ], [ 2 , 3 , 0 ]], dtype = 'i8' )
return vertices , triangles Source code for fury.primitive
res = np . load ( fname )
verts = res [ 'vertices' ] . copy ()
- faces = faces_from_sphere_vertices ( verts ) if gen_faces else res [ 'faces' ]
+ faces = ( faces_from_sphere_vertices ( verts )
+ if gen_faces else res [ 'faces' ])
faces = fix_winding_order ( res [ 'vertices' ], faces , clockwise = True )
return verts , faces
else :
@@ -834,10 +848,17 @@ Source code for fury.primitive
"""
pyramid_vert = np . array (
- [[ 0.5 , 0.5 , 0.5 ], [ 0.5 , - 0.5 , - 0.5 ], [ - 0.5 , 0.5 , - 0.5 ], [ - 0.5 , - 0.5 , 0.5 ]]
+ [
+ [ 0.5 , 0.5 , 0.5 ],
+ [ 0.5 , - 0.5 , - 0.5 ],
+ [ - 0.5 , 0.5 , - 0.5 ],
+ [ - 0.5 , - 0.5 , 0.5 ]
+ ]
)
- pyramid_triag = np . array ([[ 2 , 0 , 1 ], [ 0 , 2 , 3 ], [ 0 , 3 , 1 ], [ 1 , 3 , 2 ]], dtype = 'i8' )
+ pyramid_triag = np . array (
+ [[ 2 , 0 , 1 ], [ 0 , 2 , 3 ], [ 0 , 3 , 1 ], [ 1 , 3 , 2 ]],
+ dtype = 'i8' )
return pyramid_vert , pyramid_triag Source code for fury.primitive
k += 3
if capped :
- vertices = np . array ( vertices ) . reshape ( 2 * ( sectors + 1 ) + 2 * sectors + 2 , 3 )
+ vertices = np . array ( vertices ) . reshape (
+ 2 * ( sectors + 1 ) + 2 * sectors + 2 , 3
+ )
else :
vertices = np . array ( vertices ) . reshape ( 2 * ( sectors + 1 ), 3 )
@@ -1466,7 +1489,11 @@ Source code for fury.primitive
[docs]
def prim_arrow (
-
height = 1.0 , resolution = 10 , tip_length = 0.35 , tip_radius = 0.1 , shaft_radius = 0.03
+
height = 1.0 ,
+
resolution = 10 ,
+
tip_length = 0.35 ,
+
tip_radius = 0.1 ,
+
shaft_radius = 0.03
):
"""Return vertices and triangle for arrow geometry.
diff --git a/dev/_modules/fury/shaders/base.html b/dev/_modules/fury/shaders/base.html
index 257febda5..419c329e5 100644
--- a/dev/_modules/fury/shaders/base.html
+++ b/dev/_modules/fury/shaders/base.html
@@ -7,7 +7,7 @@
-
fury.shaders.base — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.shaders.base — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
diff --git a/dev/_modules/fury/stream/client.html b/dev/_modules/fury/stream/client.html
index 8d155baa9..ff199b05b 100644
--- a/dev/_modules/fury/stream/client.html
+++ b/dev/_modules/fury/stream/client.html
@@ -7,7 +7,7 @@
-
fury.stream.client — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.stream.client — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
@@ -476,7 +476,9 @@
Source code for fury.stream.client
self . max_size = max_window_size [ 0 ] * max_window_size [ 1 ]
self . max_window_size = max_window_size
if self . max_size < self . showm . size [ 0 ] * self . showm . size [ 1 ]:
- raise ValueError ( 'max_window_size must be greater than window_size' )
+ raise ValueError (
+ 'max_window_size must be greater than window_size'
+ )
if not PY_VERSION_8 and not use_raw_array :
raise ValueError (
@@ -520,7 +522,9 @@ Source code for fury.stream.client
"""
def callback_for_vtk ( caller , event , * args , ** kwargs ):
- callback_stream_client ( ** { 'stream_client' : kwargs [ 'stream_client' ]})
+ callback_stream_client (
+ ** { 'stream_client' : kwargs [ 'stream_client' ]}
+ )
use_asyncio = platform . system () == 'Windows' or use_asyncio
if self . _started :
@@ -528,18 +532,25 @@ Source code for fury.stream.client
if ms > 0 :
if self . _whithout_iren_start :
- Interval = IntervalTimer if use_asyncio else IntervalTimerThreading
+ Interval = ( IntervalTimer if use_asyncio else
+ IntervalTimerThreading )
self . _interval_timer = Interval (
- ms / 1000 , callback_stream_client , ** { 'stream_client' : self }
+ ms / 1000 , callback_stream_client ,
+ ** { 'stream_client' : self }
)
else :
self . _id_observer = self . showm . iren . AddObserver (
- 'TimerEvent' , partial ( callback_for_vtk , ** { 'stream_client' : self })
+ 'TimerEvent' , partial (
+ callback_for_vtk ,
+ ** { 'stream_client' : self })
)
self . _id_timer = self . showm . iren . CreateRepeatingTimer ( ms )
else :
self . _id_observer = self . showm . iren . AddObserver (
- 'RenderEvent' , partial ( callback_for_vtk , ** { 'stream_client' : self })
+ 'RenderEvent' , partial (
+ callback_for_vtk ,
+ ** { 'stream_client' : self }
+ )
)
self . showm . window . Render ()
self . showm . iren . Render ()
@@ -641,12 +652,23 @@ Source code for fury.stream.client
camera . SetFocalPoint ([ pos2 [ i ] + delta [ i ] for i in range ( 3 )])
camera . Zoom ( zoomFactor )
elif user_event_id == event_ids . mouse_move :
- iren . SetEventInformation ( newX , newY , ctrl_key , shift_key , chr ( 0 ), 0 , None )
+ iren . SetEventInformation ( newX ,
+ newY ,
+ ctrl_key ,
+ shift_key ,
+ chr ( 0 ), 0 , None )
iren . MouseMoveEvent ()
elif event_ids . mouse_ids :
- iren . SetEventInformation ( newX , newY , ctrl_key , shift_key , chr ( 0 ), 0 , None )
+ iren . SetEventInformation (
+ newX ,
+ newY ,
+ ctrl_key ,
+ shift_key ,
+ chr ( 0 ),
+ 0 ,
+ None )
mouse_actions = {
event_ids . left_btn_press : iren . LeftButtonPressEvent ,
event_ids . left_btn_release : iren . LeftButtonReleaseEvent ,
@@ -656,7 +678,9 @@ Source code for fury.stream.client
event_ids . right_btn_release : iren . RightButtonReleaseEvent ,
}
mouse_actions [ user_event_id ]()
- logging . info ( 'Interaction: time to perform event ' + f ' { ts - user_timestamp : .2f } ms' )
+ logging . info (
+ 'Interaction: time to perform event ' + f ' { ts - user_timestamp : .2f } ms'
+ )
if render_after :
showm . window . Render ()
showm . iren . Render () Source code for fury.stream.client
[docs]
def __init__ (
-
self , showm , max_queue_size = 50 , use_raw_array = True , whithout_iren_start = False
+
self ,
+
showm ,
+
max_queue_size = 50 ,
+
use_raw_array = True ,
+
whithout_iren_start = False
):
"""Initialize the StreamInteraction obj.
@@ -737,9 +765,14 @@
Source code for fury.stream.client
else :
def callback ( caller , event , * args , ** kwargs ):
- interaction_callback ( self . circular_queue , self . showm , self . iren , True )
+ interaction_callback (
+ self . circular_queue ,
+ self . showm , self . iren ,
+ True )
- self . _id_observer = self . showm . iren . AddObserver ( 'TimerEvent' , callback )
+ self . _id_observer = self . showm . iren . AddObserver (
+ 'TimerEvent' ,
+ callback )
self . _id_timer = self . showm . iren . CreateRepeatingTimer ( ms )
self . _started = True
diff --git a/dev/_modules/fury/stream/server/async_app.html b/dev/_modules/fury/stream/server/async_app.html
index c595d9f3a..ac6f52560 100644
--- a/dev/_modules/fury/stream/server/async_app.html
+++ b/dev/_modules/fury/stream/server/async_app.html
@@ -7,7 +7,7 @@
-
fury.stream.server.async_app — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.stream.server.async_app — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
@@ -432,7 +432,8 @@
Source code for fury.stream.server.async_app status= 200 ,
reason = 'OK' ,
headers = {
- 'Content-Type' : 'multipart/x-mixed-replace;boundary= {} ' . format ( my_boundary )
+ 'Content-Type' : 'multipart/x-mixed-replace;boundary= {} ' . format (
+ my_boundary )
},
)
await response . prepare ( request )
@@ -518,7 +519,13 @@ Source code for fury.stream.server.async_app circular_queue = circular_queue
ok = circular_queue . enqueue (
np . array (
- [ EVENT_IDs . mouse_move , 0 , x , y , ctrl_key , shift_key , user_envent_ms , 0 ],
+ [ EVENT_IDs . mouse_move ,
+ 0 ,
+ x ,
+ y ,
+ ctrl_key ,
+ shift_key ,
+ user_envent_ms , 0 ],
dtype = 'float64' ,
)
)
@@ -551,7 +558,8 @@ Source code for fury.stream.server.async_app event_id = ( mouse_button + 1 ) * 2 + on + 1
ok = circular_queue . enqueue (
- np . array ([ event_id , 0 , x , y , ctrl , shift , user_envent_ms , 0 ], dtype = 'float64' )
+ np . array ([ event_id , 0 , x , y , ctrl , shift , user_envent_ms , 0 ],
+ dtype = 'float64' )
)
return ok Source code for fury.stream.server.async_app if data [ 'type' ] == 'weel' :
ts = time . time () * 1000
interval = ts - data [ 'timestampInMs' ]
- logging . info ( 'WEEL request time approx ' + f ' { interval : .2f } ms' )
+ logging . info ( 'WEEL request time approx ' +
+ f ' { interval : .2f } ms' )
set_weel ( data , circular_queue )
elif data [ 'type' ] == 'mouseMove' :
set_mouse ( data , circular_queue )
@@ -593,7 +602,9 @@ Source code for fury.stream.server.async_app # await ws.send_str(msg.data + '/answer')
elif msg . type == aiohttp . WSMsgType . ERROR :
- print ( 'ws connection closed with exception %s ' % ws . exception ())
+ print ( 'ws connection closed with exception {} ' . format (
+ ws . exception ())
+ )
finally :
request . app [ 'websockets' ] . discard ( ws )
@@ -637,7 +648,9 @@ Source code for fury.stream.server.async_app 'interaction.js',
]
for js in js_files :
- app . router . add_get ( '/js/ %s ' % js , partial ( javascript , folder = folder , js = js ))
+ app . router . add_get ( '/js/ %s ' % js , partial ( javascript ,
+ folder = folder ,
+ js = js ))
app [ 'image_buffer_manager' ] = image_buffer_manager
if provides_mjpeg :
@@ -650,7 +663,8 @@ Source code for fury.stream.server.async_app if circular_queue is not None :
app . add_routes (
- [ web . get ( '/ws' , partial ( websocket_handler , circular_queue = circular_queue ))]
+ [ web . get ( '/ws' , partial ( websocket_handler ,
+ circular_queue = circular_queue ))]
)
return app fury.stream.server.main — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.stream.server.main — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.stream.server.main
# if the buffer it's already flipped
# self.frame.planes[0].update(self.image)
self . image = np . frombuffer ( self . image , 'uint8' )[
- 0 : width * height * 3
+ 0 : width * height * 3
] . reshape (( height , width , 3 ))
self . image = np . flipud ( self . image )
self . frame = VideoFrame . from_ndarray ( self . image )
@@ -653,7 +653,8 @@ Source code for fury.stream.server.main
remove_shm_from_resource_tracker ()
image_buffer_manager = SharedMemImageBufferManager (
- image_buffer_names = image_buffer_names , info_buffer_name = info_buffer_name
+ image_buffer_names = image_buffer_names ,
+ info_buffer_name = info_buffer_name
)
rtc_server = None
diff --git a/dev/_modules/fury/stream/tools.html b/dev/_modules/fury/stream/tools.html
index 832ad32bd..279bb32d6 100644
--- a/dev/_modules/fury/stream/tools.html
+++ b/dev/_modules/fury/stream/tools.html
@@ -7,7 +7,7 @@
fury.stream.tools — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.stream.tools — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.stream.tools
if PY_VERSION_8 :
from multiprocessing import resource_tracker , shared_memory
else :
- shared_memory = None # type: ignore
+ shared_memory = None # type: ignore
-_FLOAT_ShM_TYPE = 'd'
-_INT_ShM_TYPE = 'i'
-_UINT_ShM_TYPE = 'I'
-_BYTE_ShM_TYPE = 'B'
+_FLOAT_ShM_TYPE = "d"
+_INT_ShM_TYPE = "i"
+_UINT_ShM_TYPE = "I"
+_BYTE_ShM_TYPE = "B"
_FLOAT_SIZE = np . dtype ( _FLOAT_ShM_TYPE ) . itemsize
_INT_SIZE = np . dtype ( _INT_ShM_TYPE ) . itemsize
@@ -416,27 +416,31 @@ Source code for fury.stream.tools
"""
def fix_register ( name , rtype ):
- if rtype == 'shared_memory' :
+ if rtype == "shared_memory" :
return
try :
- return resource_tracker . _resource_tracker . register ( self , name , rtype )
+ return resource_tracker . _resource_tracker . register (
+ self , name , rtype
+ )
except NameError :
return None
resource_tracker . register = fix_register
def fix_unregister ( name , rtype ):
- if rtype == 'shared_memory' :
+ if rtype == "shared_memory" :
return
try :
- return resource_tracker . _resource_tracker . unregister ( self , name , rtype )
+ return resource_tracker . _resource_tracker . unregister (
+ self , name , rtype
+ )
except NameError :
return None
resource_tracker . unregister = fix_unregister
- if 'shared_memory' in resource_tracker . _CLEANUP_FUNCS :
- del resource_tracker . _CLEANUP_FUNCS [ 'shared_memory' ] if "shared_memory" in resource_tracker . _CLEANUP_FUNCS :
+ del resource_tracker . _CLEANUP_FUNCS [ "shared_memory" ] Source code for fury.stream.tools
def __getitem__ ( self , idx ):
start , end = self . get_start_end ( idx )
- logging . info ( f 'dequeue start { int ( time . time () * 1000 ) } ' )
+ logging . info ( f "dequeue start { int ( time . time () * 1000 ) } " )
ts = time . time () * 1000
items = self . _buffer_repr [ start : end ]
te = time . time () * 1000
- logging . info ( f 'dequeue frombuffer cost { te - ts : .2f } ' )
+ logging . info ( f "dequeue frombuffer cost { te - ts : .2f } " )
return items
def __setitem__ ( self , idx , data ):
@@ -505,22 +509,19 @@ Source code for fury.stream.tools
[docs]
@abstractmethod
-
def load_mem_resource ( self ):
-
... # pragma: no cover
+ def load_mem_resource ( self ): ... # pragma: no cover
[docs]
@abstractmethod
-
def create_mem_resource ( self ):
-
... # pragma: no cover
+ def create_mem_resource ( self ): ... # pragma: no cover
[docs]
@abstractmethod
-
def cleanup ( self ):
-
... # pragma: no cover
+ def cleanup ( self ): ... # pragma: no cover Source code for fury.stream.tools
def create_mem_resource ( self ):
self . _num_el = self . dimension * ( self . max_size + 1 )
buffer_arr = np . zeros ( self . _num_el + 2 , dtype = _FLOAT_ShM_TYPE )
- self . _buffer = shared_memory . SharedMemory ( create = True , size = buffer_arr . nbytes )
+ self . _buffer = shared_memory . SharedMemory (
+ create = True , size = buffer_arr . nbytes
+ )
sizes = np . ndarray (
- 2 , dtype = _FLOAT_ShM_TYPE , buffer = self . _buffer . buf [ 0 : _FLOAT_SIZE * 2 ]
+ 2 ,
+ dtype = _FLOAT_ShM_TYPE ,
+ buffer = self . _buffer . buf [ 0 : _FLOAT_SIZE * 2 ]
)
sizes [ 0 ] = self . max_size
sizes [ 1 ] = self . dimension
self . buffer_name = self . _buffer . name
logging . info (
[
- 'create repr multidimensional buffer ' ,
+ "create repr multidimensional buffer " ,
]
) Source code for fury.stream.tools
[docs]
def load_mem_resource ( self ):
self . _buffer = shared_memory . SharedMemory ( self . buffer_name )
- sizes = np . ndarray ( 2 , dtype = 'd' , buffer = self . _buffer . buf [ 0 : _FLOAT_SIZE * 2 ])
+ sizes = np . ndarray (
+ 2 , dtype = "d" , buffer = self . _buffer . buf [ 0 : _FLOAT_SIZE * 2 ]
+ )
self . max_size = int ( sizes [ 0 ])
self . dimension = int ( sizes [ 1 ])
num_el = int (( sizes [ 0 ] + 1 ) * sizes [ 1 ])
self . _num_el = num_el
logging . info (
[
- 'load repr multidimensional buffer' ,
+ "load repr multidimensional buffer" ,
]
) Source code for fury.stream.tools
start = _FLOAT_SIZE * 2
end = ( self . _num_el + 2 ) * _FLOAT_SIZE
self . _buffer_repr = np . ndarray (
- self . _num_el , dtype = _FLOAT_ShM_TYPE , buffer = self . _buffer . buf [ start : end ]
+ self . _num_el ,
+ dtype = _FLOAT_ShM_TYPE ,
+ buffer = self . _buffer . buf [ start : end ]
)
logging . info (
[
- 'create repr multidimensional buffer' ,
+ "create repr multidimensional buffer" ,
self . _buffer_repr . shape ,
- 'max size' ,
+ "max size" ,
self . max_size ,
- 'dimension' ,
+ "dimension" ,
self . dimension ,
]
)
@@ -688,8 +697,8 @@ Source code for fury.stream.tools
self . _buffer . unlink ()
except FileNotFoundError :
print (
- f 'Shared Memory { self . buffer_name } (queue_event_buffer) \
- File not found'
+ f "Shared Memory { self . buffer_name } (queue_event_buffer) \
+ File not found"
) Source code for fury.stream.tools
if self . _use_shared_mem :
return self . head_tail_buffer_repr [ 0 ]
else :
- return np . frombuffer ( self . head_tail_buffer . get_obj (), _INT_ShM_TYPE )[ 0 ]
+ return np . frombuffer (
+ self . head_tail_buffer . get_obj (), _INT_ShM_TYPE
+ )[ 0 ]
@head . setter
def head ( self , value ):
@@ -760,7 +771,9 @@ Source code for fury.stream.tools
if self . _use_shared_mem :
return self . head_tail_buffer_repr [ 1 ]
else :
- return np . frombuffer ( self . head_tail_buffer . get_obj (), _INT_ShM_TYPE )[ 1 ]
+ return np . frombuffer (
+ self . head_tail_buffer . get_obj (), _INT_ShM_TYPE
+ )[ 1 ]
@tail . setter
def tail ( self , value ):
@@ -846,7 +859,12 @@ Source code for fury.stream.tools
[docs]
-
def __init__ ( self , max_size = 10 , dimension = 6 , head_tail_buffer = None , buffer = None ):
+
def __init__ (
+
self ,
+
max_size = 10 ,
+
dimension = 6 ,
+
head_tail_buffer = None ,
+
buffer = None ):
"""Stream system uses that to implement user interactions
Parameters
@@ -867,7 +885,11 @@
Source code for fury.stream.tools
RawArray to store the data
"""
- super () . __init__ ( max_size , dimension , use_shared_mem = False , buffer = buffer )
+ super () . __init__ (
+ max_size ,
+ dimension ,
+ use_shared_mem = False ,
+ buffer = buffer )
if head_tail_buffer is None :
self . create_mem_resource ()
@@ -935,7 +957,11 @@ Source code for fury.stream.tools
[docs]
def __init__ (
-
self , max_size = 10 , dimension = 6 , head_tail_buffer_name = None , buffer_name = None
+
self ,
+
max_size = 10 ,
+
dimension = 6 ,
+
head_tail_buffer_name = None ,
+
buffer_name = None
):
"""Stream system uses that to implement user interactions
@@ -969,14 +995,16 @@
Source code for fury.stream.tools
self . _created = False
self . head_tail_buffer_repr = np . ndarray (
- 3 , dtype = _INT_ShM_TYPE , buffer = self . head_tail_buffer . buf [ 0 : 3 * _INT_SIZE ]
+ 3 ,
+ dtype = _INT_ShM_TYPE ,
+ buffer = self . head_tail_buffer . buf [ 0 : 3 * _INT_SIZE ]
)
logging . info (
[
- 'create shared mem' ,
- 'size repr' ,
+ "create shared mem" ,
+ "size repr" ,
self . head_tail_buffer_repr . shape ,
- 'size buffer' ,
+ "size buffer" ,
self . head_tail_buffer . size / _INT_SIZE ,
]
)
@@ -987,7 +1015,8 @@ Source code for fury.stream.tools
[docs]
def load_mem_resource ( self ):
-
self . head_tail_buffer = shared_memory . SharedMemory ( self . head_tail_buffer_name )
+ self . head_tail_buffer = shared_memory . SharedMemory (
+ self . head_tail_buffer_name )
@@ -1056,8 +1085,8 @@
Source code for fury.stream.tools
self . head_tail_buffer . unlink ()
except FileNotFoundError :
print (
- f 'Shared Memory { self . head_tail_buffer_name } (head_tail) \
- File not found'
+ f "Shared Memory { self . head_tail_buffer_name } (head_tail) \
+ File not found"
) Source code for fury.stream.tools
[docs]
-
def __init__ ( self , max_window_size = None , num_buffers = 2 , use_shared_mem = False ):
+
def __init__ ( self ,
+
max_window_size = None ,
+
num_buffers = 2 ,
+
use_shared_mem = False ):
"""Initialize the ImageBufferManager.
Parameters
@@ -1101,12 +1133,13 @@
Source code for fury.stream.tools
self . _created = False
size = ( self . max_window_size [ 0 ], self . max_window_size [ 1 ])
- img = Image . new ( 'RGB' , size , color = ( 0 , 0 , 0 ))
+ img = Image . new ( "RGB" , size , color = ( 0 , 0 , 0 ))
d = ImageDraw . Draw ( img )
pos_text = ( 12 , size [ 1 ] // 2 )
d . text (
- pos_text , 'Image size have exceed the Buffer Max Size' , fill = ( 255 , 255 , 0 )
+ pos_text , "Image size have exceed the Buffer Max Size" ,
+ fill = ( 255 , 255 , 0 )
)
img = np . flipud ( img )
self . img_exceed = np . asarray ( img ) . flatten ()
@@ -1133,7 +1166,8 @@
Source code for fury.stream.tools
elif buffer_size < self . max_size :
self . image_reprs [ next_buffer_index ][ 0 : buffer_size ] = np_arr
else :
- self . image_reprs [ next_buffer_index ][ 0 : self . max_size ] = self . img_exceed
+ self . image_reprs [ next_buffer_index ][ 0 : self . max_size ] = (
+ self . img_exceed )
w = self . max_window_size [ 0 ]
h = self . max_window_size [ 1 ]
@@ -1177,11 +1211,11 @@ Source code for fury.stream.tools
if self . _use_shared_mem :
image = np . frombuffer ( image , _BYTE_ShM_TYPE )
- image = image [ 0 : width * height * 3 ] . reshape (( height , width , 3 ))
+ image = image [ 0 : width * height * 3 ] . reshape (( height , width , 3 ))
image = np . flipud ( image )
- image_encoded = Image . fromarray ( image , mode = 'RGB' )
+ image_encoded = Image . fromarray ( image , mode = "RGB" )
bytes_img_data = io . BytesIO ()
- image_encoded . save ( bytes_img_data , format = 'jpeg' )
+ image_encoded . save ( bytes_img_data , format = "jpeg" )
bytes_img = bytes_img_data . getvalue ()
return bytes_img Source code for fury.stream.tools
buffer = multiprocessing . RawArray (
_BYTE_ShM_TYPE ,
np . ctypeslib . as_ctypes (
- np . random . randint ( 0 , 255 , size = self . max_size , dtype = _BYTE_ShM_TYPE )
+ np . random . randint ( 0 ,
+ 255 ,
+ size = self . max_size ,
+ dtype = _BYTE_ShM_TYPE )
),
)
self . image_buffers . append ( buffer )
@@ -1363,10 +1400,14 @@ Source code for fury.stream.tools
self . max_size *= self . num_components
self . max_size = int ( self . max_size )
for _ in range ( self . num_buffers ):
- buffer = shared_memory . SharedMemory ( create = True , size = self . max_size )
+ buffer = shared_memory . SharedMemory (
+ create = True ,
+ size = self . max_size )
self . image_buffers . append ( buffer )
self . image_reprs . append (
- np . ndarray ( self . max_size , dtype = _BYTE_ShM_TYPE , buffer = buffer . buf )
+ np . ndarray ( self . max_size ,
+ dtype = _BYTE_ShM_TYPE ,
+ buffer = buffer . buf )
)
self . image_buffer_names . append ( buffer . name )
@@ -1380,21 +1421,23 @@ Source code for fury.stream.tools
create = True , size = info_list . nbytes
)
sizes = np . ndarray (
- 2 , dtype = _UINT_ShM_TYPE , buffer = self . info_buffer . buf [ 0 : _UINT_SIZE * 2 ]
+ 2 ,
+ dtype = _UINT_ShM_TYPE ,
+ buffer = self . info_buffer . buf [ 0 : _UINT_SIZE * 2 ]
)
sizes [ 0 ] = info_list [ 0 ]
sizes [ 1 ] = 1
self . info_buffer_repr = np . ndarray (
sizes [ 0 ],
dtype = _UINT_ShM_TYPE ,
- buffer = self . info_buffer . buf [ 2 * _UINT_SIZE :],
+ buffer = self . info_buffer . buf [ 2 * _UINT_SIZE :],
)
logging . info (
[
- 'info buffer create' ,
- 'buffer size' ,
+ "info buffer create" ,
+ "buffer size" ,
sizes [ 0 ],
- 'repr size' ,
+ "repr size" ,
self . info_buffer_repr . shape ,
]
)
@@ -1406,19 +1449,21 @@ Source code for fury.stream.tools
def load_mem_resource ( self ):
self . info_buffer = shared_memory . SharedMemory ( self . info_buffer_name )
sizes = np . ndarray (
- 2 , dtype = _UINT_ShM_TYPE , buffer = self . info_buffer . buf [ 0 : _UINT_SIZE * 2 ]
+ 2 ,
+ dtype = _UINT_ShM_TYPE ,
+ buffer = self . info_buffer . buf [ 0 : _UINT_SIZE * 2 ]
)
self . info_buffer_repr = np . ndarray (
sizes [ 0 ],
dtype = _UINT_ShM_TYPE ,
- buffer = self . info_buffer . buf [ 2 * _UINT_SIZE :],
+ buffer = self . info_buffer . buf [ 2 * _UINT_SIZE :],
)
logging . info (
[
- 'info buffer load' ,
- 'buffer size' ,
+ "info buffer load" ,
+ "buffer size" ,
sizes [ 0 ],
- 'repr size' ,
+ "repr size" ,
self . info_buffer_repr . shape ,
]
)
@@ -1427,7 +1472,9 @@ Source code for fury.stream.tools
self . image_buffers . append ( buffer )
self . image_reprs . append (
np . ndarray (
- buffer . size // _BYTE_SIZE , dtype = _BYTE_ShM_TYPE , buffer = buffer . buf
+ buffer . size // _BYTE_SIZE ,
+ dtype = _BYTE_ShM_TYPE ,
+ buffer = buffer . buf
)
) Source code for fury.stream.tools
self . info_buffer . unlink ()
except FileNotFoundError :
print (
- f 'Shared Memory { self . info_buffer_name } \
- (info_buffer) File not found'
+ f "Shared Memory { self . info_buffer_name } \
+ (info_buffer) File not found"
)
for buffer , name in zip ( self . image_buffers , self . image_buffer_names ):
buffer . close ()
@@ -1455,7 +1502,7 @@ Source code for fury.stream.tools
try :
buffer . unlink ()
except FileNotFoundError :
- print ( f 'Shared Memory { name } (buffer image) File not found' ) print ( f "Shared Memory { name } (buffer image) File not found" ) fury.stream.widget — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.stream.widget — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.stream.widget
use_raw_array = False ,
)
- self . stream_interaction . start ( ms = self . ms_interaction , use_asyncio = use_asyncio )
+ self . stream_interaction . start ( ms = self . ms_interaction ,
+ use_asyncio = use_asyncio )
self . stream . start ( self . ms_stream , use_asyncio = use_asyncio )
self . _server_started = True
self . pserver = None
diff --git a/dev/_modules/fury/transform.html b/dev/_modules/fury/transform.html
index 81f8eb6e5..0fd5f8adc 100644
--- a/dev/_modules/fury/transform.html
+++ b/dev/_modules/fury/transform.html
@@ -7,7 +7,7 @@
fury.transform — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.transform — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.transform
iden = np . identity ( 4 )
translation = np . append ( translation , 0 ) . reshape ( - 1 , 1 )
- t = np . array ([[ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ]], np . float32 )
+ t = np . array (
+ [[ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ], [ 0 , 0 , 0 , 1 ]],
+ np . float32
+ )
translation = np . multiply ( t , translation )
translation = np . add ( iden , translation )
diff --git a/dev/_modules/fury/ui/containers.html b/dev/_modules/fury/ui/containers.html
index e52945810..6e054eebb 100644
--- a/dev/_modules/fury/ui/containers.html
+++ b/dev/_modules/fury/ui/containers.html
@@ -7,7 +7,7 @@
fury.ui.containers — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.ui.containers — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.ui.containers
__all__ = [ 'Panel2D' , 'TabPanel2D' , 'TabUI' , 'ImageContainer2D' , 'GridUI' ]
+from warnings import warn
+
import numpy as np
from fury.actor import grid
@@ -393,7 +395,7 @@ Source code for fury.ui.containers
)
from fury.ui.core import UI , Rectangle2D , TextBlock2D
from fury.utils import rotate , set_input
-from warnings import warn
+
[docs]
diff --git a/dev/_modules/fury/ui/core.html b/dev/_modules/fury/ui/core.html
index d394bc64f..e5f93d223 100644
--- a/dev/_modules/fury/ui/core.html
+++ b/dev/_modules/fury/ui/core.html
@@ -7,7 +7,7 @@
-
fury.ui.core — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.ui.core — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
diff --git a/dev/_modules/fury/ui/elements.html b/dev/_modules/fury/ui/elements.html
index 31a90fdb2..98f61d798 100644
--- a/dev/_modules/fury/ui/elements.html
+++ b/dev/_modules/fury/ui/elements.html
@@ -7,7 +7,7 @@
-
fury.ui.elements — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.ui.elements — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
diff --git a/dev/_modules/fury/ui/helpers.html b/dev/_modules/fury/ui/helpers.html
index ff2d7db7c..c5c0d5b94 100644
--- a/dev/_modules/fury/ui/helpers.html
+++ b/dev/_modules/fury/ui/helpers.html
@@ -7,7 +7,7 @@
-
fury.ui.helpers — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.ui.helpers — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
diff --git a/dev/_modules/fury/utils.html b/dev/_modules/fury/utils.html
index 900c9860f..5f60366bb 100644
--- a/dev/_modules/fury/utils.html
+++ b/dev/_modules/fury/utils.html
@@ -7,7 +7,7 @@
-
fury.utils — FURY 0.11.0.dev27+g14851c6a documentation
+
fury.utils — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
-
+
@@ -466,7 +466,11 @@
Source code for fury.utils
"""
vtk_points = Points ()
- vtk_points . SetData ( numpy_support . numpy_to_vtk ( np . asarray ( points ), deep = True ))
+ vtk_points . SetData (
+ numpy_support . numpy_to_vtk (
+ np . asarray ( points ),
+ deep = True )
+ )
return vtk_points
@@ -553,8 +557,14 @@
Source code for fury.utils
vtk_array_type = numpy_support . get_vtk_array_type ( offsets_dtype )
cell_array . SetData (
- numpy_support . numpy_to_vtk ( offset , deep = True , array_type = vtk_array_type ),
- numpy_support . numpy_to_vtk ( connectivity , deep = True , array_type = vtk_array_type ),
+ numpy_support . numpy_to_vtk (
+ offset ,
+ deep = True ,
+ array_type = vtk_array_type ),
+ numpy_support . numpy_to_vtk (
+ connectivity ,
+ deep = True ,
+ array_type = vtk_array_type ),
)
cell_array . SetNumberOfCells ( nb_cells )
@@ -633,7 +643,10 @@ Source code for fury.utils
if input_array . ndim == 4 :
values_4d = []
for i in range ( input_array . shape [ - 1 ]):
- values_tmp = map_coordinates ( input_array [ ... , i ], indices . T , order = 1 )
+ values_tmp = map_coordinates (
+ input_array [ ... , i ],
+ indices . T ,
+ order = 1 )
values_4d . append ( values_tmp )
return np . ascontiguousarray ( np . array ( values_4d ) . T ) Source code for fury.utils
else :
if len ( cols_arr ) == nb_points :
if cols_arr . ndim == 1 : # values for every point
- vtk_colors = numpy_support . numpy_to_vtk ( cols_arr , deep = True )
+ vtk_colors = numpy_support . numpy_to_vtk (
+ cols_arr ,
+ deep = True
+ )
color_is_scalar = True
elif cols_arr . ndim == 2 : # map color to each point
vtk_colors = numpy_to_vtk_colors ( 255 * cols_arr )
@@ -729,7 +745,10 @@ Source code for fury.utils
for ( i , value ) in enumerate ( colors ):
cols_arrx += lines [ i ] . shape [ 0 ] * [ value ]
cols_arrx = np . array ( cols_arrx )
- vtk_colors = numpy_support . numpy_to_vtk ( cols_arrx , deep = True )
+ vtk_colors = numpy_support . numpy_to_vtk (
+ cols_arrx ,
+ deep = True
+ )
color_is_scalar = True
else : # the same colors for all points
vtk_colors = numpy_to_vtk_colors (
@@ -737,12 +756,21 @@ Source code for fury.utils
)
elif cols_arr . ndim == 2 : # map color to each line
- colors_mapper = np . repeat ( lines_range , points_per_line , axis = 0 )
- vtk_colors = numpy_to_vtk_colors ( 255 * cols_arr [ colors_mapper ])
+ colors_mapper = np . repeat (
+ lines_range ,
+ points_per_line ,
+ axis = 0
+ )
+ vtk_colors = numpy_to_vtk_colors (
+ 255 * cols_arr [ colors_mapper ]
+ )
else : # colormap
# get colors for each vertex
cols_arr = map_coordinates_3d_4d ( cols_arr , points_array )
- vtk_colors = numpy_support . numpy_to_vtk ( cols_arr , deep = True )
+ vtk_colors = numpy_support . numpy_to_vtk (
+ cols_arr ,
+ deep = True
+ )
color_is_scalar = True
vtk_colors . SetName ( 'colors' )
@@ -767,7 +795,9 @@ Source code for fury.utils
List of N curves represented as 2D ndarrays
"""
- lines_vertices = numpy_support . vtk_to_numpy ( line_polydata . GetPoints () . GetData ())
+ lines_vertices = numpy_support . vtk_to_numpy (
+ line_polydata . GetPoints () . GetData ()
+ )
lines_idx = numpy_support . vtk_to_numpy ( line_polydata . GetLines () . GetData ())
lines = []
@@ -776,7 +806,7 @@ Source code for fury.utils
line_len = lines_idx [ current_idx ]
next_idx = current_idx + line_len + 1
- line_range = lines_idx [ current_idx + 1 : next_idx ]
+ line_range = lines_idx [ current_idx + 1 : next_idx ]
lines += [ lines_vertices [ line_range ]]
current_idx = next_idx
@@ -951,7 +981,12 @@ Source code for fury.utils
[docs]
-
def add_polydata_numeric_field ( polydata , field_name , field_data , array_type = VTK_INT ):
+
def add_polydata_numeric_field (
+
polydata ,
+
field_name ,
+
field_data ,
+
array_type = VTK_INT
+
):
"""Add a field to a vtk polydata.
Parameters
@@ -1109,7 +1144,11 @@
Source code for fury.utils
tangents : tangents, represented as 2D ndarrays (Nx3) (one per vertex)
"""
- vtk_tangents = numpy_support . numpy_to_vtk ( tangents , deep = True , array_type = VTK_FLOAT )
+ vtk_tangents = numpy_support . numpy_to_vtk (
+ tangents ,
+ deep = True ,
+ array_type = VTK_FLOAT
+ )
# VTK does not require a specific name for the tangents array, however, for
# readability purposes, we set it to "Tangents"
vtk_tangents . SetName ( 'Tangents' )
@@ -1144,7 +1183,8 @@ Source code for fury.utils
[docs]
def set_polydata_tcoords ( polydata , tcoords ):
-
"""Set polydata texture coordinates with a numpy array (ndarrays Nx2 float).
+
"""
+
Set polydata texture coordinates with a numpy array (ndarrays Nx2 float).
Parameters
----------
@@ -1153,7 +1193,11 @@
Source code for fury.utils
(one per vertex range (0, 1))
"""
- vtk_tcoords = numpy_support . numpy_to_vtk ( tcoords , deep = True , array_type = VTK_FLOAT )
+ vtk_tcoords = numpy_support . numpy_to_vtk (
+ tcoords ,
+ deep = True ,
+ array_type = VTK_FLOAT
+ )
polydata . GetPointData () . SetTCoords ( vtk_tcoords )
return polydata
@@ -1251,7 +1295,12 @@
Source code for fury.utils
[docs]
def get_actor_from_primitive (
-
vertices , triangles , colors = None , normals = None , backface_culling = True , prim_count = 1
+
vertices ,
+
triangles ,
+
colors = None ,
+
normals = None ,
+
backface_culling = True ,
+
prim_count = 1
):
"""Get actor from a vtkPolyData.
@@ -1585,7 +1634,12 @@
Source code for fury.utils
# Use indexing="xy" so the cells are in row-major (C-order). Also,
# the Y coordinates are negative so the cells are order from top to bottom.
- X , Y , Z = np . meshgrid ( np . arange ( n_cols ), - np . arange ( n_rows ), [ 0 ], indexing = 'xy' )
+ X , Y , Z = np . meshgrid (
+ np . arange ( n_cols ),
+ - np . arange ( n_rows ),
+ [ 0 ],
+ indexing = 'xy'
+ )
return cell_shape * np . array ([ X . flatten (), Y . flatten (), Z . flatten ()]) . T
@@ -1942,7 +1996,9 @@
Source code for fury.utils
output : array (N, 3)
"""
- vtk_array = actor . GetMapper () . GetInput () . GetPointData () . GetArray ( array_name )
+ vtk_array = actor . GetMapper () . GetInput () . GetPointData () . GetArray (
+ array_name
+ )
if vtk_array is None :
return None
if as_vtk :
diff --git a/dev/_modules/fury/window.html b/dev/_modules/fury/window.html
index e53ad6c01..6b3dd422a 100644
--- a/dev/_modules/fury/window.html
+++ b/dev/_modules/fury/window.html
@@ -7,7 +7,7 @@
fury.window — FURY 0.11.0.dev27+g14851c6a documentation
+ fury.window — FURY 0.11.0.dev28+g342bf695 documentation
@@ -43,7 +43,7 @@
Source code for fury.window
[ anim . update_animation () for anim in self . _animations ]
self . render ()
- self . _animation_callback = self . add_timer_callback ( True , 10 , animation_cbk ) self . _animation_callback = self . add_timer_callback (
+ True ,
+ 10 ,
+ animation_cbk )
@@ -1607,7 +1610,11 @@
Source code for fury.window
[docs]
-
def antialiasing ( scene , win , multi_samples = 8 , max_peels = 4 , occlusion_ratio = 0.0 ):
+
def antialiasing ( scene ,
+
win ,
+
multi_samples = 8 ,
+
max_peels = 4 ,
+
occlusion_ratio = 0.0 ):
"""Enable anti-aliasing and ordered transparency.
Parameters
@@ -1739,7 +1746,8 @@
Source code for fury.window
h , w , _ = vtk_image . GetDimensions ()
vtk_array = vtk_image . GetPointData () . GetScalars ()
components = vtk_array . GetNumberOfComponents ()
- arr = numpy_support . vtk_to_numpy ( vtk_array ) . reshape ( w , h , components ) . copy ()
+ arr = numpy_support . vtk_to_numpy ( vtk_array ) . reshape (
+ w , h , components ) . copy ()
arr = np . flipud ( arr )
if fname is None :
@@ -1830,7 +1838,9 @@ Source code for fury.window
flags = [ False ] * len ( colors )
for ( i , col ) in enumerate ( colors ):
# find if the current color exist in the array
- flags [ i ] = np . any ( np . any ( np . all ( np . equal ( im [ ... , : 3 ], col [: 3 ]), axis =- 1 )))
+ flags [ i ] = np . any (
+ np . any ( np . all ( np . equal ( im [ ... , : 3 ], col [: 3 ]), axis =- 1 ))
+ )
report . colors_found = flags
@@ -1889,7 +1899,8 @@ Source code for fury.window