Example e53: Ultrasound contour tracing

Viewing experimentally obtained 3D ultrasound images and borders which were traced around them. Three heart surfaces (epicardial, left and right ventricles) have also been fitted to the data.

The right ventricle is shown in blue and the left ventricle in green and the epicardial data in red.

Shown below (from left to right) are a standard 2D ultrasound, a long axis view of the model and a short axis view of the model.

The comfile run by this example is as follows:

# Set the default tessellation to use 4 segments in each element direction.
# This command does not exist on older versions of cmgui. It is safe to ignore errors.
gfx define tessellation default minimum_divisions 4 refinement_factors 1;

#
# Load in subroutines from other files
#
open com example loop_squares.com exec 1
open com example loop_cone.com exec 1
open com example draw_cones.com exec 1

#
# Create some materials
#
gfx create material dred     diffuse 1.0 0.0 0.0 specular 0.6 0.3 0.3 shininess 1.0
gfx create material dblue    diffuse 0.0 0.1 1.0 specular 0.4 0.4 0.5 shininess 0.5 
gfx create material dgreen   diffuse 0.0 0.5 0.0 specular 0.4 0.4 0.5 shininess 0.5 
gfx create material beige    diffuse 1.0 0.8 0.7 specular 1.0 0.6 0.6 shininess 1.0
gfx create material ghost    diffuse 0.6 0.6 0.6 alpha 0.16 
gfx create material dgrey    diffuse 0.2 0.2 0.2 


#
# Read in the meshes and the data
#
gfx read node example epi
gfx read elem example epi
gfx read data example epi
gfx modify g_elem epi line coordinate coordinates material dgrey invis
gfx modify g_elem epi surf coordinate coordinates material dred invis
gfx modify g_elem epi data coordinate data_coordinate material dred glyph cross size 1


gfx read node example lvendo
gfx read elem example lvendo
gfx read data example lvendo
gfx modify g_elem lvendo line coordinate coordinates material dgrey
gfx modify g_elem lvendo surf coordinate coordinates material dgreen
gfx modify g_elem lvendo data coordinate data_coordinate material dgreen glyph cross size 1

gfx read node example rvendo
gfx read elem example rvendo
gfx read data example rvendo
gfx modify g_elem rvendo line coordinate coordinates material dgrey
gfx modify g_elem rvendo surf coordinate coordinates material dblue
gfx modify g_elem rvendo data coordinate data_coordinate material dblue glyph cross size 1



#
# Open window 1 with appropriate view
#
gfx create window 1
gfx modify window 1 image view
gfx modify window 1 set slow
gfx modify window 1 set pert
gfx modify window 1 background colour 0 0 0 all




loop_squares("s01f033", 51000);

loop_squares("s02f135", 52000);

loop_squares("s05f008", 55000);

loop_squares("s06f148", 56000);


#
# Masks the other cones ...
#
draw_cones();

# hide graphics for one of the squares
#gfx set visibility "/" name s01f033 off;
gfx set visibility "/" name s05f008 off;
# old command:
#gfx set visibility s05f008;


#
# Test by exporting to vrml amd write texture
#
gfx export vrml file ultrasound_cones
gfx write tex tex_s06f148 file texture_alpha.rgb rgb

Files used by this example are:

Name              Modified     Size

example_e53.com   27-Jan-2012  2.5k
draw_cones.com    22-Mar-2002  786 
epi.exdata        02-Feb-2011   90k
epi.exelem        20-Nov-2001   47k
epi.exnode        20-Nov-2001   39k
loop_cone.com     27-Jan-2012  1.1k
loop_squares.com  27-Jan-2012  976 
lvendo.exdata     02-Feb-2011   92k
lvendo.exelem     20-Nov-2001   47k
lvendo.exnode     20-Nov-2001   39k
rboyes2s02.mov    20-Nov-2001  1.3M
rvendo.exdata     02-Feb-2011   33k
rvendo.exelem     20-Nov-2001   28k
rvendo.exnode     20-Nov-2001   24k
s01f033.exelem    20-Nov-2001  1.8k
s01f033.exnode    20-Nov-2001  459 
s01f033.rgb       20-Nov-2001  400k
s02f135.exelem    20-Nov-2001  1.8k
s02f135.exnode    20-Nov-2001  461 
s02f135.rgb       20-Nov-2001  405k
s05f008.exelem    20-Nov-2001  1.8k
s05f008.exnode    20-Nov-2001  460 
s05f008.rgb       20-Nov-2001  407k
s06f148.exelem    20-Nov-2001  1.8k
s06f148.exnode    20-Nov-2001  457 
s06f148.rgb       20-Nov-2001  401k
startmovie.com    20-Nov-2001  256 
stencil.rgb       20-Nov-2001   16k

Download the entire example:

Name                      Modified     Size

examples_e_e5_e53.tar.gz  28-Jan-2012  2.6M

Testing status by version:

Testing status by file:

• status
  

  x86_64-linux
  139	cmgui-wx:	error exit status 139.
  139	cmgui-wx-debug:	error exit status 139.
  139	cmgui-wx-debug-memorycheck:	error exit status 139.
  139	cmgui-wx-debug-valgrind:	error exit status 139.

  
  
• cmiss_test.log
  

  i686-linux
  Success	cmgui-wx:	diff test: no differences with generic answer.
  Success	cmgui-wx-debug:	diff test: no differences with generic answer.
  Success	cmgui-wx-debug-memorycheck:	diff test: no differences with generic answer.
  Failure	cmgui-wx-debug-valgrind:	diff test: differences with generic answer; Test output.
  x86_64-linux
  Failure	cmgui-wx:	diff test: differences with generic answer; Test output.
  Failure	cmgui-wx-debug:	diff test: differences with generic answer; Test output.
  Failure	cmgui-wx-debug-memorycheck:	diff test: differences with generic answer; Test output.
  Failure	cmgui-wx-debug-valgrind:	diff test: differences with generic answer; Test output.
  Success	cmgui-wx-gcc-cad-debug:	diff test: no differences with generic answer.

  
  
• texture_alpha.rgb
  

  i686-linux
  Success	cmgui-wx:	idiff test: Test output; generic answer.
  Success	cmgui-wx-debug:	idiff test: Test output; generic answer.
  Success	cmgui-wx-debug-memorycheck:	idiff test: Test output; generic answer.
  Success	cmgui-wx-debug-valgrind:	idiff test: Test output; generic answer.
  x86_64-linux
  Missing	cmgui-wx:	output file not generated for idiff; generic answer.
  Missing	cmgui-wx-debug:	output file not generated for idiff; generic answer.
  Missing	cmgui-wx-debug-memorycheck:	output file not generated for idiff; generic answer.
  Missing	cmgui-wx-debug-valgrind:	output file not generated for idiff; generic answer.
  Success	cmgui-wx-gcc-cad-debug:	idiff test: Test output; generic answer.

  
  
• ultrasound_cones.wrl
  

  i686-linux
  Success	cmgui-wx:	ndiff test: no significant differences with generic answer.
  Success	cmgui-wx-debug:	ndiff test: no significant differences with generic answer.
  Success	cmgui-wx-debug-memorycheck:	ndiff test: no significant differences with generic answer.
  Success	cmgui-wx-debug-valgrind:	ndiff test: no significant differences with generic answer.
  x86_64-linux
  Missing	cmgui-wx:	output file not generated for ndiff; generic answer.
  Missing	cmgui-wx-debug:	output file not generated for ndiff; generic answer.
  Missing	cmgui-wx-debug-memorycheck:	output file not generated for ndiff; generic answer.
  Missing	cmgui-wx-debug-valgrind:	output file not generated for ndiff; generic answer.
  Success	cmgui-wx-gcc-cad-debug:	ndiff test: no significant differences with generic answer.

  
  

Graphical output from this problem is given here.

Html last generated: Sun Mar 6 05:51:27 2016

Input last modified: Fri Jan 27 14:15:53 2012