Node based fields

Example b152: Node based fields

This example reads in a 3-d cube with spatially varying cellular material parameters and exports the parameters as a node based field. The parameters can be viewed using the view.com command file.

The comfile run by this example is as follows:

#Read in a 3d cube with spatially varying cellular material parameters and 
#export the parameters as a node based field.

#Set up problem size
fem define para;r;cube;example

#Define geometry of the problem
fem define coor;r;cube;example
fem define node;r;cube;example
fem define base;r;cube;example
fem define elem;r;cube;example
fem define fibr;d
fem define elem;r;cube;example fibre
fem define grid;r;cube;example
fem update grid geometry
fem update grid metric
#  Some useful groups
fem group grid external as boundary
fem group grid grid 92,93,101 as stimulus_site

#Define equation to solve
#  Define monodomain with LR2 kinetics
fem define equa;r;lr;example

#Define material properties for the problem

#  Define cellular material properties
fem define cell;r;lr;example
#    Define cell variants and spatially varying material parameters
fem define mate;r;variants;example cell
#  Define continuum material parameters
fem define mate;r;cube;example
fem update grid material

#Define continuum initial conditions
#  Set no-flux boundary condition
fem define init;r;cube;example

#Define the explicit solve, using the adams integrator
fem define solv;r;test;example

#The geometry can be exported to CMGUI via these commands
fem export node;3dcube as cube              #Export node geometry
fem export elem;3dcube as cube              #Export element geometry

#Export the cellular material parameters as a node based field
fem export point;grid grid material as grid

Additional testing commands:

#not really anything to do, but need it for the testing!

Files used by this example are:

Name                  Modified     Size

example_b152.com      10-Apr-2000  1.4k
cube.ipbase           10-Apr-2000  2.4k
cube.ipcell           10-Apr-2000  643 
cube.ipcoor           10-Apr-2000  570 
cube.ipelem           10-Apr-2000  404 
cube.ipelfb           10-Apr-2000  233 
cube.ipequa           26-May-2003  1.4k
cube.ipexpo           10-Apr-2000  580 
cube.ipgrid           06-Mar-2003  600 
cube.ipinit           10-Apr-2000  213 
cube.ipmate           10-Apr-2000  1.7k
cube.ipmate_cell_old  10-Apr-2000  2.4k
cube.ipnode           10-Apr-2000  1.8k
cube.ippara           12-Nov-2002  5.9k
cube.ipsolv           13-Apr-2007  1.8k
cube.ipsolv.old       10-Apr-2000  1.4k
lr.ipcell             29-Jan-2003  7.9k
lr.ipequa             26-May-2003  1.4k
test.ipsolv           03-Oct-2001  1.3k
test.ipsolv.old       10-Apr-2000  1.3k
test_output.com       10-Apr-2000   57 
variants.ipmatc       29-Jan-2003  1.4k
view.com              20-Nov-2001  1.7k

Download the entire example:

Name                           Modified     Size

examples_b_b1_b15_b152.tar.gz  14-Apr-2007   18k

Testing status by version:

	Status	Tested	Real time (s)
i686-linux
cm	Success	Sun Mar 6 00:02:10 2016	0
cm-debug	Success	Sat Mar 5 00:04:14 2016	1
mips-irix
cm	Success	Sun Aug 19 01:30:18 2007	4
cm-debug	Success	Wed Aug 15 01:27:29 2007	10
cm-debug-clear-malloc	Failure	Tue Aug 21 01:55:26 2007	17
	last break	Tue Apr 17 04:00:00 2007	17
	last success	Sat Feb 18 01:30:00 2006	17
cm-debug-clear-malloc7	Failure	Tue Aug 21 01:55:11 2007	17
	last break	Tue Apr 17 04:00:00 2007	16
	last success	Mon Feb 20 01:25:00 2006	16
cm64	Success	Sun Aug 19 01:30:23 2007	5
cm64-debug	Success	Tue Aug 21 01:25:45 2007	10
cm64-debug-clear-malloc	Success	Thu Apr 1 11:09:59 2004	6
rs6000-aix
cm	Success	Wed Mar 4 01:07:35 2009	1
cm-debug	Success	Mon Mar 2 01:07:15 2009	3
cm64	Success	Wed Mar 4 01:07:35 2009	1
cm64-debug	Success	Tue Mar 3 01:13:09 2009	3
x86_64-linux
cm	Success	Sun Mar 6 00:01:04 2016	0
cm-debug	Success	Sat Mar 5 00:01:35 2016	1

Testing status by file:

cmiss_test.log

i686-linux
Success	cm:	cmiss_test.log.retain.
Success	cm-debug:	cmiss_test.log.retain.
mips-irix
Success	cm:	cmiss_test.log.retain.
Success	cm-debug:	cmiss_test.log.retain.
Success	cm-debug-clear-malloc:	cmiss_test.log.retain.
Success	cm-debug-clear-malloc7:	cmiss_test.log.retain.
Success	cm64:	cmiss_test.log.retain.
Success	cm64-debug:	cmiss_test.log.retain.
Success	cm64-debug-clear-malloc:	cmiss_test.log.retain.
rs6000-aix
Success	cm:	cmiss_test.log.retain.
Success	cm-debug:	cmiss_test.log.retain.
Success	cm64:	cmiss_test.log.retain.
Success	cm64-debug:	cmiss_test.log.retain.
x86_64-linux
Success	cm:	cmiss_test.log.retain.
Success	cm-debug:	cmiss_test.log.retain.

cmiss_test.out

i686-linux
Success	cm:	diff test: no differences with generic answer.
Success	cm-debug:	diff test: no differences with generic answer.
mips-irix
Success	cm:	diff test: no differences with generic answer.
Success	cm-debug:	diff test: no differences with generic answer.
Success	cm-debug-clear-malloc:	diff test: no differences with generic answer.
Success	cm-debug-clear-malloc7:	diff test: no differences with generic answer.
Success	cm64:	diff test: no differences with generic answer.
Success	cm64-debug:	diff test: no differences with generic answer.
Success	cm64-debug-clear-malloc:	diff test: no differences with generic answer.
rs6000-aix
Success	cm:	diff test: no differences with generic answer.
Success	cm-debug:	diff test: no differences with generic answer.
Success	cm64:	diff test: no differences with generic answer.
Success	cm64-debug:	diff test: no differences with generic answer.
x86_64-linux
Success	cm:	diff test: no differences with generic answer.
Success	cm-debug:	diff test: no differences with generic answer.

3dcube.exelem

i686-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
mips-irix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Success	cm-debug-clear-malloc:	ndiff test: no significant differences with generic answer.
Success	cm-debug-clear-malloc7:	ndiff test: no significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
Success	cm64-debug-clear-malloc:	ndiff test: no significant differences with generic answer.
rs6000-aix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
x86_64-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.

3dcube.exnode

i686-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
mips-irix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Success	cm-debug-clear-malloc:	ndiff test: no significant differences with generic answer.
Success	cm-debug-clear-malloc7:	ndiff test: no significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
Success	cm64-debug-clear-malloc:	ndiff test: no significant differences with generic answer.
rs6000-aix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
x86_64-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.

grid.exnode

i686-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
mips-irix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Failure	cm-debug-clear-malloc:	ndiff test: significant differences with generic answer.
Failure	cm-debug-clear-malloc7:	ndiff test: significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
Success	cm64-debug-clear-malloc:	ndiff test: no significant differences with generic answer.
rs6000-aix
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.
Success	cm64:	ndiff test: no significant differences with generic answer.
Success	cm64-debug:	ndiff test: no significant differences with generic answer.
x86_64-linux
Success	cm:	ndiff test: no significant differences with generic answer.
Success	cm-debug:	ndiff test: no significant differences with generic answer.

Html last generated: Sun Mar 6 05:51:06 2016

Input last modified: Fri Apr 13 10:37:36 2007

CMISS Help / Examples / b / b1 / b15 / b152