Multiple ventricles and a torso directly assembled

Example b2147: Multiple ventricles and a torso directly assembled

This example demonstrates how to couple multiple ventricular regions and one torso cavity region by direct assembly.

The comfile run by this example is as follows:

#Example b2147
#
# This example demonstrates how to couple multiple ventricular
#  regions and one torso cavity region by direct assembly.
#

# Problem classes
$CAVITY=1 
$LVENTL=2 
$RVENTL=3 
$BEMHRT=4 
$GRIDHT=5 

# Problem regions
$TLAPLC=1 
$LVECLS=2 
$RVECLS=3 
$GRDCLS=4 
$EXTCLS=5 

# Define problem geometry
fem define para;r;minimal;example
fem define regi;r;torsoslice;example
fem define node;r;cavity4;example reg $CAVITY
fem define node;r;LV3;example reg $LVENTL
fem define node;r;RV3;example reg $RVENTL
fem define node;r;bemhrt3;example reg $BEMHRT
fem define node;r;gridhtr;example reg $GRIDHT
fem define base;r;linear;example
fem define elem;r;cavity4;example reg $CAVITY
fem define elem;r;LV3;example reg $LVENTL
fem define elem;r;RV3;example reg $RVENTL
fem define elem;r;bemhrt3;example reg $BEMHRT
fem define elem;r;gridhtr;example reg $GRIDHT
fem define fibr;r;gridhtr;example reg $GRIDHT
fem define elem;r;gridhtr;example reg $GRIDHT fibre

# Define finite difference grid
fem define grid;r;gridhtr;example reg $GRIDHT
fem update grid geomet reg $GRIDHT
fem update grid metric reg $GRIDHT
fem group grid xi2 0 elem 11..20,27,28 as LVendo reg $GRIDHT
fem group grid xi2 1 elem 11,13,19,20 as RVendo1 reg $GRIDHT
fem group grid xi2 0 elem 1,3,9,10,21,22,25,26 as RVendo2 reg $GRIDHT
fem group grid grid RVendo1,RVendo2 as RVendo reg $GRIDHT
fem group grid grid LVendo,RVendo as endocardium reg $GRIDHT
fem group grid xi2 1 elem 1..10,21..26 as epicardium  reg $GRIDHT
fem group grid external as boundary reg $GRIDHT
fem group grid line 1845 xidirn 2 as stimulus reg $GRIDHT

# Create node to grid mapping
fem update node grid grid_reg $GRIDHT bem_reg $BEMHRT exclude node 77,78
fem update node geomet from grid reg $BEMHRT except node 77,78

# Define equations
fem define equa;r;cavity;example reg $CAVITY class $TLAPLC lock
fem define equa;r;LV;example reg $LVENTL class $LVECLS lock
fem define equa;r;RV;example reg $RVENTL class $RVECLS lock
fem define equa;r;alto;example reg $GRIDHT class $GRDCLS,$EXTCLS lock

# Define material parameters
fem define mate;r;cavity;example reg $CAVITY class $TLAPLC
fem define mate;r;LV;example reg $LVENTL class $LVECLS
fem define mate;r;RV;example reg $RVENTL class $RVECLS
fem define mate;r;alto;example reg $GRIDHT class $GRDCLS,$EXTCLS
fem define cell;r;alto;example reg $GRIDHT class $GRDCLS,$EXTCLS
fem update grid materi reg $GRIDHT class $GRDCLS,$EXTCLS

# Define initial conditions
fem define init;r;cavity2;example reg $CAVITY class $TLAPLC
fem define init;r;LV;example reg $LVENTL class $LVECLS
fem define init;r;RV;example reg $RVENTL class $RVECLS
fem define init;r;alto;example reg $GRIDHT class $GRDCLS,$EXTCLS

# Define right ventricular normal reversal
fem define norm;r;ventcl;example

# Define solution parameters
fem define solv;r;alto;example reg $GRIDHT class $GRDCLS
fem define solv;r;alto;example reg $GRIDHT class $EXTCLS
fem define solv;r;cavity;example reg $CAVITY class $TLAPLC
fem define solv;r;LV;example reg $LVENTL class $LVECLS
fem define solv;r;RV;example reg $RVENTL class $RVECLS

# Solve the passive torso problems
fem solve reg $CAVITY class $TLAPLC
fem solve reg $LVENTL class $LVECLS
fem solve reg $RVENTL class $RVECLS

# Solve the bidomain problem for 10ms
fem solve activ coupled to 10 reg $GRIDHT,$LVENTL,$RVENTL,$CAVITY class $GRDCLS,$EXTCLS,$LVECLS,$RVECLS,$TLAPLC grid boundary cptype 7 fixed_node 49

Additional testing commands:

#Testing example b2147
fem list node sol reg 1 cl 1

Files used by this example are:

Name               Modified     Size

example_b2147.com  06-Jun-2001  3.3k
LV.ipequa          26-May-2003  1.2k
LV.ipinit          06-Jun-2001  1.2k
LV.ipmate          06-Jun-2001  606 
LV.ipsolv          13-Apr-2007  1.2k
LV3.ipelem         06-Jun-2001   24k
LV3.ipnode         06-Jun-2001   28k
RV.ipequa          26-May-2003  1.2k
RV.ipinit          06-Jun-2001  1.2k
RV.ipmate          06-Jun-2001  606 
RV.ipsolv          13-Apr-2007  1.2k
RV3.ipelem         06-Jun-2001   24k
RV3.ipnode         06-Jun-2001   28k
alto.ipcell        06-Jun-2001  1.7k
alto.ipequa        26-May-2003  1.4k
alto.ipinit        06-Jun-2001  847 
alto.ipmate        06-Jun-2001  1.8k
alto.ipsolv        13-Apr-2007  1.8k
alto.ipsolv.old    06-Jun-2001  1.4k
bemhrt3.ipelem     06-Jun-2001   80k
bemhrt3.ipnode     06-Jun-2001   94k
cavity.ipequa      26-May-2003  1.3k
cavity.ipmate      06-Jun-2001  606 
cavity.ipsolv      13-Apr-2007  1.5k
cavity2.ipinit     06-Jun-2001  1.3k
cavity4.ipelem     06-Jun-2001   38k
cavity4.ipnode     06-Jun-2001   45k
gridhtr.ipelem     06-Jun-2001  7.5k
gridhtr.ipelfb     06-Jun-2001  4.3k
gridhtr.ipfibr     06-Jun-2001  7.0k
gridhtr.ipgrid     06-Mar-2003  561 
gridhtr.ipnode     06-Jun-2001   14k
linear.ipbase      06-Jun-2001  2.2k
minimal.ippara     12-Nov-2002  5.9k
test_output.com    06-Jun-2001   53 
torsoslice.ipregi  06-Jun-2001   93 
ventcl.ipnorm      06-Jun-2001  418

Download the entire example:

Name                                 Modified     Size

examples_b_b2_b21_b214_b2147.tar.gz  14-Apr-2007  845k

Testing status by version:

	Status	Tested	Real time (s)
i686-linux
cm	Success	Sun Mar 6 00:04:33 2016	4
cm-debug	Success	Sat Mar 5 00:23:52 2016	18
mips-irix
cm	Success	Sun Aug 19 02:39:27 2007	66
cm-debug	Success	Wed Aug 15 03:07:13 2007	248
cm-debug-clear-malloc	Success	Sat Aug 18 03:21:49 2007	271
cm-debug-clear-malloc7	Success	Mon Jul 30 06:25:53 2007	2725
cm64	Success	Sun Aug 19 02:40:23 2007	65
cm64-debug	Success	Tue Aug 21 03:30:17 2007	248
cm64-debug-clear-malloc	Success	Thu Apr 1 11:23:38 2004	105
rs6000-aix
cm	Success	Wed Mar 4 01:11:34 2009	6
cm-debug	Success	Mon Mar 2 01:20:14 2009	41
cm64	Success	Wed Mar 4 01:11:57 2009	6
cm64-debug	Success	Tue Mar 3 01:23:36 2009	43
x86_64-linux
cm	Success	Sun Mar 6 00:01:16 2016	3
cm-debug	Success	Sat Mar 5 00:02:22 2016	7

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:	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.

extcGKK.ipmatr

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.

Html last generated: Sun Mar 6 05:51:14 2016

Input last modified: Fri Apr 13 10:39:38 2007

CMISS Help / Examples / b / b2 / b21 / b214 / b2147