Example b211o: 3D Explicit LR2 - MP Speed Up Testing

Explict Luo-Rudy phase 2 over a small, one element, cube. Used to test multiprocessing speed-up, the results of which can be viewed here

The comfile run by this example is as follows:

# Explict Luo-Rudy phase 2 over a small, one element,
# cube. Used to test MP-SpeedUp.

#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

#  Loop over the number of threads used to solve the problem

# Command updated by fixcom.sh on Wed Aug 23 17:49:56 NZT 2000
# Old command: DO NUM_THREADS=1,2,4,8,16
for $NUM_THREADS ( 1,2,4,8,16 ) 
{


#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;cube;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

#Solve the problem

#  Set the number of threads to be used
  set num_threads $NUM_THREADS

#  Output information used to test speed up
  list num_threads
  list time

#  Solve for the current time
  fem solve to 2

#  Output information used to test speed up
  list time


# Command updated by fixcom.sh on Wed Aug 23 17:49:56 NZT 2000
# Old command: ENDDO
}

Files used by this example are:

Name                        Modified     Size

example_b211o.com           20-Nov-2001  1.7k
cube.ipbase                 10-Apr-2000  2.4k
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  660 
cube.ipgrid                 06-Mar-2003  600 
cube.ipinit                 10-Apr-2000  213 
cube.ipmatc                 10-Apr-2000  642 
cube.ipmate                 10-Apr-2000  1.7k
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
draw.com                    20-Nov-2001  3.2k
lr.ipcell                   10-Apr-2000  3.0k
lr.ipequa                   26-May-2003  1.4k
movie.com                   10-Apr-2000  445 
mp_timing.test              10-Apr-2000    0 
test.ipsolv                 03-Oct-2001  1.3k
test.ipsolv.old             10-Apr-2000  1.3k
test_output.com_broken      10-Apr-2000   27 
test_output_hpc.com_broken  10-Apr-2000    0 

Download the entire example:

Name                                 Modified     Size

examples_b_b2_b21_b211_b211o.tar.gz  14-Apr-2007   11k

Html last generated: Sun Mar 6 05:51:09 2016

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