Testing binary signal files.

Example b17: Testing binary signal files.

Takes a binary history generated from example b361 and produces binary signal files.

The comfile run by this example is as follows:

# Example b17:
# 2D sheet with N98-HMT used for active tension calculation - testing
# reading and writing of binary signal files.
#

# If the example path is not set, default to current directory
if (! defined $example) {
    $example = "./";
}
# Drop off the trailing / in the example path
$chopped = chop $example;
if ($chopped ne "/") {
    $example .= $chopped;
}

set echo;

$FORMAT = "binary";

# Set the output directory
$output = ".";
if (! -d $output) {
    mkdir $output,0700;
}

# The two class definitions
$MECHANICS = 1;
$CELL = 2;

# Set up the geometry 4x4 elements, bicubic Hermite basis
fem define parameter;r;$example/emech;
##**fem define node;r;$example/emech-8x8-cubic;
fem define node;r;$example/emech-4x4-cubic;
# Need a bi-cubic Hermite for geometry and fibres and a bi-linear
# for grid-based FEM
fem define base;r;$example/emech-cubic-linear;
fem define element;r;$example/emech-4x4-cubic;
# Fibres varying from 10 deg to 90 deg and back to 10 deg - with
# cubic Hermite interpolation
fem define fibre;r;$example/emech-4x4-109010;
fem define element;r;$example/emech-4x4-cubic fibre;

# Need to calculate the undeformed nodal derivatives
fem update node derivative 1 linear;
fem update node derivative 2 linear;
fem update node derivative 3 linear;

# Node/element groups to set BCs
# - the corners group will be fixed in space
# - the fixed_y group will be fixed in the y-direction
fem group node external as bdy_nodes;
#fem group node 1,10,19,28,37,46,55,64,73 as corners
fem group node 1 as corners;
fem group node 5 as fixed_y;
fem group element 1..16 as ALL_ELEMENTS;

# Set up the finite elasticity
fem define equation;r;$example/mech-cubic class $MECHANICS lock;
fem define material;r;$example/mech-cubic class $MECHANICS;
# use the cellular HMT active tension
fem define active;r;$example/mech-cubic class $MECHANICS;
fem define initial;r;$example/mech-cubic class $MECHANICS;
# Define the Newton iterative solver
fem define solve;r;$example/newton class $MECHANICS;

# Set up the N98-HMT cellular modelling - used to calculate the active 
# tension and wavefront propagation
fem define grid;r;$example/cell-18x18 class $CELL;
fem update grid geometry;
fem update grid metric;
#fem group grid xi1=0 oneoff as stimulus1_site;
fem group grid grid 1,2,3,10,11,12,19,20,21 as stimulus1_site;
fem group grid xi1 low element 3,11 as stimulus2_site;
fem group grid element ALL_ELEMENTS as ALL_GRID_POINTS;
# Use N98-HMT with grid-based FEM
fem define equation;r;$example/cell-n98_hmt class $CELL;
fem define material;r;$example/cell-n98_hmt class $CELL;
fem define cell;r;$example/cell-n98_hmt class $CELL;
fem define material;r;$example/cell-n98_hmt cell class $CELL;
fem update grid material class $CELL;
fem define initial;r;$example/cell-n98_hmt class $CELL;
# use the Adams-Moulton integrator
fem define solve;r;$example/cell-hmt-implicit-adams class $CELL;

# Initialise the cell integration
fem solve class $CELL to 0;

# Tension index for grid (YQS) and Gauss (YG) variables
##fem inquire cell_variable Tension return_variables T_GRIDARRAY,T_GRIDIDX;
fem inquire cell_variable IsometricTension return_variables T_GRIDARRAY,T_GRIDIDX;
# Fibre extension ratio index for grid (YQS) and mechanics variables
fem inquire cell_variable ExtensionRatio return_variables L_GRIDARRAY,L_GRIDIDX;
$L_MECHIDX = 1;
# and previous fibre extension ratio index for grid (YQS) and mechanics variables
fem inquire cell_variable ExtensionRatioPrevious return_variables L_GRIDARRAY_PREV,L_GRIDIDX_PREV;
# [Ca]i index for grid (YQS)
fem inquire cell_variable Cai return_variables CAI_GRIDARRAY,CAI_GRIDIDX;
# Vm index for grid (YQS)
fem inquire cell_variable Vm return_variables VM_GRIDARRAY,VM_GRIDIDX;


# Compute the CMISS signal files from the history file
set echo;
fem evaluate electrode;$output/Vm history $example/cell-n98_hmt from grid yqs iy $VM_GRIDIDX $FORMAT class $CELL;
fem evaluate electrode;$output/cai history $example/cell-n98_hmt from grid yqs iy $CAI_GRIDIDX $FORMAT class $CELL;
fem evaluate electrode;$output/tension history $example/cell-n98_hmt from grid yqs iy $T_GRIDIDX $FORMAT class $CELL;
fem evaluate electrode;$output/extension_ratio history $example/cell-n98_hmt from grid yqs iy $L_GRIDIDX $FORMAT class $CELL;

# Export to UnEMAP signal files
fem define export;r;$example/cell-4x4;
fem export signal;$output/Vm electrode signal $output/Vm;
fem export signal;$output/cai electrode signal $output/cai;
fem export signal;$output/tension electrode signal $output/tension;
fem export signal;$output/extension_ratio electrode signal $output/extension_ratio;

quit;

Files used by this example are:

Name                            Modified     Size

example_b17.com                 10-Oct-2002  4.5k
cell-18x18.ipgrid               12-Sep-2003  545 
cell-4x4.ipexpo                 10-Oct-2002  660 
cell-hmt-implicit-adams.ipsolv  13-Apr-2007  2.6k
cell-n98_hmt.binhis             10-Oct-2002  375k
cell-n98_hmt.ipcell             10-Oct-2002   11k
cell-n98_hmt.ipequa             26-May-2003  1.3k
cell-n98_hmt.ipinit             10-Oct-2002  237 
cell-n98_hmt.ipmatc             29-Jan-2003  673 
cell-n98_hmt.ipmate             10-Oct-2002  1.7k
cell.ipexpo                     10-Oct-2002  660 
emech-4x4-109010.ipfibr         10-Oct-2002  7.1k
emech-4x4-cubic.ipelem          10-Oct-2002  5.1k
emech-4x4-cubic.ipelfb          10-Oct-2002  2.5k
emech-4x4-cubic.ipnode          10-Oct-2002   15k
emech-8x8-109010.ipfibr         10-Oct-2002  6.8k
emech-8x8-cubic.ipelem          10-Oct-2002   20k
emech-8x8-cubic.ipelfb          10-Oct-2002  9.7k
emech-8x8-cubic.ipnode          10-Oct-2002   49k
emech-cubic-linear.ipbase       10-Oct-2002  2.5k
emech.ippara                    12-Nov-2002  5.9k
mech-cubic.ipacti               10-Oct-2002  253 
mech-cubic.ipequa               02-May-2004  1.8k
mech-cubic.ipinit               30-Dec-2002  1.6k
mech-cubic.ipmate               30-Dec-2002  6.4k
newton.ipsolv                   16-Aug-2010  2.7k
newton.ipsolv.old               13-Apr-2007  2.5k

Download the entire example:

Name                      Modified     Size

examples_b_b1_b17.tar.gz  17-Aug-2010  196k

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 00:05:20 2016	1
mips-irix
cm	Success	Sun Aug 19 01:34:41 2007	7
cm-debug	Success	Wed Aug 15 01:33:23 2007	23
cm-debug-clear-malloc	Success	Sat Aug 18 01:47:51 2007	49
cm-debug-clear-malloc7	Success	Mon Aug 20 01:48:41 2007	40
cm64	Success	Sun Aug 19 01:34:56 2007	8
cm64-debug	Success	Tue Aug 21 01:32:43 2007	25
cm64-debug-clear-malloc	Success	Thu Apr 1 11:10:23 2004	14
rs6000-aix
cm	Success	Wed Mar 4 01:08:07 2009	1
cm-debug	Success	Mon Mar 2 01:08:39 2009	5
cm64	Success	Wed Mar 4 01:08:43 2009	1
cm64-debug	Success	Tue Mar 3 01:13:21 2009	6
x86_64-linux
cm	Success	Sun Mar 6 00:01:04 2016	0
cm-debug	Success	Sat Mar 5 00:01:36 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.

Vm.binsig

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.

Vm.signal

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.

cai.binsig

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.

cai.signal

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.

extension_ratio.binsig

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.

extension_ratio.signal

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.

tension.binsig

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.

tension.signal

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.

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

Input last modified: Mon Aug 16 11:26:29 2010

CMISS Help / Examples / b / b1 / b17