Example a/advection_diffusion: Read fields in FieldML format

This example reads fields describing a 2-D advection-diffusion solution in FieldML 0.5 format.

A key feature of the FieldML format is the separation of bulk data from the description in the XML. This makes it a more efficient format for partial reading and for assessing compatibility of field descriptions before merging into existing data in memory.

Here the input file contents are as follows:

StaticAdvectionDiffusion.xml	The main FieldML input file
plate.component1.bilinearLagrange.connectivity	Indexes of 4 global nodes per element where parameters for basis interpolator.2d.unit.bilinearLagrange are obtained. These points are understood as embedded in the 2-D element chart at xi = (0,0), (1,0), (0,1), (1,1)
static_advection_diffusion.*.dofs.node	Nodal parameters for geometric, independent, source and dependent fields
static_advection_diffusion.materials.dofs.constant	Constant parameters for the material field Note: these cannot be read into cmgui yet.

In addition to text files and inline string resources, the FieldML API has support for HDF5 bulk data stores.

NOTE: This example uses the new FieldML 0.5 file format, which is only supported in development versions of Cmgui. Users of Cmgui 2.8 can change the comfile to read StaticAdvectionDiffusion_0.4.xml in FieldML 0.4 format.

The comfile run by this example is as follows:

# ***** BEGIN LICENSE BLOCK *****
# Version: MPL 1.1/GPL 2.0/LGPL 2.1
#
# The contents of this file are subject to the Mozilla Public License Version
# 1.1 (the "License"); you may not use this file except in compliance with
# the License. You may obtain a copy of the License at
# http://www.mozilla.org/MPL/
#
# Software distributed under the License is distributed on an "AS IS" basis,
# WITHOUT WARRANTY OF ANY KIND, either express or implied. See the License
# for the specific language governing rights and limitations under the
# License.
#
# The Original Code is CMISS advection diffusion visualisation example.
#
# The Initial Developer of the Original Code is
# Auckland Uniservices Ltd, Auckland, New Zealand.
# Portions created by the Initial Developer are Copyright (C) 2010
# the Initial Developer. All Rights Reserved.
#
# Alternatively, the contents of this file may be used under the terms of
# either the GNU General Public License Version 2 or later (the "GPL"), or
# the GNU Lesser General Public License Version 2.1 or later (the "LGPL"),
# in which case the provisions of the GPL or the LGPL are applicable instead
# of those above. If you wish to allow use of your version of this file only
# under the terms of either the GPL or the LGPL, and not to allow others to
# use your version of this file under the terms of the MPL, indicate your
# decision by deleting the provisions above and replace them with the notice
# and other provisions required by the GPL or the LGPL. If you do not delete
# the provisions above, a recipient may use your version of this file under
# the terms of any one of the MPL, the GPL or the LGPL.
#
# ***** END LICENSE BLOCK *****
#
# Read a solution to a 2-D advection-diffusion problem in FieldML format.
#
gfx create region advection;
# Cmgui 2.8 users should replace the following with StaticAdvectionDiffusion_0.4.xml in FieldML 0.4 format
gfx read region $example/StaticAdvectionDiffusion.xml region advection;

# The input files do not describe faces, so create them here so we can
# visualise lines.
gfx define face egroup advection;

# Create some graphics

gfx modify g_element advection general clear;
gfx modify g_element advection lines coordinate static_advection_diffusion.geometric select_on invisible material default selected_material default_selected;
gfx modify g_element advection surfaces coordinate static_advection_diffusion.geometric select_on material default data static_advection_diffusion.dependent spectrum default selected_material default_selected render_shaded;
gfx modify spectrum default autorange;

if ($TESTING)
{
	# Save the model in EX format
	gfx write elements nodes advection_diffusion.exelem;
	# Write the scene to vrml
	gfx export vrml file advection_diffusion.wrl scene default;
} else {
	gfx create window 1;
	gfx modify window 1 view perspective eye_point -2.61085 -0.266493 2.7133 interest_point 0.864045 0.53799 -0.129906 up_vector 0.555315 0.317668 0.768578 view_angle 29.6542 near_clipping_plane 0.0456135 far_clipping_plane 16.3007 relative_viewport ndc_placement -1 1 2 2 viewport_coordinates 0 0 1 1;
}

Files used by this example are:

Name                                                Modified     Size

advection_diffusion.com                             17-Mar-2014  3.1k
COPYRIGHT                                           17-Mar-2014  504 
StaticAdvectionDiffusion.xml                        17-Mar-2014  9.3k
StaticAdvectionDiffusion_0.4.xml                    17-Mar-2014  8.4k
plate.component1.bilinearLagrange.connectivity      17-Mar-2014  103k
static_advection_diffusion.dependent.dofs.node      17-Mar-2014   64k
static_advection_diffusion.geometric.dofs.node      17-Mar-2014   57k
static_advection_diffusion.independent.dofs.node    17-Mar-2014  124k
static_advection_diffusion.materials.dofs.constant  17-Mar-2014   12 
static_advection_diffusion.source.dofs.node         17-Mar-2014   69k

Download the entire example:

Name                                   Modified     Size

examples_a_advection_diffusion.tar.gz  09-Mar-2016  1.0M

Testing status by version:

Testing status by file:

• cmiss_test.log
  

  i686-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.
  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.

  
  
• advection_diffusion.exelem
  

  i686-linux
  Failure	cmgui-wx:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-memorycheck:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-valgrind:	ndiff test: significant differences with generic answer.
  x86_64-linux
  Failure	cmgui-wx:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-memorycheck:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-valgrind:	ndiff test: significant differences with generic answer.

  
  
• advection_diffusion.wrl
  

  i686-linux
  Failure	cmgui-wx:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-memorycheck:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-valgrind:	ndiff test: significant differences with generic answer.
  x86_64-linux
  Failure	cmgui-wx:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-memorycheck:	ndiff test: significant differences with generic answer.
  Failure	cmgui-wx-debug-valgrind:	ndiff test: significant differences with generic answer.

  
  

Html last generated: Wed Mar 9 16:01:17 2016

Input last modified: Wed Mar 9 15:49:37 2016