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This documentation wiki is for the computational mechanics software from Oregon State University in the research group of John A. Nairn. This software package focuses on material point method (MPM) calculations, but also includes basic finite element analysis (FEA) calculations. The various software components in this project are listed in the navigation bar.
This documentation wiki is for the computational mechanics software from Oregon State University in the research group of [http://www.cof.orst.edu/cof/wse/faculty/Nairn/ Prof. John A. Nairn]. This software package focuses on material point method (MPM) calculations ([[OSParticulas]] and [[NairnMPM]]), but also includes basic finite element analysis (FEA) calculations ([[NairnFEA]]). The user-interface tools for setting up and visualizing calculations are [[NairnFEAMPM]] (for Mac) and [[NairnFEAMPMViz]] (for Windows and Linux).


== Getting Starting ==
== Getting Starting ==


The calculation engines for material point method (MPM) simulations are called [[OSParticulas]] and [[NairnMPM]]. The calculation engine for finite element analysis (FEA) is called [[NairnFEA]]. These are all object-oriented, C++, platform-independent code engines. The first steps to using these tools are
The calculation engines for material point method (MPM) simulations are called [[OSParticulas]] and [[NairnMPM]]. The calculation engine for finite element analysis (FEA) is called [[NairnFEA]]. These are all object-oriented, C++, platform-independent code engines. The first steps to using these tools are:


* [[Mac/Windows Requirements]]
* [[Download Source Code]]
* [[Download Source Code]]
* [[Compile the Code Engines]]
* [[Compile the Code Engines]]
* [[Options for Running Calculations]]
* [[Options for Running Calculations]]


== Visualization ==
Note that quick-trial packages with compiled binaries for code engines and libraries are available for [[NairnFEAMPM|Mac]] and [[NairnFEAMPMViz|Windows]]. Although you can run these with no additional downloads or compiling tasks, it is better to download the source code, build all needed tools, and use them to run calculations. The download/compile method is also essential for cases when the quick-trial versions do not run on your computer and to get the best versions of the code engines.


The various code engines do the calculations. Visualization of results is usually using either [[NairnFEAMPM]] (preferred, but Mac only) or [[NairnFEAMPMViz]] (Java program for Windows or Linux). For 3D analysis, some things can be visualized in [[NairnFEAMPM]]. Alternatively, calculation results can be archived as <tt>vtk</tt> files and then visualized in [[ParaView]] or an other software that can read standard <tt>vtk</tt> files. For custom visualization options, you can use the [[ExtractMPM]] tool to extract selected data in various formats and input that data and to any visualization tool you have available. If you need even more customization, you can write you own software to read output files; to make that task possible you can refer to documentation on the [[Archive File Formats|format of the archive files]].
== Input Files for Calculations ==


== Writing Input Files for Calculations ==
MPM simulations using [[OSParticulas]] or [[NairnMPM]] or FEA calculations using [[NairnFEA]] are controlled by input from an <tt>XML</tt> input file. This input file can be created manually by using any text or <tt>XML</tt> editing software. It is usually preferred, however, to use a higher-level [[Scripting Language Syntax|scripting language]] to set up the calculations and then have an interpreter format those commands into the <tt>XML</tt> files needed by the code engines. This scripting method allows for more powerful input files that are much easier to customize for a range of simulations. Scripting calculations can be done by using either the [[NairnFEAMPM]] application (Mac only) or the [[NairnFEAMPMViz]] (Java tool) application. The [[Scripting Language Syntax|scripting languages]] in these two applications are almost identical.


MPM simulations using [[OSParticulas]] or [[NairnMPM]] or FEA calculations using [[NairnFEA]] are controlled by input from an <tt>XML</tt> input file. This input file can be created manually by using any text or <tt>XML</tt> editing software. It is usually preferred, however, to use a higher-level [[Scripting Language Syntax|scripting language]] to set up the calculations and then have an interpreter format those commands into the <tt>XML</tt> files needed by the code engines. This scripting method can be done by using either the [[NairnFEAMPM]] application (Mac only) or the [[NairnFEAMPMViz]] (Java tool) application. The [[Scripting Language Syntax|scripting languages]] in these two applications are almost identical.
==== MPM and FEA Input Files ====


The bulk of the documentation in this wiki is involved with describing the features of the software and explaining the input commands needed to use those features. The features and input commands documentation for MPM or FEA calculations are in the following sections:
The bulk of the documentation in this wiki is involved with describing the features of the software and explaining the input commands needed to use those features. The features and input commands documentation for MPM or FEA calculations are in the following sections:
Line 22: Line 23:
* [[FEA Input Files|Input Files for FEA Calculations]]
* [[FEA Input Files|Input Files for FEA Calculations]]


==== Documentation Notes ====
==== Input File Documentation Notes ====


Scripted input files are comprised of a series of commands an <tt>XML</tt> input files are comprised of a series of <tt>XML</tt> elements. This documentation will explain these commands and elements using the style:
Scripted input files are comprised of a series of commands and <tt>XML</tt> input files are comprised of a series of <tt>XML</tt> elements. This documentation will explain these commands and elements using the style:


   Command (arg1),(arg2),<(arg3)>,<(arg4)>
   Command (arg1),(arg2),<(arg3)>,<(arg4)>
Line 36: Line 37:
* <tt>attr1</tt>, <tt>attr2</tt>, ''etc.'', are attributes to the <tt>XML</tt> element.
* <tt>attr1</tt>, <tt>attr2</tt>, ''etc.'', are attributes to the <tt>XML</tt> element.


== Format of Output Files ==
== Visualization ==
 
Once you have created input files and run calculations, you will want to visualize and analyze the results. These tasks can be done by a variety of methods:
 
* [[NairnFEAMPM]] - this application (which is the preferred choice, but Mac only) can do lots of visualization. For 3D it can visualize some results in particle plots only and time plots, but is more limited than some other 3D graphics tools.
* [[NairnFEAMPMViz]] - this application (Java program for Windows or Linux) has many options for 2D visualization, but for 3D. it can only plot results version time.
* [[ParaView]] - to use this free, multi-platform tool, your the results have to be archived as VTK files (by using the [[VTKArchive Custom Task]]) or extracted to VTK files using [[ExtractMPM]]. The custom task get grid-based plots and the later gets particle-based plots.
* VTK Legacy Files - VTK files output by the [[VTKArchive Custom Task]] can potentially be read by other graphics tools besides [[ParaView]] (it is a common file format for graphics tools).
* [[ExtractMPM]] - for customizable visualization options, you can use the [[ExtractMPM]] tool to extract selected data in various formats and input that data to any visualization tool you have available. This tool can extract data to plain text files, tab-delimited spread sheats, <tt>XML</tt> files, and VTK files.
 
The visualization tools in the <tt>nairn-mpm-fea</tt> project ([[NairnFEAMPM]], [[NairnFEAMPMViz]], and [[ExtractMPM]]) automatically support all archive output file formats created by [[NairnMPM]] and [[NairnFEA]] and therefore can read them all. If you need even more customization, you can always write your own software tool to read output files and process the data however you want. To proceed along this task, you need to know the format of the output files:
 
* [[Archive File Formats]] - this help topic documents the output files created by [[NairnMPM]] and [[NairnFEA]].
 
== Acknowledgments ==
 
This project is being developed as part of the author's research program. This program has been supported
by various organizations. Some specific acknowledgments go to:
 
<ul>
<li><b>Department of Agriculture (USDA)</b>
<ul>
<li>McIntire-Stennis account #229862, project #OREZ-WSE-849-U</li>
<li>National Institute of Food and Agriculture (NIFA), #2013-34638-21483</li>
<li>Forest Products Lab, #11-JV-11111129-137</li>
<li>Cooperative Research, Education and Extension Service (CREES), #2006-35504-17444
</ul>
</li>
<li><b>National Science Foundation (NSF)</b>
<ul>
<li>CMMI 1161305
<li>Industry/University Cooperative Research Center for Wood Based Composites #IIP-1034975</li>
<li>Mechanics of Materials program: CMS-9713356</li>
<li>Mechanics of Materials program: CMS-940177</li>
</ul>
</li>
 
<li><b>Small Business Grants</b>
<ul>
<li>Small Business Technology Transfer (STTR) contract with Eglin Air Base #FA8651-15-M-0298</li>
</ul>
</li>
 
<li><b>Department of Energy (DOE)</b>
<ul>
<li>Nanotechnology Grant Subcontract 2103050</li>
<li>Center for the Simulation of Accidental Fires and Explosions (C-SAFE), Lawrence
              Livermore National Laboratory, under Subcontract B341493</li>
</ul>
</li>
 


The various visualization tools automatically read output files created by these code engines. If you need to access the output files with alternative software, the format of those files are documented [[Archive File Formats|here]].
</ul>

Revision as of 14:49, 25 April 2021

This documentation wiki is for the computational mechanics software from Oregon State University in the research group of Prof. John A. Nairn. This software package focuses on material point method (MPM) calculations (OSParticulas and NairnMPM), but also includes basic finite element analysis (FEA) calculations (NairnFEA). The user-interface tools for setting up and visualizing calculations are NairnFEAMPM (for Mac) and NairnFEAMPMViz (for Windows and Linux).

Getting Starting

The calculation engines for material point method (MPM) simulations are called OSParticulas and NairnMPM. The calculation engine for finite element analysis (FEA) is called NairnFEA. These are all object-oriented, C++, platform-independent code engines. The first steps to using these tools are:

Note that quick-trial packages with compiled binaries for code engines and libraries are available for Mac and Windows. Although you can run these with no additional downloads or compiling tasks, it is better to download the source code, build all needed tools, and use them to run calculations. The download/compile method is also essential for cases when the quick-trial versions do not run on your computer and to get the best versions of the code engines.

Input Files for Calculations

MPM simulations using OSParticulas or NairnMPM or FEA calculations using NairnFEA are controlled by input from an XML input file. This input file can be created manually by using any text or XML editing software. It is usually preferred, however, to use a higher-level scripting language to set up the calculations and then have an interpreter format those commands into the XML files needed by the code engines. This scripting method allows for more powerful input files that are much easier to customize for a range of simulations. Scripting calculations can be done by using either the NairnFEAMPM application (Mac only) or the NairnFEAMPMViz (Java tool) application. The scripting languages in these two applications are almost identical.

MPM and FEA Input Files

The bulk of the documentation in this wiki is involved with describing the features of the software and explaining the input commands needed to use those features. The features and input commands documentation for MPM or FEA calculations are in the following sections:

Input File Documentation Notes

Scripted input files are comprised of a series of commands and XML input files are comprised of a series of XML elements. This documentation will explain these commands and elements using the style:

 Command (arg1),(arg2),<(arg3)>,<(arg4)>
 <Command attr1='(arg1)' attr2='(arg2)'>(arg3)</Command>

where

  • Command is the command name.
  • (arg1),(arg2), etc., specify arguments whose function will be explained along with the command.
  • <(arg3)> - enclosing an argument in angle brackets indicates an optional argument. If the argument is omitted, the code will assume some default value.
  • attr1, attr2, etc., are attributes to the XML element.

Visualization

Once you have created input files and run calculations, you will want to visualize and analyze the results. These tasks can be done by a variety of methods:

  • NairnFEAMPM - this application (which is the preferred choice, but Mac only) can do lots of visualization. For 3D it can visualize some results in particle plots only and time plots, but is more limited than some other 3D graphics tools.
  • NairnFEAMPMViz - this application (Java program for Windows or Linux) has many options for 2D visualization, but for 3D. it can only plot results version time.
  • ParaView - to use this free, multi-platform tool, your the results have to be archived as VTK files (by using the VTKArchive Custom Task) or extracted to VTK files using ExtractMPM. The custom task get grid-based plots and the later gets particle-based plots.
  • VTK Legacy Files - VTK files output by the VTKArchive Custom Task can potentially be read by other graphics tools besides ParaView (it is a common file format for graphics tools).
  • ExtractMPM - for customizable visualization options, you can use the ExtractMPM tool to extract selected data in various formats and input that data to any visualization tool you have available. This tool can extract data to plain text files, tab-delimited spread sheats, XML files, and VTK files.

The visualization tools in the nairn-mpm-fea project (NairnFEAMPM, NairnFEAMPMViz, and ExtractMPM) automatically support all archive output file formats created by NairnMPM and NairnFEA and therefore can read them all. If you need even more customization, you can always write your own software tool to read output files and process the data however you want. To proceed along this task, you need to know the format of the output files:

Acknowledgments

This project is being developed as part of the author's research program. This program has been supported by various organizations. Some specific acknowledgments go to:

  • Department of Agriculture (USDA)
    • McIntire-Stennis account #229862, project #OREZ-WSE-849-U
    • National Institute of Food and Agriculture (NIFA), #2013-34638-21483
    • Forest Products Lab, #11-JV-11111129-137
    • Cooperative Research, Education and Extension Service (CREES), #2006-35504-17444
  • National Science Foundation (NSF)
    • CMMI 1161305
    • Industry/University Cooperative Research Center for Wood Based Composites #IIP-1034975
    • Mechanics of Materials program: CMS-9713356
    • Mechanics of Materials program: CMS-940177
  • Small Business Grants
    • Small Business Technology Transfer (STTR) contract with Eglin Air Base #FA8651-15-M-0298
  • Department of Energy (DOE)
    • Nanotechnology Grant Subcontract 2103050
    • Center for the Simulation of Accidental Fires and Explosions (C-SAFE), Lawrence Livermore National Laboratory, under Subcontract B341493