PARADISCYL:Test-Run - Revision history

Cweinber at 17:02, 27 October 2008

2008-10-27T17:02:42Z

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	<DIV>		<DIV>

	This document describes the extension of the ParaDiS program that implements the cylindrical free surface boundary condition. This extension is based on Weinberger and Cai, J. Mech. Phys. Solids, 55, 2027 (2007)([http://micro.stanford.edu/~caiwei/papers/Weinberger07jmps-image.pdf PDF]). The code is written by Chris Weinberger. It is ~~owned by Chris~~ and is not included in the standard distribution of ParaDiS. Keonwook Kang wrote the first draft of this document, which was later revised by Chris Weinberger and Wei Cai. Questions on this document should be addressed to [[Chris Weinberger]]. Please read the manual of ParaDiS before reading this document.		This document describes the extension of the ParaDiS program that implements the cylindrical free surface boundary condition. This extension is based on Weinberger and Cai, J. Mech. Phys. Solids, 55, 2027 (2007)([http://micro.stanford.edu/~caiwei/papers/Weinberger07jmps-image.pdf PDF]). The code is written by Chris Weinberger and Wei Cai and is not included in the standard distribution of ParaDiS. Keonwook Kang wrote the first draft of this document, which was later revised by Chris Weinberger and Wei Cai. Questions on this document should be addressed to [[Chris Weinberger]]. Please read the manual of ParaDiS before reading this document.

	== Run a Test Case ==		== Run a Test Case ==

Caiwei at 08:50, 25 October 2008

2008-10-25T08:50:12Z

← Older revision		Revision as of 08:50, 25 October 2008
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	<DIV>		<DIV>

	This document describes the extension of the ParaDiS program that implements the cylindrical free surface boundary condition. This extension is based on Weinberger and Cai, J. Mech. Phys. Solids, 55, 2027 (2007)([http://micro.stanford.edu/~caiwei/papers/Weinberger07jmps-image.pdf PDF]). The code is written by Chris Weinberger. It is owned by Chris and is not included in the standard distribution of ParaDiS. Keonwook Kang wrote the first draft of this document, which was later revised by Chris Weinberger and Wei Cai. Please read the manual of ParaDiS before reading this document.		This document describes the extension of the ParaDiS program that implements the cylindrical free surface boundary condition. This extension is based on Weinberger and Cai, J. Mech. Phys. Solids, 55, 2027 (2007)([http://micro.stanford.edu/~caiwei/papers/Weinberger07jmps-image.pdf PDF]). The code is written by Chris Weinberger. It is owned by Chris and is not included in the standard distribution of ParaDiS. Keonwook Kang wrote the first draft of this document, which was later revised by Chris Weinberger and Wei Cai. Questions on this document should be addressed to [[Chris Weinberger]]. Please read the manual of ParaDiS before reading this document.

	== Run a Test Case ==		== Run a Test Case ==

Caiwei: /* Problems and solutions */

2008-10-25T07:51:18Z

Problems and solutions

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	=== Cannot open shared library libgsl ===		=== Cannot open shared library libgsl ===

	If ~~you~~ ~~see~~ the error message ~~below~~ ~~while~~ ~~trying~~ to run ~~ParaDiS cylinder codes,~~		Sometimes the code may compile successfully but throws the following error message when you try to run it.
	./bin/paradiscyl: error while loading shared libraries: libgsl.so.0: cannot open		./bin/paradiscyl: error while loading shared libraries: libgsl.so.0: cannot open
	shared object file: No such file or directory		shared object file: No such file or directory
	you ~~have~~ to specify the path to the GSL libraries. For example, ~~let's~~ ~~say~~ GSL ~~libraries~~ are in /usr/local/lib ~~directory. Then~~, you add the following line in '''~/.bash_profile'''		This means you need to specify the path to the GSL libraries, which are dynamically linked to the executable. For example, if your GSL library files are located in /usr/local/lib, then you can add the following line in your '''~/.bash_profile''' file

	LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib/		LD_LIBRARY_PATH=$LD_LIBRARY_PATH:/usr/local/lib/
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	When ParaDiS can not locate input files, it shows the following error message.		When ParaDiS can not locate input files, it shows the following error message.
	Fatal: ReadControlFile: Error 2 opening file XXXX		Fatal: ReadControlFile: Error 2 opening file XXXX
	~~You check~~ whether you gave the correct ~~directory or~~ ~~name~~ of input ~~files~~.		Check whether you gave the correct path for your input file.

			<!--
	=== Overflow error ===		=== Overflow error ===

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	Default GSL error handler invoked.		Default GSL error handler invoked.
	Aborted		Aborted
	~~<!--~~ Do not use method 1 temporarily.~~-->~~		Do not use method 1 temporarily.
	THIS ISSUE IS RESOLVED.		THIS ISSUE IS RESOLVED.
			-->

	=== Underflow error ===		=== Underflow error ===

	~~You~~ ~~seem to have~~ old version of ~~codes~~. ~~You~~ ~~download~~ ~~the~~ ~~latest~~ ~~version~~ or ~~suppres~~ the ~~error~~ ~~message~~ by inserting the following line into '''cylinder/gridstress.c'''		In the old version of Cylinder code, you may get an underflow error message. This can be avoided by downloading the latest version or by inserting the following line into '''cylinder/gridstress.c'''

	gsl_set_error_handler_off();		gsl_set_error_handler_off();

	You need to include the header file at the beginning of '''gridstress.c'''.		You also need to include the following header file at the beginning of '''gridstress.c'''.

	#include <gsl/gsl_errno.h>		#include <gsl/gsl_errno.h>

Caiwei: /* Tcl script to generate input data */

2008-10-25T07:39:58Z

Tcl script to generate input data

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	$ tools/create_loop_data.tcl		$ tools/create_loop_data.tcl

	You can easily modify this tcl script to change the resulting input ~~data~~ ~~file~~, such as radius of the dislocation loop.		You can easily modify this tcl script to change the resulting input dislocation structure, such as the radius of the dislocation loop.

	----		----

Caiwei: /* Tcl script to generate input data */

2008-10-25T07:39:14Z

Tcl script to generate input data

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	== Tcl script to generate input data ==		== Tcl script to generate input data ==

	In ~~ParaDiS/tools~~ ~~directory,~~ ~~there~~ is a tcl script ~~'''~~create_loop_data.tcl~~'''~~. By ~~typing~~ the ~~following~~ ~~commnad~~,		The input data file '''concentric_loop_test.data''' is generated by the tcl script[[media:create_loop_data.tcl.txt \| create_loop_data.tcl]] in the ParaDiS/tools directory, which can run by typing

	$ tools/create_loop_data.tcl		$ tools/create_loop_data.tcl

			You can easily modify this tcl script to change the resulting input data file, such as radius of the dislocation loop.
	you will get the data file '''concentric_loop_test.data''' automatically.
	By manipulating this tcl script, you can easily create a data file for your own ParaDiS simulation.

	[[media:create_loop_data.tcl.txt \| create_loop_data.tcl]]

	----		----

Caiwei: /* X Window */

2008-10-25T07:34:33Z

X Window

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	--------		--------

	== X Window ==		== X Window Control ==

	Default X Window '''control parameters''' are given in the file '''inputs/paradis.xdefaults'''.		Default X Window '''control parameters''' are given in the file '''inputs/paradis.xdefaults'''.

Caiwei: /* Tcl script to generate input data */

2008-10-25T07:33:06Z

Tcl script to generate input data

@@ Line 101: / Line 101: @@
 By manipulating this tcl script, you can easily create a data file for your own ParaDiS simulation.
-create_loop_data.tcl
+[[media:create_loop_data.tcl.txt | create_loop_data.tcl]]
 ----

Caiwei: /* Tcl script to generate data file */

2008-10-25T07:30:41Z

Tcl script to generate data file

← Older revision		Revision as of 07:30, 25 October 2008
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	----		----

	== Tcl script to generate ~~data~~ ~~file~~ ==		== Tcl script to generate input data ==

	In ParaDiS/tools directory, there is a tcl script '''create_loop_data.tcl'''. By typing the following commnad,		In ParaDiS/tools directory, there is a tcl script '''create_loop_data.tcl'''. By typing the following commnad,

Caiwei: /* X Window */

2008-10-25T07:21:24Z

X Window

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	== X Window ==		== X Window ==

	~~'''~~Default X Window control parameters''' are given in the file '''inputs/paradis.xdefaults'''.		Default X Window '''control parameters''' are given in the file '''inputs/paradis.xdefaults'''.
	You can change window size, line width, rotation of angles, ''etc'' by modifying this file.		You can change window size, line width, rotation of angles, ''etc'' by modifying this file.

Caiwei: /* X Window */

2008-10-25T07:20:49Z

X Window

← Older revision		Revision as of 07:20, 25 October 2008
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	== X Window ==		== X Window ==

	~~===~~ X Window control parameters ~~===~~		'''Default X Window control parameters''' are given in the file '''inputs/paradis.xdefaults'''.

	Default set of X window control parameters is given in the file, '''inputs/paradis.xdefaults'''.
	You can change window size, line width, rotation of angles, ''etc'' by modifying this file.		You can change window size, line width, rotation of angles, ''etc'' by modifying this file.

			The '''3D View''' in the X Window can be manipulated by both mouse and keyboard. For example, press r (default) and then move mouse to rotate the object, press s and then move mouse to scale the object. A complete list of hot keys are given below.
	=== View control ===

	Hot keys to manipulate the object displayed in the X window in Fig.1. For example, press r and then use arrow keys to rotate the object.
	<pre>		<pre>
	YWindow: yview:		YWindow: yview: