PARADISCYL:How-To-Install

Manual 01 for ParaDiS Cylinder Codes
How to install and complie

Keonwook Kang and Wei Cai

Original date : Oct 1 , 2008

Latest update on Oct 1 , 2008

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Overview

TBD

We recommend that you read the manual of public ParaDiS codes beforehand.

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Download

Download the latest ParaDiS codes from micro repository site using subversion checkout command.

 $ mkdir ParaDiS
 $ svn co https://micro.stanford.edu/svn/ParaDiS ./ParaDiS

Note that this version of ParaDiS has branched out from the public ParaDiS codes v.2.2 downloadable from the official site. You see there are extra subdirectories such as aniso, cylinder, halfspace, matlab, thinfilm and fem in this version of ParaDiS codes. Each subdirectory contains additional source codes for its own purpose. For example, source codes in cylinder directory enable to run ParaDiS simulation of dislocations inside cylindrical geometry taking account of the image stress and Yoffe stress.

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Complie

Move into cylinder subdirectory.

$ mv ParaDiS/cylinder

There is a make description file, makefile, at the top of which, it includes ../makefile.sys and ../makefile.setup from the upper directory.

makefile.sys defines system-dependent compilers and compiling options for different systems such as linux, aix, etc. The pre-defined system types and their descriptions are listed in the head of makefile.sys file.

In makefile.setup file, you can select various 'make' settings and switches, some of which are explained below.

SYS

select system type. ex. SYS = linux

MODE

set serial or parallel mode. ex. MODE = SERIAL

XLIB_MODE

enable or disable xwindow plotting capability. ex. XLIB_MODE = ON

OPT

define optimization level. ex. OPT = -O3

In makefile, there is important macro DEFS. The cylinder codes behave differently depending on how DEFS is defined.

DEFS += -D_CYL

Needs to be included for cylinder codes.

DEFS += -D_NOBEMSTRESS

No boundary image stress will be considered.

DEFS += -D_NOYOFFESTRESS

No Yoffe stress will be considered.

DEFS += -D_NULLCYLSTRESS

Ignore all image stress. (BEM, Yoffe, Virtual seg.(??))

DEFS += -D_NOVIRTUALSEG

No force contribution from virtual segments.(??)

DEFS += -D_CYLMETHOD1

If defined, grid stress is used for image stress calculation. If not, Green stress is used.<foot>Refer C. R. Weinberger and Wei Cai, Computing Image Stress in an Elastic Cylinder, Journal of the Mechanics and Physics of Solids,55 (2007) 2027--2054</foot>

DEFS += -D_WRITENODEFORCE

Will write nodal force data in force.out file. Each line of the file contains nodal position x, y, z and nodal force f_x, f_y and f_z.

DEFS += -D_PRINTCYLSTRESS

Will write nodal force in force.out and stress in stress.out files. Each line of stress.out contains grid position r, θ, z and stress components σ₁₁, σ₂₂, σ₃₃, σ₁₂, σ₂₃, σ₃₁. (??)

Depending on your need, you can selectively define DEFS macro.

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