Difference between revisions of "User:Torben Rasmussen (NSC)/SweGrid old/RE"
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== APPS/MATH/OCTAVE == | == APPS/MATH/OCTAVE == | ||
| − | === Building Octave (CentOS 5.x) === | + | === Building Octave 3.2.4 (CentOS 5.x) === |
| − | Download from ftp://ftp.gnu.org/gnu/octave | + | Download from ftp://ftp.gnu.org/gnu/octave |
Required build packages: | Required build packages: | ||
| − | glpk-devel | + | * glpk-devel |
| − | qrupdate-devel | + | * qrupdate-devel |
| − | hdf5-devel | + | * hdf5-devel |
| − | fftw-devel | + | * fftw-devel |
| − | qhull-devel | + | * qhull-devel |
| − | curl-devel | + | * curl-devel |
| − | arpack-devel | + | * arpack-devel |
| − | readline-devel | + | * readline-devel |
| − | pcre-devel | + | * pcre-devel |
| − | gnuplot | + | * gnuplot |
| − | suitesparse-devel | + | * suitesparse-devel |
| − | texinfo | + | * texinfo |
| + | |||
| + | Required runtime packages: | ||
| + | |||
| + | * glpk | ||
| + | * qrupdate | ||
| + | * hdf5 | ||
| + | * fftw | ||
| + | * qhull | ||
| + | * curl | ||
| + | * arpack | ||
| + | * readline | ||
| + | * pcre | ||
| + | * gnuplot | ||
| + | * suitesparse | ||
Packages built from source: | Packages built from source: | ||
| Line 33: | Line 47: | ||
F77="gfortran" | F77="gfortran" | ||
| − | ./configure --prefix=$INSTALLDIR --with-blas=$BLASDIR --with-lapack=$LAPACKLIB --without-curl --disable-docs</pre | + | ./configure --prefix=$INSTALLDIR --with-blas=$BLASDIR --with-lapack=$LAPACKLIB --without-curl --disable-docs</pre> |
Build octave: | Build octave: | ||
| Line 72: | Line 86: | ||
case "$1" in | case "$1" in | ||
| + | 0 ) | ||
| + | # --- Called before job script creation --- | ||
| + | ;; | ||
| + | |||
1 ) | 1 ) | ||
| − | + | # --- Called before execution of job script on node --- | |
| − | + | ||
| − | + | # Setup octave home directory | |
| − | + | export OCTAVE_HOME=/sw/pkg/octave/3.2.4 | |
| − | |||
| + | # include HMMer binaries in the path | ||
| + | export PATH=$PATH:$OCTAVE_HOME/bin | ||
;; | ;; | ||
| − | + | 2 ) | |
| − | + | # --- Called after job execution on node --- | |
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
| − | |||
;; | ;; | ||
esac</pre> | esac</pre> | ||
copy the file under [RE-dir]/APPS/MATH/OCTAVE-3.2.4 | copy the file under [RE-dir]/APPS/MATH/OCTAVE-3.2.4 | ||
Latest revision as of 14:29, 8 July 2011
APPS/MATH/OCTAVE
Building Octave 3.2.4 (CentOS 5.x)
Download from ftp://ftp.gnu.org/gnu/octave
Required build packages:
- glpk-devel
- qrupdate-devel
- hdf5-devel
- fftw-devel
- qhull-devel
- curl-devel
- arpack-devel
- readline-devel
- pcre-devel
- gnuplot
- suitesparse-devel
- texinfo
Required runtime packages:
- glpk
- qrupdate
- hdf5
- fftw
- qhull
- curl
- arpack
- readline
- pcre
- gnuplot
- suitesparse
Packages built from source:
GotoBLAS2 - BLAS/LAPACK http://www.tacc.utexas.edu/tacc-projects/gotoblas2/
Configuration script (conf_octave):
#!/bin/sh INSTALLDIR=/sw/pkg/octave/3.2.4 BLASLIB=/sw/pkg/gotoblas2/1.13/lib/libgoto2.a LAPACKLIB=/sw/pkg/gotoblas2/1.13/lib/libgoto2.a F77="gfortran" ./configure --prefix=$INSTALLDIR --with-blas=$BLASDIR --with-lapack=$LAPACKLIB --without-curl --disable-docs
Build octave:
$ ./conf_octave $ make
Test octave:
$ make test
The imread test will fail as we haven't configured it.
Install octave:
$ su $ make install
Setting up runtime environment
The following runtime script can be used. Please replace with your own search paths:
#!/bin/bash # # OCTAVE runtime environment script for Nordugrid ARC # # Runtime environment scripts are called (bash source) # from NorduGrid ARC with argument 0,1 or 2. # First call with argument "0" is made before the the batch # job submission script is written. # Second call is made with argument "1" just prior to execution of the # user specified executable. # Third "clean-up" call is made with argument "2" after the user # specified executable has returned. # # author: Jonas Lindemann <jonas.lindemann@lunarc.lu.se> # case "$1" in 0 ) # --- Called before job script creation --- ;; 1 ) # --- Called before execution of job script on node --- # Setup octave home directory export OCTAVE_HOME=/sw/pkg/octave/3.2.4 # include HMMer binaries in the path export PATH=$PATH:$OCTAVE_HOME/bin ;; 2 ) # --- Called after job execution on node --- ;; esac
copy the file under [RE-dir]/APPS/MATH/OCTAVE-3.2.4
