http://www.scipy.org/Download

Manual Install

Please see this link
http://confluence.rcs.griffith.edu.au:8080/display/GHPC/python-lapack-atlas-sparse-numpy-scipy-matplotlib

Old Notes

# cd /usr/local/src
# wget http://cdnetworks-us-2.dl.sourceforge.net/project/scipy/scipy/0.9.0/scipy-0.9.0.tar.gz
# tar xzvf scipy-0.9.0.tar.gz
# cd scipy-0.9.0
create site.cfg in numpy 

cd /usr/share/doc/numpy-1.3.0/
cp site.cfg.example site.cfg
vi /usr/share/doc/numpy-1.3.0/site.cfg

>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>>
[DEFAULT]
library_dirs = /usr/local/atlas/lib
include_dirs = /usr/local/atlas/include
[atlas]
atlas_libs = lapack, f77blas, cblas, atlas
>>>>>>>>>>>>>>>>>>>>>>

# python setup.py build 2>&1 | tee log.build
# python setup.py install --prefix=/usr/local/scipy-0.9.0rc3 2>&1 | tee log.install
# cd /usr/local ; ln -s scipy-0.9.0rc3 scipy

Installation ???????????

Install on Admin

 yum install scipy
Loaded plugins: refresh-packagekit, rhnplugin
Setting up Install Process
Resolving Dependencies
--> Running transaction check
---> Package numpy.x86_64 0:1.3.0-6.2.el6 will be installed
--> Processing Dependency: python-nose for package: numpy-1.3.0-6.2.el6.x86_64
--> Processing Dependency: liblapack.so.3()(64bit) for package: numpy-1.3.0-6.2.el6.x86_64
--> Processing Dependency: libatlas.so.3()(64bit) for package: numpy-1.3.0-6.2.el6.x86_64
--> Processing Dependency: libptf77blas.so.3()(64bit) for package: numpy-1.3.0-6.2.el6.x86_64
--> Processing Dependency: libptcblas.so.3()(64bit) for package: numpy-1.3.0-6.2.el6.x86_64
--> Running transaction check
---> Package atlas.x86_64 0:3.8.3-12.4.el6 will be installed
---> Package python-nose.noarch 0:0.10.4-3.1.el6 will be installed
--> Processing Dependency: python-setuptools for package: python-nose-0.10.4-3.1.el6.noarch
--> Running transaction check
---> Package python-setuptools.noarch 0:0.6.10-3.el6 will be installed
--> Finished Dependency Resolution

Dependencies Resolved

=============================================================================================================================================================================================================================================
 Package                                                   Arch                                           Version                                                   Repository                                                          Size
=============================================================================================================================================================================================================================================
Installing:
 numpy                                                     x86_64                                         1.3.0-6.2.el6                                             Red-Hat-Enterprise-Linux-6                                         1.6 M
Installing for dependencies:
 atlas                                                     x86_64                                         3.8.3-12.4.el6                                            Red-Hat-Enterprise-Linux-6                                         2.8 M
 python-nose                                               noarch                                         0.10.4-3.1.el6                                            Red-Hat-Enterprise-Linux-6                                         220 k
 python-setuptools                                         noarch                                         0.6.10-3.el6                                              Red-Hat-Enterprise-Linux-6                                         336 k

Transaction Summary
=============================================================================================================================================================================================================================================
Install       4 Package(s)

Total download size: 5.0 M
Installed size: 19 M

RPM install on base image

mount --bind /proc/ /compute/proc/
mount --bind /dev /compute/dev
yum --installroot=/compute/ install numpy
umount /compute/dev
umount /compute/proc

Install on all nodes (n001-n023)

Manual Install

http://www.scipy.org/Installing_SciPy/Linux
http://www.scipy.org/Download
scipy-0.9.0.tar

Installation Location: /usr/lib64/python2.6/site-packages/scipy

SciPy install

mkdir /tmp/scipy
cd /tmp/scipy
cp /tmp/scipy-0.9.0.tar.gz .
tar -zxvf scipy-0.9.0.tar.gz
cd /tmp/scipy/scipy-0.9.0

module load ATLAS/3.8.3
module load  nose/1.0.0

python setup.py build

python setup.py build --fcompiler=gnu95 install --prefix=/tmp/scipy/scipy-0.9.0 



*Read the  INSTALL.txt*

(we will use gfortran since atlas/bas were compiled using gfortran)

The installation prefix (-prefix) is required only if you want to install sciPy in a location different from your Python installation directory (e.g. you are using the default Python executable provided by your system but you do not have root permissions). In this case (only), you will have to fill the $PYTHONPATH environment variable to indicate where Python can find SciPy.
In the other cases, Python will install the module into its own installation directory, which is fine in particular when you are using a custom installation of Python. In this case you will also not have to augment the $PYTHONPATH since the module is installed in a standard location known by Python. 

To see a valid list of <Vendor> names, run::

  python setup.py config_fc --help-fcompiler

usage

TESTING
=======

To test SciPy after installation (highly recommended), execute in Python

>>> import scipy
>>> scipy.test()

To run the full test suite use

>>> scipy.test('full')

scipy on python 2.7.1-shared

mkdir /tmp/scipy
cd /tmp/scipy
cp /tmp/scipy-scipy-0.10.0.tar.gz .
tar -zxvf scipy-scipy-0.10.0.tar.gz
cd /tmp/scipy/scipy-0.10.0

module load ATLAS/3.8.3
module load  nose/1.0.0

python setup.py build

python setup.py build --fcompiler=gnu95  install --prefix=/sw/python/2.7.1-shared/



*Read the  INSTALL.txt*

(we will use gfortran since atlas/bas were compiled using gfortran)

The installation prefix (-prefix) is required only if you want to install sciPy in a location different from your Python installation directory (e.g. you are using the default Python executable provided by your system but you do not have root permissions). In this case (only), you will have to fill the $PYTHONPATH environment variable to indicate where Python can find SciPy.
In the other cases, Python will install the module into its own installation directory, which is fine in particular when you are using a custom installation of Python. In this case you will also not have to augment the $PYTHONPATH since the module is installed in a standard location known by Python. 

To see a valid list of <Vendor> names, run::

  python setup.py config_fc --help-fcompiler