Installing NIPY for development on Fedora Linux

NOTE: The following installation instructions assume you have superuser privilege on your Fedora system. If you do not, you will not be able to use yum to install prebuilt binary RPMs from the Fedora yum repository, since they install into filesystem locations that you cannot write to. Some of these RPMs may be relocatable, meaning you can install them directly with the rpm command (after manually downloading them from the Fedora repository) specifying an install prefix in your home directory. Others will probably need to be built from source. In addition, the yum commands shown below will automatically install other dependencies for a number of these packages. So, if you must forgo yum, then you will also have to manually discover and install these other dependencies. To install Python packages locally (rather than system-wide), set your PYTHONPATH environment variable to ${HOME}/lib/python2.4/site-packages/:

export PYTHONPATH=${HOME}/lib/python2.4/site-packages/

then install as follows:

python setup.py install --prefix=${HOME}

This should replace any "sudo python setup.py install" seen below. Non-Python packages will have their own unique ways to specify install prefix, often with the configure script. Good Luck!

---

#!/bin/sh
# NIPY developer’s install script
# Fedora (tested on Fedora 4, 5 and 6)
#  - make sure you don't have compat-gcc-3.2 installed
#
# You should run this installation script logged in as a regular user.
# However, it does assume you have sudoer privileges.

## preliminary setup
# install development tools
sudo yum -y install  subversion gcc-gfortran gcc-c++
# install python
sudo yum -y install python-devel
# install
sudo yum -y install  fftw-devel swig
# create source directory
mkdir -p ~/src

## numpy installation
# install numerical libraries
sudo yum -y install atlas-devel blas-devel lapack-devel ufsparse-devel
# install numpy from source
cd ~/src
svn co http://svn.scipy.org/svn/numpy/tags/1.0.3.1 ./numpy-trunk
cd numpy-trunk
python setup.py build
sudo python setup.py install

## scipy installation
# install scipy from source
cd ~/src
svn co http://svn.scipy.org/svn/scipy/tags/0.5.2.1 ./scipy-trunk
cd scipy-trunk
echo models > Lib/sandbox/enabled_packages.txt
cat > site.cfg << EOF
[amd]
library_dirs = /usr/lib
include_dirs = /usr/include/ufsparse
amd_libs = amd

[umfpack]
library_dirs = /usr/lib
include_dirs = /usr/include/ufsparse
umfpack_libs = umfpack
EOF
python setup.py build
sudo python setup.py install

## matplotlib installation
# install widget libraries
sudo yum -y install wxPython-devel zlib-devel freetype-devel tk-devel tkinter gtk2-devel pygtk2-devel libpng-devel
#sudo yum –y install agg
# install matplotlib from source
cd ~/src
svn co https://matplotlib.svn.sourceforge.net/svnroot/matplotlib/trunk/matplotlib ./matplotlib-trunk
cd matplotlib-trunk
python setup.py build
sudo python setup.py install

## nipy installation
# install minc libraries
#sudo yum –y install netcdf-devel
#cd ~/src
#wget http://packages.bic.mni.mcgill.ca/tgz/minc-1.5.1.tar.gz
#tar xvzf minc-1.5.1.tar.gz
#cd minc-1.5.1/
#make
#sudo make install
# install nipy from source
cd ~/src
svn co http://neuroimaging.scipy.org/svn/ni/ni/trunk nipy-trunk
cd nipy-trunk
python setup.py build_ext --inplace
./test
#python setup.py build
#sudo python setup.py install
# install nipy data
cd ~/src
svn co http://neuroimaging.scipy.org/svn/ni/data/trunk nipy-data
cd nipy-data/fmri
python setup.py
# run nipy tests
cd ~/src/nipy-trunk
./test --data