Install Xmipp » History » Revision 21
Revision 20 (Neil Voss, 05/12/2010 01:24 PM) → Revision 21/61 (Neil Voss, 05/12/2010 01:25 PM)
h1. Install Xmipp
* Download the v2.4 source code from http://xmipp.cnb.csic.es/twiki/bin/view/Xmipp/InstallingTheSoftware
* Unzip the source code:
<pre>tar zxvf Xmipp-2.4-src.tar.gz</pre>
* Go into Xmipp source directory
* Find openmpi directory
<pre>
locate libmpi.so
/usr/lib64/openmpi/1.3.2-gcc/lib/libmpi.so
</pre>
* Setup Xmipp to use openmpi by changing three lines in SConstruct
<pre>
cp -v SConstruct SConstruct.orig
</pre>
<pre>
opts.Add('MPI_INCLUDE', 'MPI headers dir ', '/usr/lib/openmpi/1.2.7-gcc/include/')
opts.Add('MPI_LIBDIR', 'MPI libraries dir ', '/usr/lib/openmpi/1.2.7-gcc/lib/')
opts.Add('MPI_LIB', 'MPI library', 'mpi')
</pre>
* Compile
<pre>
sudo mpi-selector --yes --system --set `rpm --qf '%{NAME}-%{VERSION}-gcc-%{ARCH}\n' -q openmpi`
export PATH=$PATH:/usr/lib64/openmpi/1.3.2-gcc/bin
./scons.configure
</pre>
* Look for the following line in the output:
<pre>
* Checking for MPI ... yes
</pre>
* Now compile the source code
<pre>
./scons.compile
</pre>
* Move the main source code directory to global location, like @/usr/local@
<pre>sudo mv -v Xmipp-2.4-src /usr/local/Xmipp</pre>
* Set environmental variables:
** For bash, edit xmipp.sh:
<pre>
export XMIPPDIR=/usr/local/Xmipp XMIPPDIR=/usr/local/EMAN
export PATH=${XMIPPDIR}/bin:${PATH}
export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${XMIPPDIR}/lib
</pre>
** For C shell, edit xmipp.csh:
<pre>
setenv XMIPPDIR /usr/local/Xmipp
setenv PATH ${XMIPPDIR}/bin:${PATH}
setenv LD_LIBRARY_PATH ${LD_LIBRARY_PATH}:${XMIPPDIR}/lib
</pre>
** Copy to /etc/profile.d
<pre>
sudo cp -v xmipp.sh /etc/profile.d/
sudo chmod 755 /etc/profile.d/xmipp.sh
sudo cp -v xmipp.csh /etc/profile.d/
sudo chmod 755 /etc/profile.d/xmipp.csh
</pre>
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[[Compile Ace2|< Compile Ace2]] | [[Test Appion|Test Appion >]]
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