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Install EMAN2 » History » Version 26

Neil Voss, 08/13/2012 08:46 PM

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h1. Install EMAN2/SPARX
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It is best to install EMAN2/SPARX from source, so that do not have conflicts with having two different versions of python on your system. Binaries of EMAN2/SPARX all come with their own python pre-installed.
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This documentation assumes you are using CentOS 6 (written as of CentOS 6.2)
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h2. Install require pre-packages for EMAN2 compiling
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* Make sure EPEL is install, if not go here: [[Download additional Software (CentOS Specific)]]
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* Use yum to install devel libraries:
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<pre>
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sudo yum install fftw-devel gsl-devel boost-python numpy \
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 PyQt4-devel cmake ipython hdf5-devel libtiff-devel libpng-devel \
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 PyOpenGL ftgl-devel db4-devel python-argparse openmpi-devel
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</pre>
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* Additionally you need to install the python-bsddb3 library (not available via YUM). I just use the pypi easy_installer, yum will never know.
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<pre>
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sudo easy_install bsddb3
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</pre>
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* Additionally you need to install the python mpi library called mpi4py (also not available via YUM). I just use the pypi easy_installer, yum will never know.
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<pre>
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sudo easy_install mpi4py
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</pre>
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h2. Download the source
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# To download the source code go to the link:
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#* http://blake.bcm.edu/emanwiki/EMAN2
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# Click on *"Current stable version - direct link"*
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# Go under the heading "Source" at bottom of page
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# Click to download the *eman-source-2.xx.tar.gz* file (as of August 2012, 2.xx is 2.06)
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h2. Work with the source
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# go to the directory with the source code
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# extract the archive:
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<pre>
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tar zxvf eman-source-2.06.tar.gz
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</pre>
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# go into directory
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<pre>cd EMAN2/src/build</pre>
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# start configure script:
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<pre>cmake ../eman2/</pre>
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#* Note: alternatively you can run @ccmake ../eman2/@ and configure all the parameters
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# start compiling:
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<pre>make</pre>
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# install to directory:
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<pre>sudo make install</pre>
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h2. Set environmental variables
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h3. bash
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<pre>sudo nano /etc/profile.d/eman2.sh</pre>
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<pre>
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export EMAN2DIR=/usr/local/EMAN2
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export PATH=${EMAN2DIR}/bin:${PATH}
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export LD_LIBRARY_PATH=${LD_LIBRARY_PATH}:${EMAN2DIR}/lib
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export PYTHONPATH=${EMAN2DIR}/lib:${EMAN2DIR}/bin
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</pre>
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h2. Test to see if code works
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see http://blake.bcm.edu/emanwiki/EMAN2/FAQ/EMAN2_unittest
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<pre>
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cd EMAN2/test/rt
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./rt.py
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</pre>
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h2. Documentation
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* http://blake.bcm.edu/emanwiki/EMAN2/Install
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* http://blake.bcm.edu/emanwiki/EMAN2/FAQ/eman2BuildFAQ
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[[Install EMAN|< Install EMAN 1]] | [[Install SPIDER|Install SPIDER >]]
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