Install EMAN2 » History » Version 23
Neil Voss, 08/13/2012 08:40 PM
| 1 | 1 | Neil Voss | h1. Install EMAN2/SPARX |
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| 3 | 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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| 4 | 2 | Neil Voss | |
| 5 | 6 | Neil Voss | This documentation assumes you are using CentOS 6 (written as of CentOS 6.2) |
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| 7 | h2. Install require pre-packages for EMAN2 compiling |
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| 9 | 7 | Neil Voss | * Make sure EPEL is install, if not go here: [[Download additional Software (CentOS Specific)]] |
| 10 | * Use yum to install devel libraries: |
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| 11 | <pre> |
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| 12 | 10 | Neil Voss | sudo yum install fftw-devel gsl-devel boost-python numpy \ |
| 13 | 12 | Neil Voss | PyQt4-devel cmake ipython hdf5-devel libtiff-devel libpng-devel \ |
| 14 | 21 | Neil Voss | PyOpenGL ftgl-devel db4-devel python-argparse |
| 15 | 8 | Neil Voss | </pre> |
| 16 | 22 | Neil Voss | * Additionally you need to install the python-bsddb3 library (not available via YUM). I just use the pypi easy_installer, yum will never know. |
| 17 | <pre> |
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| 18 | sudo easy_install bsddb3 |
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| 19 | </pre> |
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| 20 | 8 | Neil Voss | |
| 21 | 3 | Neil Voss | h2. Download the source |
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| 23 | # To download the source code go to the link: |
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| 24 | #* http://blake.bcm.edu/emanwiki/EMAN2 |
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| 25 | # Click on *"Current stable version - direct link"* |
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| 26 | # Go under the heading "Source" at bottom of page |
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| 27 | 17 | Neil Voss | # Click to download the *eman-source-2.xx.tar.gz* file (as of August 2012, 2.xx is 2.06) |
| 28 | 3 | Neil Voss | |
| 29 | h2. Work with the source |
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| 30 | |||
| 31 | # go to the directory with the source code |
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| 32 | # extract the archive: |
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| 33 | <pre> |
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| 34 | tar zxvf eman-source-2.06.tar.gz |
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| 35 | </pre> |
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| 36 | 4 | Neil Voss | # go into directory |
| 37 | 1 | Neil Voss | <pre>cd EMAN2/src/build</pre> |
| 38 | 15 | Neil Voss | # start configure script: |
| 39 | <pre>cmake ../eman2/</pre> |
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| 40 | 19 | Neil Voss | #* Note: alternatively you can run @ccmake ../eman2/@ and configure all the parameters |
| 41 | 11 | Neil Voss | # start compiling: |
| 42 | 15 | Neil Voss | <pre>make</pre> |
| 43 | 18 | Neil Voss | # install to directory: |
| 44 | <pre>sudo make install</pre> |
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| 45 | 3 | Neil Voss | |
| 46 | 23 | Neil Voss | h2. Set environmental variables |
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| 48 | h3. bash |
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| 49 | |||
| 50 | <pre>sudo nano /etc/profile.d/eman2.sh</pre> |
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| 52 | <pre> |
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| 53 | |||
| 54 | </pre> |
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| 57 | 16 | Neil Voss | h2. Test to see if code works |
| 58 | |||
| 59 | see http://blake.bcm.edu/emanwiki/EMAN2/FAQ/EMAN2_unittest |
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| 60 | |||
| 61 | <pre> |
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| 62 | cd EMAN2/test/rt |
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| 63 | ./rt.py |
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| 64 | </pre> |
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| 65 | |||
| 66 | 3 | Neil Voss | h2. Documentation |
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| 68 | * http://blake.bcm.edu/emanwiki/EMAN2/Install |
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| 69 | 9 | Neil Voss | * http://blake.bcm.edu/emanwiki/EMAN2/FAQ/eman2BuildFAQ |
| 70 | 3 | Neil Voss | |
| 71 | 2 | Neil Voss | ______ |
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| 73 | [[Install EMAN|< Install EMAN 1]] | [[Install SPIDER|Install SPIDER >]] |
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| 74 | |||
| 75 | ______ |