{"id":407,"date":"2014-08-17T19:15:45","date_gmt":"2014-08-17T17:15:45","guid":{"rendered":"http:\/\/www.graverini.net\/elena\/?page_id=407"},"modified":"2015-12-01T11:47:19","modified_gmt":"2015-12-01T10:47:19","slug":"pyroot-lxplus","status":"publish","type":"page","link":"http:\/\/www.graverini.net\/elena\/computing\/physics-software\/pyroot-lxplus\/","title":{"rendered":"PyROOT and other Python modules on CERN lxplus"},"content":{"rendered":"
Using PyROOT on lxplus<\/h5>\n

Install ROOT following the instructions on this page<\/a>. In order to use pyroot<\/strong> on LxPlus, there are further adjustments to do.<\/p>\n

First check the installation path of your python executable:<\/p>\n

which python<\/code><\/p>\n

Then export $PYTHONDIR as the path the folder above the bin and lib folder. For example:<\/p>\n

echo \"export PYTHONDIR=\/afs\/cern.ch\/sw\/lcg\/external\/Python\/2.7.3\/x86_64-slc6-gcc48-opt\" >> $HOME\/.bashrc<\/code><\/p>\n

Also update $PYTHONPATH and $LD_LIBRARY_PATH:<\/p>\n

echo \"export PYTHONPATH=$PYTHONPATH:$ROOTSYS\/lib\" >> $HOME\/.bashrc<\/code>
\necho \"export LD_LIBRARY_PATH=$ROOTSYS\/lib:$PYTHONDIR\/lib:$LD_LIBRARY_PATH:\/opt\/rh\/python27\/root\/usr\/lib64\" >> $HOME\/.bashrc<\/code><\/p>\n

Using other Python modules<\/h5>\n

To use external modules such as numpy<\/strong> or scipy<\/strong> it is almost always necessary to install them in your own afs workspace. The following example installs numpy<\/a> 1.8.2 (remember to check the latest version on SourceForge<\/a>!).<\/p>\n

mkdir my-numpy<\/code>
\ncd my-numpy<\/code>
\nwget http:\/\/switch.dl.sourceforge.net\/project\/numpy\/NumPy\/1.8.2\/numpy-1.8.2.tar.gz<\/code>
\ntar -xzf numpy-1.8.2.tar.gz<\/code>
\nmkdir INSTALL<\/code>
\ncd numpy-1.8.2<\/code>
\npython setup.py install --prefix=$HOME\/my-numpy\/INSTALL<\/code><\/p>\n

(Numpy needs to be compiled, as it includes some C++ code.)<\/p>\n

To use the compiled module, either do<\/p>\n

import sys<\/code>
\nsys.path.append('path\/to\/your\/home\/my-numpy\/INSTALL\/lib\/python2.7\/site-packages')<\/code><\/p>\n

in your python scripts, or copy the entire folder $HOME\/my-numpy\/INSTALL\/lib\/python2.7\/site-packages\/numpy (or, in other cases, the folder containing __init__.py) into your working directory, or add to $PYTHONPATH:<\/p>\n

export PYTHONPATH=path\/to\/your\/home\/my-numpy\/INSTALL\/lib\/python2.7\/site-packages:$PYTHONPATH<\/code><\/p>\n

Note that adding the install directory to $PYTHONPATH<\/code> might be needed even before installing the package, depending on the package and the python distribution.<\/p>\n","protected":false},"excerpt":{"rendered":"

Using PyROOT on lxplus Install ROOT following the instructions on this page. In order to use pyroot on LxPlus, there are further adjustments to do. First check the installation path of your python executable: which python Then export $PYTHONDIR as… <\/p>\n","protected":false},"author":1,"featured_media":0,"parent":100,"menu_order":11,"comment_status":"closed","ping_status":"open","template":"","meta":{"_exactmetrics_skip_tracking":false,"_exactmetrics_sitenote_active":false,"_exactmetrics_sitenote_note":"","_exactmetrics_sitenote_category":0,"_monsterinsights_skip_tracking":false,"_monsterinsights_sitenote_active":false,"_monsterinsights_sitenote_note":"","_monsterinsights_sitenote_category":0,"footnotes":""},"yoast_head":"\nPyROOT and other Python modules on CERN lxplus<\/title>\n<meta name=\"description\" content=\"How to use PyROOT and other Python modules on CERN lxplus machines.\" \/>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"http:\/\/www.graverini.net\/elena\/computing\/physics-software\/pyroot-lxplus\/\" \/>\n<meta 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