Stuff that should be running on every server...
Base software
Libraries
libnuma
sudo apt-get install numactl libnuma-dbg libnuma-dev libnuma1
Graphviz
yum install graphviz graphviz-devel graphviz-graphs graphviz-gd
Libjpeg
yum install libjpeg libjpeg-devel
Lapack, Blas, Atlas
yum install lapack lapack-devel blas blas-devel atlas atlas-devel
Yaml
yum install libyaml libyaml-devel
dvipng
yum install dvipng
Utilities
p7zip
- p7zip from EPEL does NOT include RAR support which we need
- Use RPMs from /afs/cs/group/infolab/software
scp akrevl@madmax:/afs/cs/group/infolab/software/p7*.rpm ./ rpm -Uvh p7zip-9.20.1-3.el6.x86_64.rpm
Ganglia
yum install ganglia-gmond
Iperf
http://sourceforge.net/projects/iperf/
yum install iperf
Fio
http://freecode.com/projects/fio
yum install fio
iftop
yum install iftop
nethogs
yum install nethogs
Tcl/Tk
yum install tk tk-devel tcl-devel tix-devel
Python 2.7
curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/python27-2.7.3-6.2.puias6.x86_64.rpm curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/python27-setuptools-0.6.27-2.puias6.noarch.rpm curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/python27-tools-2.7.3-6.2.puias6.x86_64.rpm curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/python27-libs-2.7.3-6.2.puias6.x86_64.rpm curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/tkinter27-2.7.3-6.2.puias6.x86_64.rpm curl -O http://www.elders.princeton.edu/data/PU_IAS/6.3/x86_64/os/Computational/python27-devel-2.7.3-6.2.puias6.x86_64.rpm rpm -Uvh python27-*.rpm tkinter27-2.7.3-6.2.puias6.x86_64.rpm
PyTables
sudo easy_install-2.7 Cython sudo easy_install-2.7 numexpr sudo yum install h5py27-221-188.x86_64 python-tables hdf5 hdf5-188-gcc hdf5-devel sudo easy_install-2.7 tables
PIL
easy_install-2.7 PIL
PyYAML
easy_install-2.7 pyyaml
Nose
easy_install-2.7 nose
BeautifulSoup
http://www.crummy.com/software/BeautifulSoup/
easy_install-2.7 beautifulsoup4 python2.7 from bs4 import BeautifulSoup
Numpy
easy_install-2.7 numpy
Scipy
easy_install-2.7 scipy
Matplotlib
easy_install-2.7 matplotlib
NetworkX
easy_install-2.7 networkx
PyGraphViz
http://networkx.lanl.gov/pygraphviz/
easy_install-2.7 pygraphviz
Nltk
easy_install-2.7 nltk
Scikit-learn
http://scikit-learn.org/stable/
easy_install-2.7 scikit-learn
Cvxopt
http://abel.ee.ucla.edu/cvxopt/
This package has the setup.py in the wrong directory which confuses easy_install-2.7.
curl -O "http://abel.ee.ucla.edu/src/cvxopt-1.1.5.tar.gz" tar xvfz cvxopt-1.1.5.tar.gz cd cvxopt-1.1.5/src/ python2.7 setup.py install
Tornado
http://www.tornadoweb.org/en/stable/
sudo easy_install-2.7 tornado
Python 3.3
This package is not yet a part of the standard installation.
curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-debug-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-debuginfo-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-devel-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-libs-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-test-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-tkinter-3.3.0-1.puias6.x86_64.rpm curl -O http://springdale.math.ias.edu/data/puias/computational/6/x86_64/python3-tools-3.3.0-1.puias6.x86_64.rpm rpm -Uvh python3-*.rpm
Java
Oracle Java
http://www.oracle.com/technetwork/java/index.html
# scp the file from somewhere because of the annoying license agreement rpm -Uvh jdk-7u15-linux-x64.rpm /usr/java/default/bin/java -version
Apache Ant
yum install ant
Apache Maven
curl -O "http://www.trieuvan.com/apache/maven/maven-3/3.0.4/binaries/apache-maven-3.0.4-bin.tar.gz" tar xvfz apache-maven-3.0.4-bin.tar.gz mv apache-maven-3.0.4 /usr/local/apache-maven scp akrevl@iln29:/etc/profile.d/maven.sh /etc/profile.d/
R-project
yum install R
Matlab
http://www.mathworks.com/products/matlab/
License server(s):
- rocky.stanford.edu
- eel.stanford.edu
User assignments
- sudo users:
- akrevl, rok, jure
Kernel parameters for big memory machines
#/etc/sysctl.conf vm.overcommit_ratio = 100 vm.overcommit_memory = 2