Hoffman2:Software Tools: Difference between revisions
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=====nibabel===== | =====nibabel===== | ||
=====nifti===== | =====nifti===== | ||
=====nimfa===== | |||
:Non-negative Matrix Factorization | |||
: | |||
:[http://nimfa.biolab.si/ http://nimfa.biolab.si/] | |||
=====nipype===== | =====nipype===== | ||
=====nose===== | =====nose===== | ||
=====numpy===== | =====numpy===== | ||
=====(p)lsa===== | |||
:(probabilistic) Latent Semantic Analysis. Failed its tests.py though. | |||
:[http://www.mblondel.org/journal/2010/06/13/lsa-and-plsa-in-python/ http://www.mblondel.org/journal/2010/06/13/lsa-and-plsa-in-python/] | |||
=====pydicom===== | =====pydicom===== | ||
=====pygments===== | =====pygments===== | ||
=====PyMF===== | |||
:Python Matrix Factorization Module. Failed its tests though. | |||
:[http://pymf.googlecode.com http://pymf.googlecode.com] | |||
=====pypr===== | =====pypr===== | ||
=====PyQt4===== | =====PyQt4===== | ||
Line 56: | Line 68: | ||
=====scipy===== | =====scipy===== | ||
=====sklearn===== | =====sklearn===== | ||
=====sparsesvd===== | |||
:Singular Value Decomposition. Passed both tests. | |||
:[http://pypi.python.org/pypi/sparsesvd http://pypi.python.org/pypi/sparsesvd] | |||
=====sphinx===== | =====sphinx===== | ||
=====sympy===== | =====sympy===== |
Revision as of 16:22, 25 March 2012
Setting Up Your Account to Access the Tools
- NOTE: If you've never used a *NIX text editor, please read a bit about some of them here before proceeding.
In order to access all the great software packages that have been installed on Hoffman2 for the FMRI usergroup (list below), you need to edit your Bash Profile on the cluster. Follow these easy steps:
- SSH into Hoffman2 and make sure you are in your home directory (type the command
cd
and press enter). - Open the file .bash_profile for editing. With VIM you would type
- Paste in the lines
source /u/home/FMRI/apps/etc/profile
umask 007
- Save and close out the file
- Logout of Hoffman2. The next time you log in, extra login messages will appear and you will have access to the FMRI usergroup software packages.
List of Tools
Under Construction...
GCC
LAPACK
BLAS
GLIB
C++
CMake
CPACK
Python2.7
Packages
CVXOPT
Cython
Gnuplot
IPython
matplotlib
nibabel
nifti
nimfa
- Non-negative Matrix Factorization
- http://nimfa.biolab.si/
nipype
nose
numpy
(p)lsa
- (probabilistic) Latent Semantic Analysis. Failed its tests.py though.
pydicom
pygments
PyMF
- Python Matrix Factorization Module. Failed its tests though.
pypr
PyQt4
pytz
pywt
pyximport
scikits
scipy
sklearn
sparsesvd
- Singular Value Decomposition. Passed both tests.