Hi Michael,<div><br></div><div>Thanks so much for the help! Output is below.</div><div><br></div><div>Best,</div><div>Mike</div><div><br></div><div><div>In [2]: mvpa.wtf()</div><div>/Library/Frameworks/EPD64.framework/Versions/7.1/lib/python2.7/site-packages/nose/util.py:14: DeprecationWarning: The compiler package is deprecated and removed in Python 3.x.</div>
<div> from compiler.consts import CO_GENERATOR</div><div>Out[2]: </div><div>Current date: 2011-10-11 10:10</div><div>PyMVPA:</div><div> Version: 0.6.0~rc3</div><div> Hash: fd0f2809300cc25e81ee21a3a876d00d524402c1</div>
<div> Path: /Library/Frameworks/EPD64.framework/Versions/7.1/lib/python2.7/site-packages/mvpa/__init__.pyc</div><div> Version control (GIT):</div><div> GIT information could not be obtained due "/Library/Frameworks/EPD64.framework/Versions/7.1/lib/python2.7/site-packages/mvpa/.. is not under GIT"</div>
<div>SYSTEM:</div><div> OS: posix Darwin 11.0.1 Darwin Kernel Version 11.0.1: Thu Jul 28 02:01:39 PDT 2011; root:xnu-1699.23.4~1/RELEASE_X86_64</div><div> Distribution: 10.7.1/x86_64</div><div>EXTERNALS:</div>
<div> Present: cPickle, ctypes, good scipy.stats.rdist, good scipy.stats.rv_discrete.ppf, griddata, gzip, h5py, libsvm, libsvm verbosity control, lxml, matplotlib, mdp, mdp ge 2.4, nibabel, nose, numpy, pylab, pylab plottable, reportlab, scipy, skl, weave</div>
<div> Absent: atlas_fsl, atlas_pymvpa, elasticnet, glmnet, hcluster, lars, mass, nipy, nipy.neurospin, openopt, pprocess, pywt, pywt wp reconstruct, pywt wp reconstruct fixed, rpy2, running ipython env, sg ge 0.6.4, sg ge 0.6.5, sg_fixedcachesize, shogun, shogun.krr, shogun.lightsvm, shogun.mpd, shogun.svmocas, shogun.svrlight</div>
<div> Versions of critical externals:</div><div> nibabel : 1.2.0.dev</div><div> reportlab : 2.5</div><div> matplotlib : 1.0.1</div><div> scipy : 0.9.0</div><div> skl : 0.8</div><div> mdp : 3.1</div>
<div> numpy : 1.6.0</div><div> ctypes : 1.1.0</div><div> matplotlib : 1.0.1</div><div> lxml : 2.3.0</div><div> nifti : failed to query due to "nifti is not a known dependency key."</div>
<div> numpy : 1.6.0</div><div><div> Matplotlib backend: MacOSX</div><div>RUNTIME:</div><div> PyMVPA Environment Variables:</div><div> PyMVPA Runtime Configuration:</div><div> [general]</div><div> verbose = 1</div>
<div> </div><div> [externals]</div><div> have running ipython env = no</div><div> have numpy = yes</div><div> have scipy = yes</div><div> have matplotlib = yes</div><div> have lxml = yes</div><div> have nibabel = yes</div>
<div> have atlas_fsl = no</div><div> have atlas_pymvpa = no</div><div> have cpickle = yes</div><div> have ctypes = yes</div><div> have elasticnet = no</div><div> have glmnet = no</div><div> have good scipy.stats.rdist = yes</div>
<div> have good scipy.stats.rv_discrete.ppf = yes</div><div> have griddata = yes</div><div> have gzip = yes</div><div> have h5py = yes</div><div> have hcluster = no</div><div> have lars = no</div><div> have pylab = yes</div>
<div> have libsvm = yes</div><div> have libsvm verbosity control = yes</div><div> have mass = no</div><div> have mdp = yes</div><div> have mdp ge 2.4 = yes</div><div> have nipy = no</div><div> have nipy.neurospin = no</div>
<div> have nose = yes</div><div> have openopt = no</div><div> have pprocess = no</div><div> have pylab plottable = yes</div><div> have pywt = no</div><div> have pywt wp reconstruct = no</div><div> have pywt wp reconstruct fixed = no</div>
<div> have reportlab = yes</div><div> have rpy2 = no</div><div> have sg ge 0.6.4 = no</div><div> have sg ge 0.6.5 = no</div><div> have sg_fixedcachesize = no</div><div> have shogun = no</div></div><div><div> have shogun.krr = no</div>
<div> have shogun.lightsvm = no</div><div> have shogun.mpd = no</div><div> have shogun.svmocas = no</div><div> have shogun.svrlight = no</div><div> have skl = yes</div><div> have weave = yes</div><div><br></div></div>
<br><div class="gmail_quote">On Mon, Oct 10, 2011 at 3:55 AM, Michael Hanke <span dir="ltr"><<a href="mailto:mih@debian.org">mih@debian.org</a>></span> wrote:<br><blockquote class="gmail_quote" style="margin:0 0 0 .8ex;border-left:1px #ccc solid;padding-left:1ex;">
Hey,<br>
<div class="im"><br>
On Sat, Oct 08, 2011 at 01:35:06PM -0400, Mike E. Klein wrote:<br>
> Just wondering if anyone had any advice on this… I'm pretty hopelessly stuck<br>
> and would love to be able to do this RFE-based analysis.<br>
<br>
</div>Sorry for the delay and the versioning mess. Before I can say anthing<br>
about the proper RFE code, we need to figure out what PyMVPA you are<br>
actually running. Can you please post the output of<br>
<br>
>>> import mvpa<br>
>>> mvpa.wtf()<br>
<br>
That should get us started. If you get an error with 'import mvpa',<br>
please test 'import mvpa2' as you may run very recent code.<br>
<br>
Thanks,<br>
<br>
Michael<br>
<font color="#888888"><br>
--<br>
Michael Hanke<br>
<a href="http://mih.voxindeserto.de" target="_blank">http://mih.voxindeserto.de</a><br>
<br>
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