<div>Wow, this is my version information.</div>
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<div>Current date: 2011-07-26 10:30<br>PyMVPA:<br> Version: 0.6.0~rc2<br> Hash: abd29b48d0d585cc8ba91d800a6e884d586c4027<br> Path: /usr/local/neurosoft/lib/python2.6/site-packages/mvpa/__init__.pyc<br>
Version control (GIT):<br> GIT information could not be obtained due "/usr/local/neurosoft/lib/python2.6/site-packages/mvpa/.. is not under GIT"<br>SYSTEM:<br> OS: posix Linux 2.6.18-164.el5 #1 SMP Thu Sep 3 03:28:30 EDT 2009<br>
Distribution: redhat/5.4/Final<br>EXTERNALS:<br> Present: cPickle, ctypes, good scipy.stats.rdist, good scipy.stats.rv_discrete.ppf, griddata, gzip, h5py, libsvm, libsvm verbosity control, matplotlib, nibabel, nose, numpy, pylab, pylab plottable, running ipython env, scipy, weave<br>
Absent: atlas_fsl, atlas_pymvpa, elasticnet, glmnet, hcluster, lars, lxml, mass, mdp, mdp ge 2.4, nipy, openopt, pprocess, pywt, pywt wp reconstruct, pywt wp reconstruct fixed, reportlab, rpy2, sg ge 0.6.4, sg ge 0.6.5, sg_fixedcachesize, shogun, shogun.krr, shogun.lightsvm, shogun.mpd, shogun.svmocas, shogun.svrlight, skl<br>
Versions of critical externals:<br> ipython : 0.10.1<br> scipy : 0.8.0<br> numpy : 1.5.1<br> matplotlib : 1.0.1<br> ctypes : 1.1.0<br> matplotlib : 1.0.1<br> nifti : failed to query due to "nifti is not a known dependency key."<br>
numpy : 1.5.1<br> Matplotlib backend: TkAgg<br></div>
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<div>Zonglei Zhen<br><br></div>
<div class="gmail_quote">On Tue, Jul 26, 2011 at 10:24 AM, Yaroslav Halchenko <span dir="ltr"><<a href="mailto:debian@onerussian.com">debian@onerussian.com</a>></span> wrote:<br>
<blockquote style="BORDER-LEFT: #ccc 1px solid; MARGIN: 0px 0px 0px 0.8ex; PADDING-LEFT: 1ex" class="gmail_quote">please share the output of mvpa.wtf() which would answer<br>"version" question<br><br>because with rc4 (although seems to be reported as rc3 :-/ ) and current<br>
master everything seems to be ok on my box:<br><br>In [1]: from mvpa.suite import *<br>h5load/usr/lib/pymodules/python2.6/nose/plugins/manager.py:405: UserWarning: Module paste was already imported from None, but /usr/lib/python2.6/dist-packages is being added to sys.path<br>
import pkg_resources<br><br>In [2]: dataset = h5load('att.gzipped.hdf5')<br><br>In [3]: print dataset.summary()<br>Dataset: 72x821@float32, <sa: chunks,targets,time_coords,time_indices>, <fa: voxel_indices>, <a: imghdr,mapper,voxel_dim,voxel_eldim><br>
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<div class="h5">stats: mean=-5.2752e-08 std=0.999996 var=0.999993 min=-3.02555 max=3.05246<br><br>Counts of targets in each chunk:<br> chunks\targets attf attm<br> --- ---<br> 0.0 6 6<br>
1.0 6 6<br> 2.0 6 6<br> 3.0 6 6<br> 4.0 6 6<br> 5.0 6 6<br><br>Summary for targets across chunks<br> targets mean std min max #chunks<br> attf 6 0 6 6 6<br>
attm 6 0 6 6 6<br><br>Summary for chunks across targets<br> chunks mean std min max #targets<br> 0 6 0 6 6 2<br> 1 6 0 6 6 2<br> 2 6 0 6 6 2<br> 3 6 0 6 6 2<br>
4 6 0 6 6 2<br> 5 6 0 6 6 2<br>Sequence statistics for 72 entries from set ['attf', 'attm']<br>Counter-balance table for orders up to 2:<br>Targets/Order O1 | O2 |<br>
attf: 30 6 | 24 12 |<br> attm: 5 30 | 10 24 |<br>Correlations: min=-1 max=1 mean=-0.014 sum(abs)=35<br><br></div></div>In [4]: gnbsl = sphere_gnbsearchlight(GNB(),NFoldPartitioner(),radius=3,postproc=mean_sample())<br>
<br>In [5]: slmap = gnbsl(dataset)<br><br>In [6]: print slmap.summary()<br>Dataset: 1x821@float64, <a: mapper> stats: mean=0.473186 std=0.0686585 var=0.00471399 min=0.319444 max=0.652778<br><br><br>In [7]: print mvpa.__version__<br>
0.6.0~rc3<br><br>In [8]: print mvpa.wtf()<br>Current date: 2011-07-25 22:19<br>PyMVPA:<br> Version: 0.6.0~rc3<br> Hash: fd0f2809300cc25e81ee21a3a876d00d524402c1<br> Path: /usr/lib/pymodules/python2.6/mvpa/__init__.pyc<br>
Version control (GIT):<br> GIT information could not be obtained due "/usr/lib/pymodules/python2.6/mvpa/.. is not under GIT"<br>SYSTEM:<br> OS: posix Linux 2.6.38-2-amd64 #1 SMP Thu Apr 7 04:28:07 UTC 2011<br>
Distribution: debian/wheezy/sid<br>EXTERNALS:<br> Present: atlas_fsl, atlas_pymvpa, cPickle<br>....<br>
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<div class="h5"><br>On Mon, 25 Jul 2011, Yaroslav Halchenko wrote:<br><br>> ah -- that is why mailman refused first to post -- kind you shared the<br>> 1MB dataset with the list ;) ok -- will have a look<br><br>> On Tue, 26 Jul 2011, Zhen Zonglei wrote:<br>
<br>> > Thanks very much, Yarik.<br><br>> > The fellowing the summary of dataset. For hdf5 file, please see<br>> > attachments.<br>--<br>=------------------------------------------------------------------=<br>
Keep in touch <a href="http://www.onerussian.com/" target="_blank">www.onerussian.com</a><br>Yaroslav Halchenko <a href="http://www.ohloh.net/accounts/yarikoptic" target="_blank">www.ohloh.net/accounts/yarikoptic</a><br>
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