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To Thorsten and Michael thanks for reply but i thought i needed to manually install swig to help me install libsvm as the error still persists below when i do from mvpa.suite import*. I have installed latest version by using snapshot command when i run it everything is up to date it says, even though it still says pymvpa-0.6.0~rc1 from mvpa.wtf and i don't have libsvm built or installed which i need, so i tried to do it manually. I still have no success though.<br><br>Any help would be great.<br>thanks<br>Amit<br><br><br><br>from mvpa.suite import *<br>WARNING: Failed to load fast implementation of SMLR. May be you forgotten to build it. We will use much slower pure-Python version. Original exception was /home/amit/pymvpa-0.6.0~rc1/mvpa/clfs/libsmlrc/smlrc.pyd: cannot open shared object file: No such file or directory<br> * Please note: warnings are printed only once, but underlying problem might occur many times *<br>WARNING: SMLR: C implementation is not available. Using pure Python one<br>/usr/lib/pymodules/python2.6/matplotlib/numerix/__init__.py:18: DeprecationWarning: <br>**********************************************************<br>matplotlib.numerix and all its subpackages are deprecated.<br>They will be removed soon. Please use numpy instead.<br>**********************************************************<br><br><br>Current date: 2011-03-23 22:07<br>PyMVPA:<br> Version: 0.6.0~rc1<br> Hash: feda3f526efd71a5ae34f0c1fd3d8f2334d5f412<br> Path: mvpa/__init__.py<br> Version control (GIT):<br> GIT information could not be obtained due "mvpa/.. is not under GIT"<br>SYSTEM:<br> OS: posix Linux 2.6.35-22-generic #35-Ubuntu SMP Sat Oct 16 20:45:36 UTC 2010<br> Distribution: Ubuntu/10.10/maverick<br>EXTERNALS:<br> Present: cPickle, ctypes, good scipy.stats.rdist, good scipy.stats.rv_discrete.ppf, griddata, gzip, h5py, matplotlib, mdp, mdp ge 2.4, nibabel, numpy, pylab, pylab plottable, pywt, pywt wp reconstruct, reportlab, scipy, sg ge 0.6.4, sg ge 0.6.5, sg_fixedcachesize, shogun, shogun.krr, shogun.mpd, shogun.svmocas<br> Absent: atlas_fsl, atlas_pymvpa, elasticnet, glmnet, hcluster, lars, libsvm, libsvm verbosity control, lxml, mass, nipy, nose, openopt, pprocess, pywt wp reconstruct fixed, rpy2, running ipython env, shogun.lightsvm, shogun.svrlight, skl, weave<br> Versions of critical externals:<br> shogun:full : 0.9.3_r4889_2010-05-27_20:52_<br> shogun:rev : 4889<br> reportlab : 2.4<br> shogun : 0.9.3<br> matplotlib : 0.99.3<br> scipy : 0.7.2<br> mdp : 2.6<br> numpy : 1.3.0<br> ctypes : 1.1.0<br> matplotlib : 0.99.3<br> nifti : failed to query due to "nifti is not a known dependency key."<br> numpy : 1.3.0<br> pywt : 0.2.0<br> shogun : v0.9.3_r4889_2010-05-27_20:52_<br> Matplotlib backend: TkAgg<br>RUNTIME:<br> PyMVPA Environment Variables:<br> PyMVPA Runtime Configuration:<br> [externals]<br> have griddata = yes<br> have pprocess = no<br> have good scipy.stats.rdist = yes<br> have pylab plottable = yes<br> have pywt wp reconstruct = yes<br> have ctypes = yes<br> have lxml = no<br> have running ipython env = no<br> have nibabel = yes<br> have sg_fixedcachesize = yes<br> have elasticnet = no<br> have shogun.mpd = yes<br> have matplotlib = yes<br> have pywt wp reconstruct fixed = no<br> have scipy = yes<br> have reportlab = yes<br> have openopt = no<br> have libsvm = no<br> have nose = no<br> have weave = no<br> have atlas_fsl = no<br> have h5py = yes<br> have hcluster = no<br> have sg ge 0.6.4 = yes<br> have sg ge 0.6.5 = yes<br> have good scipy.stats.rv_discrete.ppf = yes<br> have skl = no<br> have mdp ge 2.4 = yes<br> have shogun.svrlight = no<br> have lars = no<br> have shogun.svmocas = yes<br> have nipy = no<br> have glmnet = no<br> have mass = no<br> have shogun = yes<br> have libsvm verbosity control = no<br> have atlas_pymvpa = no<br> have shogun.krr = yes<br> have cpickle = yes<br> have mdp = yes<br> have numpy = yes<br> have pylab = yes<br> have rpy2 = no<br> have shogun.lightsvm = no<br> have pywt = yes<br> have gzip = yes<br> <br><br><br><br><br><br><br><br><br><br><br>> Date: Wed, 23 Mar 2011 15:24:53 +0100<br>> From: thorstenkranz@googlemail.com<br>> To: pkg-exppsy-pymvpa@lists.alioth.debian.org<br>> Subject: Re: [pymvpa] SMLR shared library not found<br>> <br>> I'm not sure why the installation from NeuroDebian doesn't work for<br>> you, but maybe you have some old rests of previous installs on your<br>> box.<br>> <br>> Why would you want to install swig manuall? Just do<br>> <br>> sudo apt-get install swig<br>> <br>> or similar in a terminal, this should get you swig. It must be<br>> callable in a terminal in order to let the installation complete.<br>> <br>> Greetings,<br>> Thorsten<br>> <br>> 2011/3/23 amit patel <damitamit82@hotmail.co.uk>:<br>> > Hello<br>> ><br>> > I have installed the new updates using apt-get install python-mvpa-snapshot<br>> > from your<br>> >> NeuroDebian repository but error still persists?<br>> ><br>> > so doing it manually(following instructions) i did this<br>> ><br>> > amit@amit-MS-7346:~/pymvpa-0.6.0~rc1$ python setup.py install --with-libsvm<br>> ><br>> > i get this error<br>> > error: command 'swig' failed with exit status 1<br>> > So i presume i have to tell it where i downloaded swig? it is in<br>> > /home/amit/swig-2.0.2<br>> ><br>> > so do i do this python setup.py install --with-libsvm<br>> > [-I/home/amit/swig-2.0.2], only this does not work. Also don't i have to<br>> > tell it where libsvm-3.0 is as well?<br>> ><br>> > I am according to instructions have to do something like this<br>> ><br>> > python setup.py build_ext --with-libsvm \<br>> > [ -I<LIBSVM_INCLUDEDIR> -L<LIBSVM_LIBDIR> ]<br>> ><br>> > any help would be great......... thank you<br>> ><br>> > Amit<br>> ><br>> ><br>> ><br>> ><br>> >> Date: Tue, 22 Mar 2011 15:59:50 -0400<br>> >> From: debian@onerussian.com<br>> >> To: pkg-exppsy-pymvpa@lists.alioth.debian.org<br>> >> Subject: Re: [pymvpa] SMLR shared library not found<br>> >><br>> >> on ubuntu -- just apt-get install python-mvpa-snapshot from our<br>> >> NeuroDebian repository:<br>> >><br>> >> http://neuro.debian.net<br>> >><br>> >> otherwise follow<br>> >> http://www.pymvpa.org/installation.html#alternative-build-procedure<br>> >><br>> >> On Tue, 22 Mar 2011, amit patel wrote:<br>> >> > No such file or directory<br>> >> > * Please note: warnings are printed only once, but underlying problem<br>> >> > might occur many times *<br>> >> > WARNING: SMLR: C implementation is not available. Using pure Python one<br>> >> --<br>> >> .-.<br>> >> =------------------------------ /v\ ----------------------------=<br>> >> Keep in touch // \\ (yoh@|www.)onerussian.com<br>> >> Yaroslav Halchenko /( )\ ICQ#: 60653192<br>> >> Linux User ^^-^^ [175555]<br>> >><br>> >><br>> >><br>> >> _______________________________________________<br>> >> Pkg-ExpPsy-PyMVPA mailing list<br>> >> Pkg-ExpPsy-PyMVPA@lists.alioth.debian.org<br>> >> http://lists.alioth.debian.org/mailman/listinfo/pkg-exppsy-pymvpa<br>> ><br>> > _______________________________________________<br>> > Pkg-ExpPsy-PyMVPA mailing list<br>> > Pkg-ExpPsy-PyMVPA@lists.alioth.debian.org<br>> > http://lists.alioth.debian.org/mailman/listinfo/pkg-exppsy-pymvpa<br>> ><br>> ><br>> <br>> _______________________________________________<br>> Pkg-ExpPsy-PyMVPA mailing list<br>> Pkg-ExpPsy-PyMVPA@lists.alioth.debian.org<br>> http://lists.alioth.debian.org/mailman/listinfo/pkg-exppsy-pymvpa<br> </body>
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