Dear all,<br><br>Today after upgrading to 0.6 version of pymvpa, I tried to run a simple script, and on first line of my script, python raise me an error:<br><br><i>>>> from mvpa.suite import </i>*<br><i>Traceback (most recent call last):<br>
File "<stdin>", line 1, in <module><br> File "/usr/lib/pymodules/python2.6/mvpa/suite.py", line 123, in <module><br> if externals.exists('mdp ge 2.4'):<br> File "/usr/lib/pymodules/python2.6/mvpa/base/externals.py", line 544, in exists<br>
exec _KNOWN[dep]<br> File "<string>", line 1, in <module><br> File "/usr/lib/pymodules/python2.6/mdp/__init__.py", line 166, in <module><br> import nodes<br> File "/usr/lib/pymodules/python2.6/mdp/nodes/__init__.py", line 54, in <module><br>
del convolution_nodes<br>NameError: name 'convolution_nodes' is not defined</i><br><br>This is my mvpa.wtf() output<br><br>PyMVPA:<br> Version: 0.6.0~rc2<br> Hash: abd29b48d0d585cc8ba91d800a6e884d586c4027<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 2.6.35-28-generic #49-Ubuntu SMP Tue Mar 1 14:39:03 UTC 2011<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, libsvm, libsvm verbosity control, matplotlib, nibabel, nose, 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, skl, weave<br>
Absent: atlas_fsl, atlas_pymvpa, elasticnet, glmnet, hcluster, lars, lxml, mass, mdp, nipy, openopt, pprocess, pywt wp reconstruct fixed, rpy2, running ipython env, shogun.lightsvm, shogun.svrlight<br> Errors in determining: mdp ge 2.4<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> 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 = yes<br> have nose = yes<br> have weave = yes<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 = 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 = yes<br> have atlas_pymvpa = no<br> have shogun.krr = yes<br> have cpickle = yes<br>
have mdp = no<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> [general]<br> verbose = 1<br> Process Information:<br> Name: python<br>
State: R (running)<br> Tgid: 5537<br> Pid: 5537<br> PPid: 3047<br> TracerPid: 0<br> Uid: 1000 1000 1000 1000<br> Gid: 1000 1000 1000 1000<br> FDSize: 256<br> Groups: 4 20 24 46 104 114 117 1000 <br>
VmPeak: 485960 kB<br> VmSize: 485960 kB<br> VmLck: 0 kB<br> VmHWM: 82164 kB<br> VmRSS: 80472 kB<br> VmData: 68608 kB<br> VmStk: 244 kB<br> VmExe: 2152 kB<br> VmLib: 63424 kB<br>
VmPTE: 928 kB<br> VmSwap: 0 kB<br> Threads: 2<br> SigQ: 0/16382<br> SigPnd: 0000000000000000<br> ShdPnd: 0000000000000000<br> SigBlk: 0000000000000000<br> SigIgn: 0000000001001000<br>
SigCgt: 0000000180000002<br> CapInh: 0000000000000000<br> CapPrm: 0000000000000000<br> CapEff: 0000000000000000<br> CapBnd: ffffffffffffffff<br> Cpus_allowed: f<br> Cpus_allowed_list: 0-3<br> Mems_allowed: 00000000,00000001<br>
Mems_allowed_list: 0<br> voluntary_ctxt_switches: 866<br> nonvoluntary_ctxt_switches: 154<br><br><br>