[pymvpa] Installation Problem with 0.6 rc3

Sun Oct 2 19:04:58 UTC 2011

Hi, i am getting errors going through the tutorial.

#1- import mvpa2 returns ImportError: No module named mvpa2
#2- from tutorial_lib import * ImportError: No module named mvpa2.suite
#3 Suggestions or ideas on how to resolve these two errors?

Here's the relevant info and the trouble-shooting I've done.

specifically, I am getting this error in ipython when i run
*from tutorial_lib import *  *

.../tools/tutorial_lib.py in <module>()
     13
     14 # later replace with

---> 15 from mvpa2.suite import *
     16
     17 tutorial_data_path = mvpa2.cfg.get('location', 'tutorial data',
default=os.path.curdir)

ImportError: No module named mvpa2.suite

I think what is causing my problem is had version 0.4, removed 0.4 and
installed 0.6-snapshot.

>From reading the mailing list the mvpa module is version 0.4x and the mvpa2
module is 0.6x.
Initially I installed PyMVPA using sudo apt-get python-mvpa.

This installed version 0.4x.  After checking the versions, I removed mvpa
(0.4) and installed the snapshot from the Neurodebian respository.

So now I have the snapshot version, but it will only load when I use import
mvpa
Import mvpa and checking the version returns 0.6.
In [3]: mvpa.__version__
Out[3]: '0.6.0~rc3'

Import mvpa2 returns: ImportError: No module named mvpa2

Here's the output of mvpa.wtf()

In [6]: mvpa.wtf()
/usr/lib/pymodules/python2.7/nose/util.py:14: DeprecationWarning: The
compiler package is deprecated and removed in Python 3.x.
  from compiler.consts import CO_GENERATOR
Out[6]:
Current date:   2011-10-02 13:58
PyMVPA:
 Version:       0.6.0~rc3
 Hash:          fd0f2809300cc25e81ee21a3a876d00d524402c1
 Path:          /usr/lib/pymodules/python2.7/mvpa/__init__.pyc
 Version control (GIT):
 GIT information could not be obtained due
"/usr/lib/pymodules/python2.7/mvpa/.. is not under GIT"
SYSTEM:
 OS:            posix Linux 2.6.38-11-generic #50-Ubuntu SMP Mon Sep 12
21:17:25 UTC 2011
 Distribution:  Ubuntu/11.04/natty
EXTERNALS:
 Present:       atlas_fsl, 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, nipy, nose, numpy,
pylab, pylab plottable, pywt, pywt wp reconstruct, reportlab, running
ipython env, scipy, sg ge 0.6.4, sg ge 0.6.5, sg_fixedcachesize, shogun,
shogun.krr, shogun.mpd, shogun.svmocas
 Absent:        atlas_pymvpa, elasticnet, glmnet, hcluster, lars, mass,
nipy.neurospin, openopt, pprocess, pywt wp reconstruct fixed, rpy2,
shogun.lightsvm, shogun.svrlight, skl, weave
 Versions of critical externals:
  shogun:full : 0.9.3_r4889_2010-05-27_20:52_
  shogun:rev  : 4889
  nibabel     : 1.1.0
  shogun      : 0.9.3
  reportlab   : 2.5
  matplotlib  : 0.99.3
  scipy       : 0.8.0
  nipy        : 0.1.2.dev
  ipython     : 0.10.1
  mdp         : 2.6
  numpy       : 1.5.1
  ctypes      : 1.1.0
  matplotlib  : 0.99.3
  lxml        : 2.3.0
  nifti       : failed to query due to "nifti is not a known dependency
key."
  numpy       : 1.5.1
  pywt        : 0.2.0
  shogun      : v0.9.3_r4889_2010-05-27_20:52_
 Matplotlib backend: TkAgg
RUNTIME:
 PyMVPA Environment Variables:
   PyMVPA Runtime Configuration:
  [general]
  verbose = 1

  [externals]
  have running ipython env = yes
  have numpy = yes
  have scipy = yes
  have matplotlib = yes
  have lxml = yes
  have nibabel = yes
  have atlas_fsl = yes
  have atlas_pymvpa = no
  have cpickle = yes
  have ctypes = yes
  have elasticnet = no
  have glmnet = no
  have good scipy.stats.rdist = yes
  have good scipy.stats.rv_discrete.ppf = yes
  have griddata = yes
  have gzip = yes
  have h5py = yes
  have hcluster = no
  have lars = no
  have pylab = yes
  have libsvm = yes
  have libsvm verbosity control = yes
  have mass = no
  have mdp = yes
  have mdp ge 2.4 = yes
  have nipy = yes
  have nipy.neurospin = no
  have nose = yes
  have openopt = no
  have pprocess = no
  have pylab plottable = yes
  have pywt = yes
  have pywt wp reconstruct = yes
  have pywt wp reconstruct fixed = no
  have reportlab = yes
  have rpy2 = no
  have sg ge 0.6.4 = yes
  have sg ge 0.6.5 = yes
  have sg_fixedcachesize = yes
  have shogun = yes
  have shogun.krr = yes
  have shogun.lightsvm = no
  have shogun.mpd = yes
  have shogun.svmocas = yes
  have shogun.svrlight = no
  have skl = no
  have weave = no
 Process Information:
  Name:    ipython
  State:    R (running)
  Tgid:    2731
  Pid:    2731
  PPid:    21080
  TracerPid:    0
  Uid:    1000    1000    1000    1000
  Gid:    1000    1000    1000    1000
  FDSize:    256
  Groups:    4 20 24 46 112 120 122 1000
  VmPeak:      470652 kB
  VmSize:      470652 kB
  VmLck:           0 kB
  VmHWM:       78224 kB
  VmRSS:       78224 kB
  VmData:       66020 kB
  VmStk:         256 kB
  VmExe:        2236 kB
  VmLib:       71284 kB
  VmPTE:         892 kB
  VmSwap:           0 kB
  Threads:    2
  SigQ:    0/16382
  SigPnd:    0000000000000000
  ShdPnd:    0000000000000000
  SigBlk:    0000000000000000
  SigIgn:    0000000001001000
  SigCgt:    0000000180000002
  CapInh:    0000000000000000
  CapPrm:    0000000000000000
  CapEff:    0000000000000000
  CapBnd:    ffffffffffffffff
  Cpus_allowed:    ff
  Cpus_allowed_list:    0-7
  Mems_allowed:    00000000,00000001
  Mems_allowed_list:    0
  voluntary_ctxt_switches:    459
  nonvoluntary_ctxt_switches:    115

In [7]: can't invoke "event" command:  application has been destroyed
    while executing
"event generate $w <<ThemeChanged>>"
    (procedure "ttk::ThemeChanged" line 6)
    invoked from within
"ttk::ThemeChanged"
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