[pymvpa] Fail to install upstream/0.6.0.dev in a virtual env(Neuro Debian)
Hiroyuki AKAMA
akama.h.aa at m.titech.ac.jp
Tue Dec 14 07:25:06 UTC 2010
Dear List
I am just a beginner of pymvpa and quite new in your group (though my collaborator Brian already participated in the debates of this ML). Now I am struggling to install upstream/0.6.0.dev from the source (http://git.debian.org/?p=pkg-exppsy/pymvpa.git;a=shortlog;h=refs/tags/upstream/0.6.0.dev) in NeuroDebian on Windows 7 amd-64.
The result is as follows.
>>> import mvpa
(success. No warning)
>>> from mvpa.misc.io.base import SampleAttributes
(success. No warning)
>>> from mvpa.datasets.nifti import NiftiDataset
Traceback (most recent call last):
File "<stdin>", line 1, in <module>
ImportError: No module named nifti
I guess even though nifti is present (because 'import nifti' passes with no problem), python couldn't find it. I'll cite the result of mvpa.wtf() at the end of this mail. It would be much appreciated giving me advices. I am wondering whether it is due to the virtual environment,
(#As upstream/0.5.0.dev in
https://github.com/PyMVPA/PyMVPA/downloads
didn't work well (for example,
mvpa/tests/badexternals/__init__.py was lost
a warning message about the depreciation of verbosity.py appeared, etc.),
so I gave it up to challenge 0.6.0dev.)
Hiroyuki AKAMA
Associate Professor, Graduate School of Decision Science and Technology
Tokyo Institute of Technology,
W9-10, O-okayama, Meguro-ku, Tokyo-152-8552
Japan
akama at dp.hum.titech.ac.jp
http://www.dp.hum.titech.ac.jp
>>> mvpa.__version__
'0.6.0.dev'
>>> mvpa.wtf()
Current date: 2010-12-14 01:36
PyMVPA:
Version: 0.6.0.dev
Path: mvpa/__init__.pyc
Version control (GIT):
GIT information could not be obtained due "mvpa/.. is not under GIT"
SYSTEM:
OS: posix Linux 2.6.32-5-amd64 #1 SMP Fri Dec 10 15:35:08 UTC 2010
Distribution: debian/squeeze/sid
EXTERNALS:
Present: cPickle, ctypes, good scipy.stats.rdist, good scipy.stats.rv_discrete.ppf, griddata, gzip, matplotlib, mdp, mdp ge 2.4, nifti, nifti ge 0.20090205.1, 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
Absent: atlas_fsl, atlas_pymvpa, elasticnet, glmnet, h5py, hcluster, lars, libsvm, libsvm verbosity control, lxml, mass, nibabel, nipy, nose, openopt, pprocess, pywt wp reconstruct fixed, rpy2, running ipython env, shogun.lightsvm, shogun.svrlight, skl, weave
Versions of critical externals:
shogun:full : 0.9.3_r4889_2010-05-27_20:52_
shogun:rev : 4889
reportlab : 2.4
shogun : 0.9.3
matplotlib : 0.99.3
scipy : 0.7.2
mdp : 2.6
numpy : 1.4.1
ctypes : 1.1.0
matplotlib : 0.99.3
nifti : 0.20100607.1
numpy : 1.4.1
pywt : 0.2.0
shogun : v0.9.3_r4889_2010-05-27_20:52_
Matplotlib backend: TkAgg
RUNTIME:
PyMVPA Environment Variables:
PyMVPA Runtime Configuration:
[externals]
have griddata = yes
have pprocess = no
have good scipy.stats.rdist = yes
have pylab plottable = yes
have pywt wp reconstruct = yes
have h5py = no
have lxml = no
have running ipython env = no
have nibabel = no
have sg_fixedcachesize = yes
have elasticnet = no
have shogun.mpd = yes
have matplotlib = yes
have pywt wp reconstruct fixed = no
have scipy = yes
have reportlab = yes
have openopt = no
have libsvm = no
have shogun.krr = yes
have nifti ge 0.20090205.1 = yes
have nose = no
have weave = no
have atlas_fsl = no
have ctypes = yes
have hcluster = no
have sg ge 0.6.4 = yes
have sg ge 0.6.5 = yes
have good scipy.stats.rv_discrete.ppf = yes
have libsvm verbosity control = no
have mdp ge 2.4 = yes
have shogun.svrlight = no
have shogun = yes
have shogun.svmocas = yes
have nipy = no
have glmnet = no
have mass = no
have lars = no
have nifti = yes
have atlas_pymvpa = no
have cpickle = yes
have mdp = yes
have numpy = yes
have pylab = yes
have rpy2 = no
have shogun.lightsvm = no
have pywt = yes
have skl = no
have gzip = yes
[general]
verbose = 1
Process Information:
Name: python
State: R (running)
Tgid: 4864
Pid: 4864
PPid: 2503
TracerPid: 0
Uid: 1000 1000 1000 1000
Gid: 1000 1000 1000 1000
FDSize: 256
Groups: 24 25 27 29 30 44 46 1000
VmPeak: 373920 kB
VmSize: 373920 kB
VmLck: 0 kB
VmHWM: 63076 kB
VmRSS: 63076 kB
VmData: 55220 kB
VmStk: 252 kB
VmExe: 2164 kB
VmLib: 59288 kB
VmPTE: 708 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: 1
Cpus_allowed_list: 0
Mems_allowed: 00000000,00000001
Mems_allowed_list: 0
voluntary_ctxt_switches: 4116
nonvoluntary_ctxt_switches: 257
>>> 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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