[pymvpa] Problem About running mvpa2 tutorial

[Yaroslav Halchenko]

cool -- thanks Ceyhun for the troubleshooting... so to prevent this
madness with uppercasing unicode-sensitivity indeed your patch makes
sense so I have committed it (done independently with sed ;-) ) 
https://github.com/PyMVPA/PyMVPA/commit/e2e8cefb5647c718cee7711bd877b681502d26c8

Thanks!

On Mon, 15 Oct 2012, Ceyhun Çakar wrote:

> Hello Yaroslav,

> I think I've understood and solved the problem. Because issue is about
> Turkish Localization of Linux, only Turkish user can see this problem.
> Nevertheless I am sending my solution.

> I Turkish capital of i is different than English as below.
> Capital of  'i' is 'İ' in Turkish (Unicode Number 0x130)
> Lower case of 'I' is 'ı' in Turkish (Unicode Number 0x131)

> So, 'aligned' does not match with 'ALIGNED' in Turkish. But code
> assumes this in mvpa2/clfs/libsmlrc/ctypes_helper.py

> When I use below patch to this file, problem solved.

> *** ctypes_helper_original.py	2012-10-15 21:39:35.807810206 +0300
> --- ctypes_helper.py	2012-10-15 21:28:24.496481350 +0300
> ***************
> *** 12,21 ****
>   import ctypes as C

>   # define an array type to help with wrapping
> ! c_darray = np.ctypeslib.ndpointer(dtype=np.float64,
> flags='aligned,contiguous')
> ! c_larray = np.ctypeslib.ndpointer(dtype=np.int64, flags='aligned,contiguous')
> ! c_farray = np.ctypeslib.ndpointer(dtype=np.float32,
> flags='aligned,contiguous')
> ! c_iarray = np.ctypeslib.ndpointer(dtype=np.int32, flags='aligned,contiguous')

>   def extend_args(*args):
>       """Turn ndarray arguments into dims and arrays."""
> --- 12,21 ----
>   import ctypes as C

>   # define an array type to help with wrapping
> ! c_darray = np.ctypeslib.ndpointer(dtype=np.float64,
> flags='ALIGNED,CONTIGUOUS')
> ! c_larray = np.ctypeslib.ndpointer(dtype=np.int64, flags='ALIGNED,CONTIGUOUS')
> ! c_farray = np.ctypeslib.ndpointer(dtype=np.float32,
> flags='ALIGNED,CONTIGUOUS')
> ! c_iarray = np.ctypeslib.ndpointer(dtype=np.int32, flags='ALIGNED,CONTIGUOUS')

>   def extend_args(*args):
>       """Turn ndarray arguments into dims and arrays."""

> Thank you for your immediate help.
> Ceyhun Çakar


> On Mon, Oct 15, 2012 at 5:31 AM, Yaroslav Halchenko
> <debian at onerussian.com> wrote:

> > On Sun, 14 Oct 2012, Ceyhun Çakar wrote:
> >> PyMVPA:
> >>  Version:       2.0.0

> > before we explore much more -- could you please upgrade to 2.2.0
> > packages for which we provide from NeuroDebian http://neuro.debian.net/

> >>   PYTHONPATH          :
> >> ":/home/ceyhun:/usr/lib/python2.7/plat-linux2:/usr/local/lib/python2.7/dist-packages/PyBrain-0.3.1-py2.7.egg:/usr/lib/python2.7/dist-packages/ubuntuone-control-panel:/usr/lib/python2.7/dist-packages/ubuntuone-couch:/usr/local/lib/python2.7/dist-packages/Orange/orng:/usr/lib/python2.7/dist-packages:/usr/lib/python2.7/dist-packages/IPython/extensions:/usr/lib/python2.7:/usr/lib/python2.7/dist-packages/wx-2.8-gtk2-unicode:/usr/local/lib/python2.7/dist-packages/setproctitle-1.1.6-py2.7-linux-x86_64.egg:/usr/lib/python2.7/dist-packages/PIL:/usr/local/lib/python2.7/dist-packages/FuncDesigner-0.42-py2.7.egg:/usr/local/lib/python2.7/dist-packages/openopt-0.42-py2.7.egg:/usr/lib/python2.7/dist-packages/ubuntuone-storage-protocol:/usr/lib/python2.7/lib-tk:/usr/lib/python2.7/lib-dynload:/usr/lib/python2.7/dist-packages/ubuntu-sso-client:/usr/local/lib/python2.7/dist-packages/Kivy-1.3.0-py2.7-linux-x86_64.egg:/usr/lib/python2.7/dist-packages/ubuntuone-client:/usr/local/lib/python2.7/dist-packages/DerApproximator-0.42-py2.7.egg:/usr/lib/python2.7/dist-packages/ubuntuone-installer:/usr/lib/python2.7/lib-old:/usr/local/lib/python2.7/dist-packages:/usr/lib/python2.7/dist-packages/gtk-2.0:/usr/local/lib/python2.7/dist-packages/SpaceFuncs-0.42-py2.7.egg:/usr/lib/pymodules/python2.7:/usr/lib/python2.7/dist-packages/gst-0.10"

> > although unlikely,  but still possible -- the number of modules of
> > /usr/local gives a feeling that problem might be  coming from  there...

> > what if you run

> > grep -R ALiGNED /usr 2>/dev/null

> > and then if nothing appears

> > grep -R ALiGNED /home/ceyhun 2>/dev/null

> > may be we could spot a bad cow ;)

> > --
> > Yaroslav O. Halchenko
> > Postdoctoral Fellow,   Department of Psychological and Brain Sciences
> > Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
> > Phone: +1 (603) 646-9834                       Fax: +1 (603) 646-1419
> > WWW:   http://www.linkedin.com/in/yarik

> > _______________________________________________
> > Pkg-ExpPsy-PyMVPA mailing list
> > Pkg-ExpPsy-PyMVPA at lists.alioth.debian.org
> > http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/pkg-exppsy-pymvpa
-- 
Yaroslav O. Halchenko
Postdoctoral Fellow,   Department of Psychological and Brain Sciences
Dartmouth College, 419 Moore Hall, Hinman Box 6207, Hanover, NH 03755
Phone: +1 (603) 646-9834                       Fax: +1 (603) 646-1419
WWW:   http://www.linkedin.com/in/yarik