[pymvpa] macports install libsvm issue

[Anna Manelis]

Hi everybody,
I don't want to be annoying, but I have just done

sudo port selfupdate
sudo port  upgrade outdated
sudo port install  py26-pymvpa

After I tried to start pymvpa, python crashed with the message

bash-3.2$ python

Python 2.6.4 (r264:75706, Dec  4 2009, 14:43:06)

[GCC 4.2.1 (Apple Inc. build 5646) (dot 1)] on darwin

Type "help", "copyright", "credits" or "license" for more information.

>>> from mvpa.suite import *

/opt/local/Library/Frameworks/Python.framework/Versions/2.6/lib/python2.6/site-packages/mvpa/base/verbosity.py:19:
DeprecationWarning: the sets module is deprecated

  from sets import Set

Python(57406) malloc: *** error for object 0x7fff7037f500: pointer being
freed was not allocated

*** set a breakpoint in malloc_error_break to debug

Abort trap


Any ideas?

Thank you,
Anna.

On Sun, Dec 20, 2009 at 10:08 PM, Yaroslav Halchenko
<debian at onerussian.com>wrote:

> Hi Christian,
>
> Sorry about the delay but nor me, neither Michael have little to no
> expertise/interest of struggling with proprietary systems.  Therefor I
> just held my breath and let macports enthusiast (thank you once again!)
> James Kyle  to resolve the issue.  Here what he says while boarding a
> plane to go somewhere south:
>
> ,---
> | I've fixed the issues and made the changes live.
> |
> | I've verified that mvpa.cfg shows both libsvm and shogun as active.
> |
> | I also removed the python 2.5 port of pymvpa, so now only the 2.6 is
> offered. There's virtually no difference between the two releases except
> warnings on deprecated modules and it should simplify problems.  Also, the
> | default variants of shogun and other deps are set up for python 2.6.
> |
> | So simply doing a:
> |
> | sudo port install py26-pymvpa
> |
> | will produce a working build with no warnings in the build process that
> might confuse users
> `---
>
> So I guess, you would need to
>
> sudo port update
>
> and then
>
> sudo port install py26-pymvpa
>
> and it should work this time ;)
>
> alternatively, just build from git repository (described online) -- not
> that big of a deal really if you have already all dependencies available.
>
> Cheers
>
> On Sat, 19 Dec 2009, Christian Fiebach wrote:
>
> >    Hi there,
>
> >    I am having the same problem getting to run libsvm as described in
>
> >    this thread. I Did you happen to make any progress on that issue?
>
> >    Thanks in advance,
>
> --
>                                  .-.
> =------------------------------   /v\  ----------------------------=
> Keep in touch                    // \\     (yoh@|www.)onerussian.com
> Yaroslav Halchenko              /(   )\               ICQ#: 60653192
>                   Linux User    ^^-^^    [175555]
>
>
>
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