[Insight-users] SimpleITK build error

[Andriy Fedorov]

Hi,

This patch solved the build problem, thanks.

I am now trying to install it so that python can see the package.
Maybe I am not doing it correctly, but I have a runtime error while
trying to import the package. Any suggestions?

[fedorov at bear site-packages] easy_install SimpleITK-0.3.0-py2.7.egg
Processing SimpleITK-0.3.0-py2.7.egg
Copying SimpleITK-0.3.0-py2.7.egg to
/Library/Frameworks/EPD64.framework/Versions/7.0/lib/python2.7/site-packages
Adding SimpleITK 0.3.0 to easy-install.pth file

Installed /Library/Frameworks/EPD64.framework/Versions/7.0/lib/python2.7/site-packages/SimpleITK-0.3.0-py2.7.egg
Processing dependencies for SimpleITK==0.3.0
Finished processing dependencies for SimpleITK==0.3.0
[fedorov at bear site-packages] ipython
Enthought Python Distribution -- http://www.enthought.com

Python 2.7.1 |EPD 7.0-2 (64-bit)| (r271:86832, Dec  3 2010, 15:56:20)
Type "copyright", "credits" or "license" for more information.

IPython 0.10.1 -- An enhanced Interactive Python.
?         -> Introduction and overview of IPython's features.
%quickref -> Quick reference.
help      -> Python's own help system.
object?   -> Details about 'object'. ?object also works, ?? prints more.

In [1]: import SimpleITK
Fatal Python error: PyThreadState_Get: no current thread
Abort trap


--
Andriy Fedorov, Ph.D.

Research Fellow
Brigham and Women's Hospital
Harvard Medical School
75 Francis Street
Boston, MA 02115 USA
fedorov at bwh.harvard.edu
(617) 525-6258 (office)



On Sun, Oct 16, 2011 at 9:33 AM, Johnson, Hans J <hans-johnson at uiowa.edu> wrote:
> This is where I got the information:
>
>
> https://gist.github.com/845545
>
>
>
> The patch is:
>
> https://github.com/satra/virtualenv/tree/fix/EPDpatch
>
> https://github.com/satra/virtualenv/commit/458fa9acb72b789499676b1760f699e4
> 518e4822
>
>
> All I did was to replace the virtualenv.py file in SimpleITK with this
> version.
>
>
> Hans
>
>
>
>
> On 10/15/11 7:17 PM, "Matt McCormick" <matt.mccormick at kitware.com> wrote:
>
>>Hi Hans,
>>
>>Do you remember the where the virtualenv update was, I think it was on
>>the Mac, that fixed this issue?  It looks like he is using the
>>Enthought Python Distribution, and hopefully a similar fix would work.
>>
>>Thanks,
>>Matt
>>
>>On Sat, Oct 15, 2011 at 7:04 PM, Andriy Fedorov <fedorov at bwh.harvard.edu>
>>wrote:
>>> Hi,
>>>
>>> I have the error below while trying to compile SimpleITK from source.
>>> I am following instructions here:
>>> http://www.itk.org/Wiki/ITK_Release_4/SimpleITK/GettingStarted, with
>>> Python bindings only.
>>>
>>> OSX 10.6.8 (Snow Leopard), gcc-4.2.1, python 2.7.1.
>>>
>>> [ 63%] Built target ConfigureFileBuildtime
>>> Linking CXX shared module
>>> /Users/fedorov/Software/SimpleITK-build/lib/_SimpleITK.so
>>> Creating Python virtualenv
>>> Already using interpreter
>>> /Library/Frameworks/EPD64.framework/Versions/Current/bin/python2.7
>>> New python executable in
>>>
>>>/Users/fedorov/Software/SimpleITK-build/SimpleITK-build/Testing/Installat
>>>ion/PythonVirtualenv/bin/python2.7
>>> Also creating executable in
>>>
>>>/Users/fedorov/Software/SimpleITK-build/SimpleITK-build/Testing/Installat
>>>ion/PythonVirtualenv/bin/python
>>> ERROR: The executable
>>>
>>>/Users/fedorov/Software/SimpleITK-build/SimpleITK-build/Testing/Installat
>>>ion/PythonVirtualenv/bin/python2.7
>>> is not functioning
>>> ERROR: It thinks sys.prefix is
>>> u'/Library/Frameworks/EPD64.framework/Versions/7.0' (should be
>>>
>>>'/Users/fedorov/Software/SimpleITK-build/SimpleITK-build/Testing/Installa
>>>tion/PythonVirtualenv')
>>> ERROR: virtualenv is not compatible with this system or executable
>>> make[5]: *** [/Users/fedorov/Software/SimpleITK-build/lib/_SimpleITK.so]
>>> Error 100
>>> make[4]: *** [Wrapping/CMakeFiles/_SimpleITK.dir/all] Error 2
>>> make[3]: *** [all] Error 2
>>> make[2]: *** [SimpleITK-prefix/src/SimpleITK-stamp/SimpleITK-build]
>>>Error 2
>>> make[1]: *** [CMakeFiles/SimpleITK.dir/all] Error 2
>>> make: *** [all] Error 2
>>>
>>> Can someone help?
>>>
>>> AF
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>
>
>
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