[ITK] Fwd: ITK and python wrap problem
gowith king
gowithking at googlemail.com
Fri Aug 22 12:13:23 EDT 2014
I recorded my procedure as follow:
cd ~
git clone git://itk.org/ITK.git
cd ITK
git pull
mkdir BUILD
cd BUILD
ccmake ..
in the ccmake configure options the follow flags were selected:
BUILD_EXAMPLES
OFF
BUILD_SHARED_LIBS
ON
BUILD_TESTING
OFF
CMAKE_BUILD_TYPE Release
ITK_WRAP_PERL
OFF
ITK_WRAP_PYTHON ON
PERL_EXECUTABLE
/usr/bin/perl
PYTHON_EXECUTABLE
/usr/bin/python
PYTHON_INCLUDE_DIR
/usr/include/python2.7
PYTHON_LIBRARY /usr/lib/libpython2.7.so
PY_SITE_PACKAGES_PATH
/usr/lib/python2.7/dist-packages
SCPCOMMAND /usr/bin/scp
Then the configure warning of executable and library mismatch comes, ignore
the warning
g to generation
sudo make
sudo make install
for the test :
python
>>>import itk
>>> inputimage=itk.Image[itk.UC,3] --- errors report here :
in eclispe : undefined variable from import UC
in terminal :Traceback (most recent call last):
File "<stdin>", line 1, in <module>
File "/usr/local/lib/ITK-4.7/Python/itkLazy.py", line 42, in
__getattribute__
itkBase.LoadModule(module, namespace)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in LoadModule
LoadModule(dep, namespace)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in LoadModule
LoadModule(dep, namespace)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in LoadModule
LoadModule(dep, namespace)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in LoadModule
LoadModule(dep, namespace)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 118, in LoadModule
module = loader.load(swigModuleName)
File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 224, in load
return imp.load_module(name, fp, pathname, description)
File "/usr/local/lib/ITK-4.7/Python/ITKCommonPython.py", line 32, in
<module>
_ITKCommonPython = swig_import_helper()
File "/usr/local/lib/ITK-4.7/Python/ITKCommonPython.py", line 28, in
swig_import_helper
_mod = imp.load_module('_ITKCommonPython', fp, pathname, description)
ImportError: libitkvnl_algo-4.7.so.1: cannot open shared object file: No
such file or directory
On Fri, Aug 22, 2014 at 5:55 PM, gowith king <gowithking at googlemail.com>
wrote:
> Please keep the discussion on the mailing list :)
>
> This is my first post in mailing list system " if this is a sort of
> system, :)"
> I guess that means I should always do not forget to cc to community? or
> what else should I do to keep it?
>
>
> Okay, so you will have to find the paths to the right folders/files to be
> consistent in your python choice.
>
>
> I have no idea Howto identify the python2.7.3 working library, normally
> they are lots of .pyr files in the folder of /usr/lib/python2.7 . I find a
> similar .so file in /usr/lib/libpython2.7.so .
> However in your instruction :PYTHON_LIBRARY =
> /usr/lib64/libpython2.7.so.1.0
> The file "libpython2.7.so.1.0" also present in the same path : /usr/lib/
> libpython2.7.so.1.0 ; should I use this file?
>
> I would be happy if you could communicate me the paths for Ubuntu 12.04,
> so I could extend the installation procedure.
>
> How could I send you the path of ubuntu 12.04? I can try to switch on a
> remote assistant if necessary.
>
>
> Seems on ubuntu the procedure is the same for loading the shared libraries:
>
> http://unix.stackexchange.com/questions/67781/use-shared-libraries-in-usr-local-lib
> On Ubuntu you should have a /etc/ld.so.conf file. Then you should run
> ldconfig.
>
>
> On Fri, Aug 22, 2014 at 5:30 PM, Michka Popoff <michkapopoff at gmail.com>
> wrote:
>
>> Please keep the discussion on the mailing list :)
>>
>> Okay, so you will have to find the paths to the right folders/files to be
>> consistent in your python choice.
>> I would be happy if you could communicate me the paths for Ubuntu 12.04,
>> so I could extend the installation procedure.
>>
>> Seems on ubuntu the procedure is the same for loading the shared
>> libraries:
>>
>> http://unix.stackexchange.com/questions/67781/use-shared-libraries-in-usr-local-lib
>> On Ubuntu you should have a /etc/ld.so.conf file. Then you should run
>> ldconfig.
>>
>> Michka
>>
>> On 22 août 2014, at 17:21, gowith king <gowithking at googlemail.com> wrote:
>>
>> Dear Popoff
>> I am using Ubuntu 12.04 LTS. the warning is the mismatching of
>> python library and python executable : python executable "2.7.3" and
>> library "" is mismatched. Here is the option setting:
>>
>>
>> PYTHON_EXECUTABLE
>> /usr/bin/python
>> PYTHON_INCLUDE_DIR
>> /usr/include/python2.7
>> PYTHON_LIBRARY /usr/lib/libpython2.7.so
>>
>> PY_SITE_PACKAGES_PATH
>> /usr/lib/python2.7/dist-packages
>>
>> The libitkvnl_algo-4.7.so file exist in /usr/local/lib .
>>
>> I do have few python versions been installed in the same OS.
>> The flags in the instruction of '
>> http://www.itk.org/Wiki/ITK_Release_4/Wrapping/WrapITK_Installation' are
>> not exact as the same as the description. I will try your instruction step
>> be step in my system.
>> By the way, your instruction is so practical.
>>
>> Have a nice day.
>>
>>
>>
>>
>>
>> On Fri, Aug 22, 2014 at 4:15 PM, Michka Popoff <michkapopoff at gmail.com>
>> wrote:
>>
>>> Hi
>>>
>>> Some important questions first:
>>>
>>> What was the warning for the library mismatch ?
>>> On what OS are you installing ?
>>> Is the libitkvnl_algo-4.7.so file present in /usr/local/lib ?
>>>
>>> If the warnings were about the python library, it is quite important.
>>> It may happen that you have two different python installations, and
>>> cmake is not able to find the right libraries.
>>>
>>> I wrote some instructions to install ITK with python wrapping on Fedora
>>> http://www.itk.org/Wiki/ITK/WrapITKInstallFedora
>>> There is a list of cmake flags you can set to help cmake find the right
>>> python, if it’s the problem you had.
>>> I think the error is just because the library is not in your path. If
>>> you are using Fedora, just follow the instructions I wrote down.
>>> For other OS’es there are ways to do this, like setting the
>>> LD_LIBRARY_PATH for example (you'll have to google this)
>>>
>>> Feedback is welcome so I can improve the installation instructions :)
>>>
>>> Michka
>>>
>>> On 22 août 2014, at 16:06, gowith king <gowithking at googlemail.com>
>>> wrote:
>>>
>>>
>>>
>>> ---------- Forwarded message ----------
>>> From: gowith king <gowithking at googlemail.com>
>>> Date: Fri, Aug 22, 2014 at 1:32 PM
>>> Subject: ITK and python wrap problem
>>> To: community at itk.org
>>>
>>>
>>> Dear ITK friends
>>> I am not sure this is an appropriate place to issue my problem in
>>> the wrapping process:
>>> I followed the instruction of '
>>> http://www.itk.org/Wiki/ITK_Release_4/Wrapping/WrapITK_Installation' to
>>> finish the compiling and installing process. it look good so far except a
>>> warning of mismatching library version, I think it could be ignored.
>>> Then I tried one line for test :
>>> >>> import itk
>>> >>> inputimage=itk.Image[itk.UC,3]
>>> Traceback (most recent call last):
>>> File "<stdin>", line 1, in <module>
>>> File "/usr/local/lib/ITK-4.7/Python/itkLazy.py", line 42, in
>>> __getattribute__
>>> itkBase.LoadModule(module, namespace)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in
>>> LoadModule
>>> LoadModule(dep, namespace)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in
>>> LoadModule
>>> LoadModule(dep, namespace)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in
>>> LoadModule
>>> LoadModule(dep, namespace)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 108, in
>>> LoadModule
>>> LoadModule(dep, namespace)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 118, in
>>> LoadModule
>>> module = loader.load(swigModuleName)
>>> File "/usr/local/lib/ITK-4.7/Python/itkBase.py", line 224, in load
>>> return imp.load_module(name, fp, pathname, description)
>>> File "/usr/local/lib/ITK-4.7/Python/ITKCommonPython.py", line 32, in
>>> <module>
>>> _ITKCommonPython = swig_import_helper()
>>> File "/usr/local/lib/ITK-4.7/Python/ITKCommonPython.py", line 28, in
>>> swig_import_helper
>>> _mod = imp.load_module('_ITKCommonPython', fp, pathname, description)
>>> ImportError: libitkvnl_algo-4.7.so.1: cannot open shared object file: No
>>> such file or directory
>>>
>>> I got totally lost for this, what should I do to fix this?
>>> Any suggestion would be appreciated
>>>
>>>
>>>
>>>
>>> _______________________________________________
>>> Community mailing list
>>> Community at itk.org
>>> http://public.kitware.com/mailman/listinfo/community
>>>
>>>
>>>
>>
>>
>
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