[ITK-users] Fwd: using simpleITK with anaconda python distribution

[Vishwa]

I did install anaconda again and ran the conda build like you suggest. It
ran without and problem. However, when I import simpleitk, it gives a error
saying no module found.

Any ideas?

Vishwa

On Wed, Sep 10, 2014 at 10:10 AM, Bradley Lowekamp [via ITK Insight Users] <
ml-node+s2283740n7586186h92 at n2.nabble.com> wrote:

> Hello,
>
> You need to use the conda build environment. Look at the readme in this
> repo[1].
>
> Basically you'll need to do the following:
>
> $ conda install conda-build
> $ cd src
> $ git clone https://github.com/thewtex/conda-recipes.git
> $ git checkout simpleitk-clone-url
> $ conda build simpleitk
>
>
>
> [1] https://github.com/conda/conda-recipes
>
> On Sep 10, 2014, at 11:01 AM, Vishwa <[hidden email]
> <http://user/SendEmail.jtp?type=node&node=7586186&i=0>> wrote:
>
> Thanks very much for the information. I looked at the conda recipe. There
> are three files.
> One is .sh file, the second is yaml file, and the third is just a test
> code. How am i to use that recipe to compile..
>
> There are variables like Source_Dir in the .sh file. How do i get those. I
> am not familiar using it.
>
> Am I to just copy the file build.sh into the SimpleITK source code
> directly and run sh ./build.sh? I tried that, and it ran for a while and
> gave an error.
>
> Best regards,
> Vishwa
>
>
>
> On Wed, Sep 10, 2014 at 9:13 AM, Bradley Lowekamp <[hidden email]
> <http://user/SendEmail.jtp?type=node&node=7586186&i=1>> wrote:
>
>> Hello,
>>
>> This error message frequently happens when SimpleITK is compiled against
>> a different version of  Python than the runtime. This generally indicate
>> there is something conflicting funny in your runtime environment.
>>
>> I was easily able to use the build script from the conda-recipes
>> repository. I would strongly recommend this approach when building for the
>> anaconda enviroment as it does simplify some of there issue. Your CMake
>> configuration does look correct.
>>
>> You should look at you environment variables, such as PATH,
>> DYLD_LIBRARY_PATH, and PYTHONPATH. Additionally look in you user install
>> path [1]. You are looking for multiple copies of the SimpleITK module or
>> library and or python runtime libraries which could confuse the linker.
>>
>> Also you can inspect the runtime libraries:
>>
>>  otool -L
>> /Users/blowekamp/anaconda//lib/python2.7/site-packages/SimpleITK/_SimpleITK.so
>>
>> /Users/blowekamp/anaconda//lib/python2.7/site-packages/SimpleITK/_SimpleITK.so:
>> @loader_path/../../../libpython2.7.dylib (compatibility version 2.7.0,
>> current version 2.7.0)
>> /System/Library/Frameworks/CoreFoundation.framework/Versions/A/CoreFoundation
>> (compatibility version 150.0.0, current version 855.17.0)
>> /usr/lib/libSystem.B.dylib (compatibility version 1.0.0, current version
>> 1197.1.1)
>> /usr/lib/libstdc++.6.dylib (compatibility version 7.0.0, current version
>> 60.0.0)
>> /usr/lib/libgcc_s.1.dylib (compatibility version 1.0.0, current version
>> 2577.0.0)
>>
>> [1]
>> https://docs.python.org/2/install/#alternate-installation-the-user-scheme
>>
>> Hope this helps,
>> Brad
>>
>> On Sep 9, 2014, at 10:55 PM, Vishwa <[hidden email]
>> <http://user/SendEmail.jtp?type=node&node=7586186&i=2>> wrote:
>>
>> import SimpleITK as sitk
>>
>> Fatal Python error: PyThreadState_Get: no current thread
>>
>> Abort trap: 6
>>
>>
>>
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