[ITK] ERROR: SCIFIOImageIO

[Matt McCormick]

Hi Hans,

Is there a "jars" directory? Does it contain "scifio-itk-bridge.jar"
and "bioformats_package.jar".  This error indicates that this
directory cannot be found.

Thanks,
Matt

On Sun, Oct 18, 2015 at 11:06 AM,  <Hans.Koch at ptb.de> wrote:
> Hi,
>
> When running some itk programs, which worked a year ago, e.g. the first few
> lines of the itk test:  MeanImageFilter.py:
>
> import itk
> dim = 2
> IType = itk.Image[itk.F, dim]
> imageFileName='BrainProtonDensitySliceBorder20.png'
> reader = itk.ImageFileReader[IType].New()
> reader.SetFileName(imageFileName)
> reader.Update()
>
> I now receive the following output and error message when running it with
> Spyder (Python 2.7) :
>
> Python 2.7.10 (default, May 23 2015, 09:40:32) [MSC v.1500 32 bit (Intel)]
> on win32
> Type "help", "copyright", "credits" or "license" for more information.
>>>>
>>>> runfile('C:/Users/koch05/Documents/WS_14_15/Book/py_mybook/codes/ch11/my_Filter.py',
>>>> wdir='C:/Users/koch05/Documents/WS_14_15/Book/py_mybook/codes/ch11')
> Traceback (most recent call last):
>   File "<stdin>", line 1, in <module>
>   File
> "C:\Python27\lib\site-packages\spyderlib\widgets\externalshell\sitecustomize.py",
> line 688, in runfile
>     execfile(filename, namespace)
>   File
> "C:\Python27\lib\site-packages\spyderlib\widgets\externalshell\sitecustomize.py",
> line 72, in execfile
>     exec(compile(scripttext, filename, 'exec'), glob, loc)
>   File
> "C:/Users/koch05/Documents/WS_14_15/Book/py_mybook/codes/ch11/my_Filter.py",
> line 30, in <module>
>     reader.Update()
> RuntimeError:
> C:\u\itk-git\_b\Modules\Remote\SCIFIO\src\itkSCIFIOImageIO.cxx:274:
> itk::ERROR: SCIFIOImageIO(103ADF70): SCIFIO_PATH is not set. This
> environment variable must point to the directory containing the SCIFIO JAR
> files
>>>>
>
> Additional remark: in the Python27 site-package, inside the itk folder are
> the files SCIFIO.py and SCIFIOPython.py and in the Configuration folder:
> SCIFIOConfig.py
>
> How can I fix this problem? Any help is highly appreciated.
>
> Hans
>
>
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