[Insight-users] volumes in ITK

[Luis Ibanez]

Hi Dhananjay,

It seems that the confusion is that the example is expecting
not a set of individual files with one slice per file but a
single file with all the slices.

Have you compacted all your slices in a single .raw file
containing the whole volume ?

There is a ReadMe file in two formats: ReadMe.doc and ReadMe.pdf
in the source directory of the Example:

      Insight/Examples/MultiResMIRegistration

It has the details about the expected file format (my apologies
if you have already gone through this readme file).



Luis


===========================================

Dhananjay Kulkarni wrote:
> Hi,
> 
> I am trying to use the "Multi-modal 3D image registration using mutual
> information maximization" example.
> I have successfully compiled it with the ITK compilation  and I have the
> executable.
> 
> However I am facing problems running it with a volume. I have a raw  slice
> (datasets) and I cannot make it run although the site information on the
> example says so -
> 
> " This application reads in two 3D raw image volumes: the target volume and
> the reference volume. The application then iteratively estimates the rigid
> transform that will align the reference onto the target volume. "
> 
> Then name of the dataset filenames is as follows.
> 
> Target files : bright-1.1 , bright-1.2 , bright-1.3  ...... bright-1.12  (12
> slices)
> Reference files : black-1.1 , black-1.2 , black-1.3  ...... black-1.12  (12
> slices)
> 
> I want the example to read this volume and generate the registered volume
> as  regis-1.raw , regis-2.raw .....regis-12.raw.
> 
> 
> 
> 
> ---------------------------------------------------------------
> 
> My param file is :::::::
> 
> bright-1
> 1
> 256 256 12
> 1.25 1.25 1
> black-1
> 1
> 256 256 12
> 1.25 1.25 1
> 1
> 1 1 1
> 1 1 1
> 10
> 1
> 1
> 
> regi-1
> 1
> 1
> PGM
> 
> 
> ------------------------------------------------------------------------
> 
> 
> 
> 
> The output is :::::
> 
> C:\ITK Test\Code\ITKImageTest> MultiResMIRegistration params.txt
> Target filename: bright-1
> Big Endian: 1
> Image Size: [256, 256, 1]Image Spacing: 1.25 1.25 1
> 
> Reference filename: black-1
> Big Endian: 1
> Image Size: [256, 256, 1]Image Spacing: 1.25 1.25 1
> 
> Number of levels: 1
> Target shrink factors: 1 1 1
> Reference shrink factors: 1 1 1
> Number of iterations: 10
> Learning rates: 1
> Translation scales: 1
> 
> Registered image filename: regi-1
> Big Endian: 1
> 
> Dump PGM files: 1
> PGM directory: PGM
> 
> Reading in target.
> Error while reading in target.
> 
> C:\ITK Test\Code\ITKImageTest> MultiResMIRegistrati
> Target filename: bright-1
> Big Endian: 1
> Image Size: [256, 256, 1]Image Spacing: 1.25 1.25 1
> 
> Reference filename: black-1
> Big Endian: 1
> Image Size: [256, 256, 1]Image Spacing: 1.25 1.25 1
> 
> Number of levels: 1
> Target shrink factors: 1 1 1
> Reference shrink factors: 1 1 1
> Number of iterations: 10
> Learning rates: 1
> Translation scales: 1
> 
> Registered image filename: regi-1
> Big Endian: 1
> 
> Dump PGM files: 1
> PGM directory: PGM
> 
> Reading in target.
> Error while reading in target.
> 
> 
> 
> 
> 
> 
> 
> 
> 
> Please help.
> 
> Thanks,
> Dhananjay Kulkarni.
> 
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