Zeiss (LSM) file format support
Malaterre M.
Kitware Inc.

Please use this identifier to cite or link to this publication: http://hdl.handle.net/1926/139
Published in The Insight Journal - 2005 August - December.
Submitted by Mathieu Malaterre on 11-14-2006.
This filter will allow support for file reading and writting in ITK for the Zeiss (LSM) file format.
Data
minus 1 File (61Kb)
lsm.tgz (61Kb)
Code
minus Automatic Testing Results by Insight-Journal Dashboard on Thu Nov 10 11:22:11 2005 for revision #1
starstarstarstarstar expertise: 5 sensitivity: 3.3
yellow This project had trouble building: 50 errors, 0 warnings
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Reviews
minus several chanels are not supported by Gaetan Lehmann on 11-14-2005 for revision #1
starstarstarstarstar expertise: 3 sensitivity: 4.7
yellow
I successfully run it on my host. I\'m able to read lsm files in 3D with the good spacing which is very nice
However,

  • I have to replace 
    #include \"tiffio/tiffio.h\"
    by 
    #include \"tiffio.h\"
    in itkLSMImageIO.cxx to build the test.
  • the reader works only if there is only one chanel, and return a quite strange \"Cannot open the file!\" if the lsm contains 2 chanels. You can get a (big) lsm file with 2 chanels at http://voxel.jouy.inra.fr/blastocyste.lsm if needed.

It really nice to have a LSM reader for ITK.
Thanks for that work !

Comment by Mathieu Malaterre: Add this as a bug report yellow
Sorry I did not check reviews in a long time. Next time, please add this as a bug report, I tend to read it more easily...

http://vtk.org/Bug/bug.php?op=show&bugid=2831&pos=

Thanks for report !
Mathieu
minus Explaination on dashboard issues: need ITK CVS by Mathieu Malaterre on 11-14-2005 for revision #1
starstarstarstarstar expertise: 5 sensitivity: 3.7
yellow
Build errors:
There are build errors on the Insight Journal, because the version used is ITK 2.2.1 whereas the code needs ITK CVS, due to some very recent change in ITK CVS, in particular TIFFImageIO and the tiff library.
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Categories: CMake, Images, IO, Programming
Keywords: Zeiss, LSM, Confocal Microscopy
Toolkits: ITK (moved into the toolkit)
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