Insight Journal - Zeiss (LSM) file format support

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

1 File (61Kb)

lsm.tgz (61Kb)

Code

Automatic Testing Results by Insight-Journal Dashboard on Thu Nov 10 11:22:11 2005 for revision #1

expertise: 5 sensitivity: 3.3

This project had trouble building: 50 errors, 0 warnings
Click here for more details.

Go here to access the main testing dashboard.

Reviews

several chanels are not supported by Gaetan Lehmann on 11-14-2005 for revision #1

expertise: 3 sensitivity: 4.7

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

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

Explaination on dashboard issues: need ITK CVS by Mathieu Malaterre on 11-14-2005 for revision #1

expertise: 5 sensitivity: 3.7

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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Review rating:	[review]
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Views:	13740
Downloads:	1368
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Paper Id:	56
Categories:	CMake, Images, IO, Programming
Keywords:	Zeiss, LSM, Confocal Microscopy
Toolkits:	ITK (moved into the toolkit)
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Status:	Reviews done

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