3D stitching Fluoview files

[Glen MacDonald-2]

Hello,
Just wondering if someone has already written a macro or plugin to  
sequentially open a set of confocal stacks collected from  an Olympus  
Fluoview 1000 confocal with the Multi-area timelapse controller and  
stitch them into a 3D montage. The Olympus offline viewer is  
exceedingly powerless, and I'm trying to avoid the need to schedule  
time on the instrument in order to stitch together these large volumes.

Thanks,
Glen

Glen MacDonald
Core for Communication Research
Virginia Merrill Bloedel Hearing Research Center
Box 357923
University of Washington
Seattle, WA 98195-7923  USA
[phone]
[hidden email]

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The box said "Requires WindowsXP or better", so I bought a Macintosh.
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[dscho]

Hi,

On Mon, 20 Jul 2009, Glen MacDonald wrote:

> Just wondering if someone has already written a macro or plugin to
> sequentially open a set of confocal stacks collected from an Olympus
> Fluoview 1000 confocal with the Multi-area timelapse controller and
> stitch them into a 3D montage. The Olympus offline viewer is exceedingly
> powerless, and I'm trying to avoid the need to schedule time on the
> instrument in order to stitch together these large volumes.

There is a plugin in Fiji:

http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D

Ciao,
Dscho

[Glen MacDonald-2]

thanks, I had planned to use this plugin, it worked well with a small  
subset of stacks.  I was just hoping to avoid the extra effort to  
automate the operation myself,

It turns out the free offline Fluoview viewer is just that, a file  
viewer.  A full featured offline version that will perform the  
montages costs about US$2000, but does everything except control the  
confocal.

Glen
On Jul 20, 2009, at 12:22 PM, Johannes Schindelin wrote:

> Hi,
>
> On Mon, 20 Jul 2009, Glen MacDonald wrote:
>
>> Just wondering if someone has already written a macro or plugin to
>> sequentially open a set of confocal stacks collected from an Olympus
>> Fluoview 1000 confocal with the Multi-area timelapse controller and
>> stitch them into a 3D montage. The Olympus offline viewer is  
>> exceedingly
>> powerless, and I'm trying to avoid the need to schedule time on the
>> instrument in order to stitch together these large volumes.
>
> There is a plugin in Fiji:
>
> http://pacific.mpi-cbg.de/wiki/index.php/Stitching_2D/3D
>
> Ciao,
> Dscho