Re: ICS_opener release with Nikon C1 support

Posted by Perry, Griffin M on Feb 16, 2007; 8:25pm
URL: http://imagej.273.s1.nabble.com/ICS-opener-release-with-Nikon-C1-support-tp3700306p3700308.html

Couldn't open interleaved .ids stacks.  *shrugs*

With the "old" ICS opener version, I just did File->Import->Image
Sequence and open up one .ids and all of them opened just fine.  The
only up-side to having a deinterleaving ics opener plugin is to cut down
on files (especially for spectral).  When saved, there are 8 files
(ics/ids for our 3 channels, an extra .ics and a .isr that puts them
back together in NotSo-EZC1) versus 2 files in an interleaved file.  4x
the amount of files written to disk, so I guess it could help fragment
hard drives.

I'm currently using EZ-C1 3.2 Build 610.  I need to update to EZ-C1
3.30.

Griffin Perry
Research Assistant
Department of Endodontics, Dental School
University of Texas Health Science Center
7703 Floyd Curl Drive Mail Code 7892
San Antonio, TX 78229-3900
Lab: [phone] FAX [phone]
E-mail: [hidden email]

-----Original Message-----
From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of
Curtis Rueden
Sent: Friday, February 16, 2007 12:19 PM
To: [hidden email]
Subject: Re: ICS_opener release with Nikon C1 support

Hi Nico,

I do not believe we have any Nikon C1 ICS files, so it is unlikely
that Bio-Formats supports them. But feel free to give it a try. If
they don't work, we would be glad to look into adding support if you
could send us some sample data. I'm sure your updated ICS_Opener
plugin would be a good resource, as well.

Thanks,
Curtis

On 2/16/07, Nico Stuurman <[hidden email]> wrote:

> Rudolf Oldenbourg send me his java code to de-interleave files opened
> with ICS_Opener.  I added his code to the ICS opener plugin, which
> now should automatically recognize whether a file is deinterleaved
> and the plugin opened the few NIkon C1 images I had quite nicely.  I
> haven't had time to test it extensively (I don't have a C1; actually,
> I no longer work with ICS files at all), so please give it a try and
> let me know if there are problems.  Download at: http://
> valelab.ucsf.edu/~nico/ijplugins/Ics_Opener.html
>
> All praise for the Nikon support goes to Rudolf, I'll take complaints
> and bug reports.
>
> B.t.w., Chris, I didn't follow matters closely, so maybe the
> BioFormats plugin already opens the Nikon C1 ICS files?
>
> Best,
>
>
> Nico Stuurman
> Vale Lab, UCSF MC2240
> HHMI / Dept. of Cellular and Molecular Pharmacology
> University of California, San Francisco
> Genentech Hall, Room N316
> 600 16th street
> San Francisco, CA 94158-2517
>