Re: Zeiss LSM Scan Type 2

Posted by jmutterer on Apr 25, 2007; 10:09pm
URL: http://imagej.273.s1.nabble.com/Zeiss-LSM-Scan-Type-2-tp3698595p3698596.html

I'm sorry I haven't answered earlier.
We have accumulated a number of bugfixes and a new version of LSM Toolbox is
going to be released in the next 2 or three week. This version will support
line scans as well, thanks to the cited report.
Sincerely,
Patrick and Jerome


On 4/25/07, Philip Ershler <[hidden email]> wrote:

>
> I guess this is really a question for Wayne.
>
> I am trying to deal with linescan images that come from a Zeiss LSM
> 510 confocal. Initially, when I tried to open a linescan file with
> either LSM_Reader or the LSM_Toolbox, I got a message
>
> Unsupported LSM scantype: 2
>
>         So I got the source for LSM_Reader Plug In and added the following
> code to the switch for case 2: in LSM_Reader.java.
>
>                 ImagePlus[] imps = null;
>                 switch (cz.ScanType) {
>                 case 0:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 1:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 2:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 3:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 4:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 5:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 case 6:
>                         imps = readStack(stream, lsmFi, cz, thumb);
>                         return imps;
>                 default:
>                         if (verbose)
>                                 IJ.error("Unsupported LSM svvcantype: " +
> cz.ScanType);
>                         break;
>                 }
>                 return imps;
>
>         Now the LSM_Reader Plug In seems to open the LSM linescan files
> without problem. It would be very useful if linescan files could be
> opened from the LSM_Toolbox. I understand from the web site run by
> [hidden email] and [hidden email]
> that the LSM_Toolbox uses a version of LSM_Reader that has been
> integrated in ImageJ. Is there any chance that the above patch could
> be included in the integrated LSM_Reader? I have sent e-mail to
> [hidden email] and [hidden email]
> (who have very kindly written the Zeiss LSM support). As of yet, I
> have not heard back.
>
> Thank You,
>
> Phil
>
>
>
> Philip R. Ershler Ph.D.
> University of Utah
> Cardiovascular Research and Training Institute
> 95 South 2000 East
> Salt Lake City, UT 84112-5000
>
> phone: [phone]
> alt ph: [phone]
> fax: [phone]
> e-mail: [hidden email]
>
>
> Philip R. Ershler Ph.D.
> University of Utah
> Cardiovascular Research and Training Institute
> 95 South 2000 East
> Salt Lake City, UT 84112-5000
>
> phone: [phone]
> alt ph: [phone]
> fax: [phone]
> e-mail: [hidden email]
>