Re: Very slow opening of stacks in Fiji

Posted by Mark Hiner on Oct 13, 2014; 2:02pm
URL: http://imagej.273.s1.nabble.com/Very-slow-opening-of-stacks-in-Fiji-tp5010010p5010013.html

Hi Gerald,

 Very happy to hear your data is at least opening correctly in SCIFIO! Just
wanted to say thank you for providing feedback. :) Hope we can get some of
the performance issues resolved soon.

Thanks again,
Mark

On Mon, Oct 13, 2014 at 8:26 AM, Gerald Ruiner Torgersen <
[hidden email]> wrote:

> Thank you Mark,
>
> I have enabled them manually because of the better support of DICOM i IJ2.
> But the files I am working with recently are not compressed, så IJ1 opens
> them.
> With SCIFIO disabled Fiji is as quick as ImageJ. The problem is that DICOM
> stacks get sorted the wrong way in original ImageJ. This works right in
> SCIFIO.
> Looking forward to see the release with all issues fixed :-)
>
> Greetings
> Gerald R. Torgersen
>
>
> >-----Original Message-----
> >From: ImageJ Interest Group [mailto:[hidden email]] On Behalf Of
> >Mark Hiner
> >Sent: Monday, October 13, 2014 3:20 PM
> >To: [hidden email]
> >Subject: Re: Very slow opening of stacks in Fiji
> >
> >Hi Gerald,
> >
> > Yes, there are several known performance issues in the ImageJ2
> components,
> >many of which are still in beta and unoptimized. For typical users, all
> options
> >under "Edit > Options > ImageJ2" should be disabled while we work to move
> >these products towards a release state. These options should have been
> >disabled by default; please let us know if they were not.
> >
> >Regards,
> >Mark
> >
> >On Mon, Oct 13, 2014 at 7:32 AM, Gerald Ruiner Torgersen <
> >[hidden email]> wrote:
> >
> >> Dear List members:
> >>
> >> I am using Fiji with the latest updates (ImageJ2 components). I work a
> >> lot with stacks (DICOM files, mostly 1k*1k resolution, 16 bit, 150 -
> >> 800 slices/images).
> >> I open them dragging the folder containing the files and dropping them
> >> on the Fiji window. It takes now very long time (minutes) to open such
> >> a slice vs seconds in ImageJ (original). It has been like that for a
> >> while. I think it has something to do with the ImageJ2 components?
> >>
> >> Mvh
> >> Gerald R. Torgersen
> >> IT-seksjonen,
> >> Det odontologiske fakultet / Faculty of Dentistry Universitetet i Oslo
> >> / University of Oslo
> >>
> >> --
> >> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
> >>
> >
> >--
> >ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

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