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stitching large dataset issue

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Romain Guiet

stitching large dataset issue

Dear All,

Doing some stitching of a "large" dataset I encountered a « bug ».
You can dowload an explanatory pdf here :
https://drive.switch.ch/public.php?service=files&t=25fa0965c56646b5cc055af0a6d33589

Any sugestion is welcome,
Many thanks,
Romain

---------------------------------------------------------------
Dr. Romain Guiet
Bioimaging and Optics Platform (PT-BIOP)
Ecole Polytechnique Fédérale de Lausanne (EPFL)
Faculty of Life Sciences
Station 19, AI 0140
CH-1015 Lausanne

Phone: [+4121 69] 39629
http://biop.epfl.ch/
---------------------------------------------------------------

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

ctrueden

Re: stitching large dataset issue

Hi Romain,

> Doing some stitching of a "large" dataset I encountered a « bug ».

Thanks for the bug report.

I filed it in the Stitching repository on GitHub:
https://github.com/fiji/Stitching/issues/33

Regards,
Curtis

On Fri, Aug 7, 2015 at 4:17 AM, Romain Guiet <[hidden email]> wrote:

> Dear All,
>
> Doing some stitching of a "large" dataset I encountered a « bug ».
> You can dowload an explanatory pdf here :
>
> https://drive.switch.ch/public.php?service=files&t=25fa0965c56646b5cc055af0a6d33589
>
> Any sugestion is welcome,
> Many thanks,
> Romain
>
> ---------------------------------------------------------------
> Dr. Romain Guiet
> Bioimaging and Optics Platform (PT-BIOP)
> Ecole Polytechnique Fédérale de Lausanne (EPFL)
> Faculty of Life Sciences
> Station 19, AI 0140
> CH-1015 Lausanne
>
> Phone: [+4121 69] 39629
> http://biop.epfl.ch/
> ---------------------------------------------------------------
>
> --
> ImageJ mailing list: http://imagej.nih.gov/ij/list.html
>

--
ImageJ mailing list: http://imagej.nih.gov/ij/list.html

Romain Guiet

Re: stitching large dataset issue

Hi Curtis,

thank you for your message. I didn't know about reporting bug directly on github.
Do you think it could be usefull to provide the dataset ?

Regards,

Romain

---------------------------------------------------------------
Dr. Romain Guiet
Bioimaging and Optics Platform (PT-BIOP)
Ecole Polytechnique Fédérale de Lausanne (EPFL)
Faculty of Life Sciences
Station 19, AI 0140
CH-1015 Lausanne

Phone: [+4121 69] 39629
http://biop.epfl.ch/
---------------------------------------------------------------

________________________________________
De : ImageJ Interest Group [[hidden email]] de la part de Curtis Rueden [[hidden email]]
Envoyé : lundi 17 août 2015 18:38
À : [hidden email]
Objet : Re: stitching large dataset issue

Hi Romain,

> Doing some stitching of a "large" dataset I encountered a « bug ».

Thanks for the bug report.

I filed it in the Stitching repository on GitHub:
https://github.com/fiji/Stitching/issues/33

Regards,
Curtis

On Fri, Aug 7, 2015 at 4:17 AM, Romain Guiet <[hidden email]> wrote:

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ImageJ mailing list: http://imagej.nih.gov/ij/list.html

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ctrueden

Re: stitching large dataset issue

Hi Romain,

> Do you think it could be usefull to provide the dataset ?

Definitely. If you can provide e.g. a Dropbox link to a dataset
illustrating the problem, that would be very helpful.

See also:
http://imagej.net/Bug_reporting_best_practices

By the way: did you try tweaking the regression and displacement threshold
parameters? IIRC, in some cases my lab has observed tiles being "dropped"
from the registered image sometimes -- but placed properly when using a
higher regression threshold than the default of 0.30.

Regards,
Curtis

On Tue, Aug 18, 2015 at 2:00 AM, Romain Guiet <[hidden email]> wrote:

> Hi Curtis,
>
> thank you for your message. I didn't know about reporting bug directly on
> github.
> Do you think it could be usefull to provide the dataset ?
>
> Regards,
>
> Romain
>
>
> ---------------------------------------------------------------
> Dr. Romain Guiet
> Bioimaging and Optics Platform (PT-BIOP)
> Ecole Polytechnique Fédérale de Lausanne (EPFL)
> Faculty of Life Sciences
> Station 19, AI 0140
> CH-1015 Lausanne
>
> Phone: [+4121 69] 39629
> http://biop.epfl.ch/
> ---------------------------------------------------------------
>
> ________________________________________
> De : ImageJ Interest Group [[hidden email]] de la part de Curtis
> Rueden [[hidden email]]
> Envoyé : lundi 17 août 2015 18:38
> À : [hidden email]
> Objet : Re: stitching large dataset issue
>
> Hi Romain,
>
> > Doing some stitching of a "large" dataset I encountered a « bug ».
>
> Thanks for the bug report.
>
> I filed it in the Stitching repository on GitHub:
> https://github.com/fiji/Stitching/issues/33
>
> Regards,
> Curtis
>
> On Fri, Aug 7, 2015 at 4:17 AM, Romain Guiet <[hidden email]> wrote:
>
> > Dear All,
> >
> > Doing some stitching of a "large" dataset I encountered a « bug ».
> > You can dowload an explanatory pdf here :
> >
> >
> https://drive.switch.ch/public.php?service=files&t=25fa0965c56646b5cc055af0a6d33589
> >
> > Any sugestion is welcome,
> > Many thanks,
> > Romain
> >
> > ---------------------------------------------------------------
> > Dr. Romain Guiet
> > Bioimaging and Optics Platform (PT-BIOP)
> > Ecole Polytechnique Fédérale de Lausanne (EPFL)
> > Faculty of Life Sciences
> > Station 19, AI 0140
> > CH-1015 Lausanne
> >
> > Phone: [+4121 69] 39629
> > http://biop.epfl.ch/
> > ---------------------------------------------------------------
> >
> > --
> > 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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