http://imagej.273.s1.nabble.com/DeconvolutionLab-Batch-Processing-tp5004865p5004885.html
couldn't figure out how to do it. Maybe I'm overlooking an option??
> Hello - thanks again for the reply. I'm generating a PSF using the
> Diffraction PSF 3d plugin. No beads unfortunately
>
>
> On Fri, Sep 20, 2013 at 2:48 PM, bnorthan [via ImageJ] <
>
[hidden email]> wrote:
>
> > One PSF file should work for them all assuming similar acquisition
> > conditions.
> >
> > The PSF is actually a little bit different for each location within one
> > image. That is because the PSF is determined by the path the light takes
> > through the sample, and the refractive index of the sample (and for a
> real
> > sample the RI will be different throughout).
> >
> > Assuming one PSF for the image is a "approximation" that is used for most
> > deconvolution algorithms (unless you get into algorithms that use special
> > schemes to subdivide the image). Likewise assuming one PSF for the
> entire
> > set is fine assuming all images were taken under similar settings.
> >
> > How are you getting the PSF?? A bead image??
> >
> >
> > On Fri, Sep 20, 2013 at 1:04 PM, mehulmvora <[hidden email]<
>
http://user/SendEmail.jtp?type=node&node=5004883&i=0>>
> > wrote:
> >
> > > Hi Brian
> > >
> > > Thank you for your reply. I'm a complete newbie to deconvolution and
> > > confocal microscopy.
> > >
> > > I don't have individual PSF files for each of the images - isn't that
> > > what's required? Each image is different from the rest (but they were
> > taken
> > > at the same time with the same scope and settings). Will one PSF file
> > work
> > > for them all? I thought that each image will have it's own psf?
> > >
> > > Thank you!
> > >
> > >
> > > On Fri, Sep 20, 2013 at 12:52 PM, bnorthan [via ImageJ] <
> > > [hidden email] <
http://user/SendEmail.jtp?type=node&node=5004883&i=1>>
> > wrote:
> > >
> > > > Hi
> > > >
> > > > Do you have the PSF image open?? I've done this before and I needed
> to
> > > > open
> > > > the PSF image, go to the PSF option, then select "Flip PSF Quadrants"
> > (if
> > > > the PSF is centered). After that select the input and output
> folders.
> > > >
> > > > It should then process all the files using the same PSF.
> > > >
> > > > Brian
> > > >
> > > >
> > > > On Thu, Sep 19, 2013 at 5:52 PM, mehulmvora <[hidden email]<
> > >
http://user/SendEmail.jtp?type=node&node=5004880&i=0>>
> > > > wrote:
> > > >
> > > > > Hello
> > > > >
> > > > > I wish to use DeConvolutionLab to perform batch processing on a
> > number
> > > > of
> > > > > .tiff stacks.
> > > > >
> > > > > I can choose the Input and Output folders without a problem. When I
> > hit
> > > > RUN
> > > > > it will show me the Initial input files and the new output file
> > names.
> > > > >
> > > > > However, it asks me for PSF file.
> > > > >
> > > > > When I do them individually, I use the same file as both input and
> > > > output.
> > > > > But am not sure how to do this for batch?
> > > > >
> > > > > Any help appreciated. I have 100s of files to process ! :)
> > > > >
> > > > >
> > > > >
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