Re: [Stir-users] Pinhole SPECTUB input format data

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Hi Yusuf

That exception is thrown when you're running out of memory. We try to catch it in several places to write a more instructive message, but it seems we missed at least one place.

I guess you could verify this by using a system monitor (on Linux, top or htop would do). You could also do an experiment with fewer collimator (or pinholes).

Sadly, it might mean you have to find a bigger computer to run this on. I think an alternative is to set disable caching of the matrix, it is going to make things quite slow.

Let us know

Kris 

> -----Original Message-----
> From: Yusuf Helo <you...@gm...>
> Sent: Wednesday, April 26, 2023 8:05 PM
> To: Matthew Strugari <mat...@da...>
> Cc: Sti...@li...
> Subject: Re: [Stir-users] Pinhole SPECTUB input format data
> 
> ⚠ Caution: External sender
> 
> 
> Hi Matthew,
> 
> Thank you very much for your reply/suggestion.
> 
> I downloaded the recon_test_pack and run the single-pinhole recon which
> work fine.
> I modified the collimator.txt and detector.txt to recon a simulated stationary
> scanner, where i have 4 collimators (0*º*,90*º*,180*º* and 270*º*).
> each collimator contains 12 pinholes spaced out around the collimator.
> However when i run the recon i got the error std::bad_alloc. I'm assuming
> the problem in my collimator.txt but i could be wrong. I attached all input
> files hopping if you/anyone could help please.
> 
> Many thanks,
> 
> 
> Yusuf
> 
> On Wed, Apr 12, 2023 at 4:27 PM Matthew Strugari
> <mat...@da...>
> wrote:
> 
> > Hi Yusuf,
> >
> > There is a pinhole-SPECT test in the recon_test_pack that would be a
> > good place to start. The example there is for a single-pinhole system
> > and includes some documentation and parameter files that should help
> > to familiarize you with the necessary inputs. The input projection
> > data uses interfile format.
> >
> > Feel free to ask about any questions that may arise.
> >
> > Best,
> > Matthew
> >
> > > On Apr 12, 2023, at 10:15 AM, Yusuf Helo <you...@gm...>
> wrote:
> > >
> > > CAUTION: The Sender of this email is not from within Dalhousie.
> > >
> > > Hi All,
> > >
> > > I would like to recon Pinhole SPECT data using STIR, but I'm not
> > > sure how the input format should look like. I have simulation which
> > > output image
> > per
> > > pinhole (no overlap allowed). I'm happy to start with basic
> > > situation
> > with
> > > just 4 single pinholes in each direction.(±x and ±y) which results
> > > with just 4 images.
> > > I went through  the user manual ( 5.14.7.5 Pinhole SPECT UB), but
> > > I'm not sure i could find the input format, neither in
> > > example/sample/PinholeSPECTUB.
> > > I'm happy to reformat my data to suit STIR.
> > > Any help is much appreciated.
> > >
> > > Thanks,
> > >
> > > Yusuf
> > >
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