[Gate-users] Make an image from GATE

[Pietrzyk, Uwe]

Hi Andrea,

for reasonable reconstruction you need much more data, i.e. many more
coincidences. The root-files may become quite large and need space.

Kind regards,

Uwe Pietrzyk

/----------------------------------------------------------------------
Prof. Dr. Uwe Pietrzyk
Diplom-Physiker
Institut für Neurowissenschaften und Medizin / INM-4
Forschungszentrum Jülich GmbH
52425 Jülich
Tel: +49-2461-61 4763
Fax: +49-2461-61 2820
Mobil: +49-162-103-4871
eMail: U.Pietrzyk at fz-juelich.de<mailto:U.Pietrzyk at fz-juelich.de>
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&
Bergische Universität Wuppertal
Fakultät für Mathematik und Naturwissenschaften
Büro:  D.08.01
Gaußstr. 20
42097 Wuppertal
Tel: +49-(0)202-439-3523
Fax: +49-(0)202-439-2811
eMail: Uwe.Pietrzyk at uni-wuppertal.de<mailto:Uwe.Pietrzyk at physik.uni-wuppertal.de>
http://www.medizinphysik.uni-wuppertal.de<http://www.medizinphysik.uni-wuppertal.de/>
----------------------------------------------------------------------/

On 16 Jun 2016, at 14:51, Andrea Colantuono S221003 <andrea.colantuono at studenti.polito.it<mailto:andrea.colantuono at studenti.polito.it>> wrote:

okey, I will try this AMIDE tool. Now I used the line list_image_info for retrieving information about my image, but, as I supposed, image min, image max and image sum are zero. Now I have to understand if the problem is in GATE or in STIR. Can you check if my steps in STIR are all right? So, after I had the root file from GATE, I used the code Bill_Gate_v1.0.C to take the sinogram. Then, I reconstructed the image in format .v with FBP2D, using the line ">FBP2D FBP2D.par" changing the file name inside the .par file. Maybe are the coincidences too few? they are 1447.

Il 2016-06-15 17:43 Pietrzyk, Uwe ha scritto:
Hi Andrea,
as long as you keep the structure of your system the same
and have introduced the appropriate parameters into the
conversion / sorting tool, the structure of the file remains the
same as does the file size.
I am not sure, but I remember that you should be able to
visualise the "sinograms” with a tool like “amide”. Since the
concersion is for producing input to STIR you may check
the respective users guide.
Maybe this is helpful for you.
Kind regards,
U. Pietrzyk
/----------------------------------------------------------------------
Prof. Dr. Uwe Pietrzyk
Diplom-Physiker
Institut für Neurowissenschaften und Medizin / INM-4
Forschungszentrum Jülich GmbH
52425 Jülich
Tel: +49-2461-61 4763
Fax: +49-2461-61 2820
Mobil: +49-162-103-4871
eMail: U.Pietrzyk at fz-juelich.de<mailto:U.Pietrzyk at fz-juelich.de>
http://www.fz-juelich.de/inm/inm-4/DE/Home/home_node.html
&
Bergische Universität Wuppertal
Fakultät für Mathematik und Naturwissenschaften
Büro:  D.08.01
Gaußstr. 20
42097 Wuppertal
Tel: +49-(0)202-439-3523
Fax: +49-(0)202-439-2811
eMail: Uwe.Pietrzyk at uni-wuppertal.de
http://www.medizinphysik.uni-wuppertal.de [1]
----------------------------------------------------------------------/
On 15 Jun 2016, at 16:38, Andrea Colantuono S221003
<andrea.colantuono at studenti.polito.it> wrote:
thank you for the answer!
I tried with that code but I don't understand if the output is
right. Indeed, the dimension of the file in output (107.3 MB) is the
same for evrey input. So, for me this is wierd and I am afraid the
output is always empty. Moreover, threee warnings occur, but I don't
know if this is for them.
The warning are:
"Input file name is outputDerenzo*.root
Michelogram file name is = Mich_sinog.s
Projection file name is = Proj_sinog.s
Warning in <TClass::TClass>: no dictionary for class TH1 is
available
Warning in <TClass::TClass>: no dictionary for class TAxis is
available
Warning in <TClass::TClass>: no dictionary for class TH1D is
available
Total Number of Coincidence Events:= 1447 "
regards,
Andrea
Il 2016-06-14 18:27 Pietrzyk, Uwe ha scritto:
Hi Andrea,
on the GATE-WebPage
http://www.opengatecollaboration.org/STIR
you can find a link to source code for reading
ROOT file and convert it for STIR.
Kind regards and best wishes,
Uwe Pietrzyk
/----------------------------------------------------------------------
Prof. Dr. Uwe Pietrzyk
Diplom-Physiker
Institut für Neurowissenschaften und Medizin / INM-4
Forschungszentrum Jülich GmbH
52425 Jülich
Tel: +49-2461-61 4763
Fax: +49-2461-61 2820
Mobil: +49-162-103-4871
eMail: U.Pietrzyk at fz-juelich.de
http://www.fz-juelich.de/inm/inm-4/DE/Home/home_node.html
&
Bergische Universität Wuppertal
Fakultät für Mathematik und Naturwissenschaften
Büro:  D.08.01
Gaußstr. 20
42097 Wuppertal
Tel: +49-(0)202-439-3523
Fax: +49-(0)202-439-2811
eMail: Uwe.Pietrzyk at uni-wuppertal.de
http://www.medizinphysik.uni-wuppertal.de [1]
----------------------------------------------------------------------/
On 13 Jun 2016, at 10:19, Andrea Colantuono S221003
<andrea.colantuono at studenti.polito.it> wrote:
Hi everybody!
I am working on a cylindrical PET and I have to evaluate the impact
of the positron range on the quality of the images. I have some
issues about retrieve an image from the coincidences of my system. I
installed STIR, because I know GATE can not make an image, but how
can I use my root or ASCII coincidences file on STIR?
I installed also the packege GATE_PET_2_STIR but the root file is
not recognized. Do you have alternatives?
thank you,
regards,
Andrea
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