[gate-users] Image Reconstruction of Gate output
Nehmeh, Sadek/Medical Physics
nehmehs at mskcc.org
Tue Jan 4 18:03:20 CET 2005
Here it is again.
Sadek
-----Original Message-----
From: gate-users-bounces at lphe1pet1.epfl.ch
[mailto:gate-users-bounces at lphe1pet1.epfl.ch] On Behalf Of Mutanga
Theodore
Sent: Tuesday, January 04, 2005 10:12 AM
To: Long ZHANG; GATE feedback and helpline for Users
Subject: Re:RE: RE: [gate-users] Image Reconstruction of Gate output
Hello Sadek,
sorry I am bothering you again but I'd like to show you the changes I
made to your code:
1) GEAdvance3D_Sinogram_Bin.c
#define NUMBER_OF_RINGS 24 // Advance/DLS)
#define CRYSTALS_PER_RING 420 // Discov$#define
SINOGRAM_WIDTH 249 // (or 223 according to STIR ??)
#define MAX_THETA 11 //
#define NUMBER_OF_PROJECTION_PLANES 553 //
#define FOV 600 //
#define SLICES_PER_FOV 47 //
2)
// Update the different arrays...
//-------------------------------
if (u>=0 && u<223) <<<< I changed this to 223 or 249 ? !!!!
{
sinogram_counts[ring2][ring1] += 1;
3) Gate_to_Stir.c
int nRings = 24; // Number of rings in the GE Advance
scanner
int Num_sinos = nRings*nRings;
int nPHI = 210; // Number of angular bins in the
sinogram
int nU = 223; // Number of radial bins in the
sinogram
4)These slices per segment I got from the headers created by
creat_proj_data
int num_slices_per_segment[23] =
{1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,47}; //Number
of projection planes per segment
5)
printf("Please enter the absoute number of segments you would like to
reconstruct (0, -> 22):
6)
//Process segments 23->2
//-----------------------
printf("Processing segments 23 -> 2... \n");
for (ring1= (num_segments+1); ring1>1; ring1--)
{
7) I didn't know how to change the 17 ? what does it do here ?
r1 = ring1;
while (r1<17)
{
r1 = ring1 + c;
r2 = r1 - ring1;
8)
//goto NEXT2;
//Process segments -2->-23
//------------------------
printf("Processing segments 2 -> 23... \n");
for (ring2=2; ring2< (num_segments + 2); ring2++)
{
int c = 0;
r2 = ring2;
Well Those are the things I modified, but I think there is a great deal
more to change because when I use the manip_proj_data from Stir on the
projection data, it doesn't look good at all.
Hope to hear from you soon
Theodore
> Dear Sadek,
>
> That's great if you can implement the DST code. It looks almost
finished.
>
> My idea is to build a generic framework based on your code. With this
> framework,
> the coding work will be greatly simplified for new scanner. It's a
> abstracted
> layer which can call different set of functions for a different
scanner.
> It's
> pretty important when porting it to GATE, for not only the
correctness,
> but also
> the optimised design.
>
> So it's very important to know root script characters, such as
callback
> functions,
> or object oriented characters like dynamic binding, etc. Or I think a
> input
> parameter file or a static table is needed (like STIR). I only know
root
> is C/C++
> like, but no deeper study.
>
> Helps is highly appreciated!
>
> Regards,
>
> Long
>
>
>
>
>
> In your mail:
>>From:"Nehmeh, Sadek/Medical Physics" <nehmehs at mskcc.org>
>>Reply-To: GATE feedback and helpline for Users
>> <gate-users at lphe1pet1.epfl.ch>
>>To: "GATE feedback and helpline for Users"
<gate-users at lphe1pet1.epfl.ch>
>>Subject: RE: RE: [gate-users] Image Reconstruction of Gate output
>>
>>Dear Theodore and Long,
>>
>>Yes I'm back, and sorry for taking me time replying to your emails.
>>Long, I think what you have suggested in your previous email regarding
>>evaluating the sinogram binner for the DST, and try to incorporate it
>>with GATE, is a great idea. Meanwhile, I am also testing that for the
>>DST configuration. Hopefully I will get back to you tomorrow with my
>>feedback.
>>
>>Theodore, for your NEMA measurements, I know O. Mawlawi at M.D.
Anderson
>>did the NEMA2001 measurements for the DST. It was published in the JNM
>>(J Nucl Med. 2004 Oct;45(10):1734-42); you may wana refer to that, and
>>reproduce their analysis method, for comparison.
>>
>>
>> Cheers,
>>
>> Sadek
>>
>>
>>
>>Theodore
>>Sent: Monday, January 03, 2005 11:30 AM
>>To: Long ZHANG; GATE feedback and helpline for Users
>>Subject: Re:RE: [gate-users] Image Reconstruction of Gate output
>>
>>Hi Long,
>>it seems Sadek is back, have you written to him about the code ?
>>
>>Cheers
>>
>>Theodore
>>
>>By the way I was simulating the ECAT exact hr+ and I would like to
>>compare my results with someone Here is what I had for the resolution
>>measurements , NEMA 2001 !
>>
>>transverse @ 1cm = 8.3 mm
>>axial @1 cm 11.5 mm
>>
>>
>>transverse radial @ 10cm = 10.59mm
>>transverse tangential@ 10cm = 10.66mm
>>
>>axial @10cm 10.31 mm
>>
>>
>>I wish to find out from the GATE users if these look reasonable, I was
>>planning to do measurements myself on the ecat but I dont have acceess
>>to one since initially I was simulating the DST. Also in the NEMA 2001
>>there is no mention about matrix size for reconstruction , doesnt this
>>affect the resolution ? I did not correct for anythin in the data from
>>GATE , would it be better to correct for randoms, scatter ect , if so
>>HOW (using GATE ?)?
>>
>>
>>Cheers
>>
>>'Theo
>>
>>> Dear Kris,
>>>
>>> Thank you very much.
>>>
>>> It seems that I have mistake the sinogram width (angle position) as
>>> sinogram length (view number, or tangential bin number, or
>>> displacement position).
>>> Am I
>>> right now?
>>>
>>> Regards,
>>>
>>> Long
>>>
>>> In your mail:
>>>>From:"Kris Thielemans" <kris.thielemans at csc.mrc.ac.uk>
>>>>Reply-To: GATE feedback and helpline for Users
>>>><gate-users at lphe1pet1.epfl.ch>
>>>>To: "'Long ZHANG'" <zhanglong99 at tsinghua.org.cn>,
>>> "'GATE feedback and helplinefor Users'"
>>> <gate-users at lphe1pet1.epfl.ch>
>>>>Subject: RE: [gate-users] Image Reconstruction of Gate output
>>>>
>>>>>
>>>>> BTW, I was pussled by the sinogram width of DST (420 crystal per
>>>>> ring). The number 249 is larger than the 420/2 = 210. How can DST
>>>>> get the extra LORs of 39? By interpolation? Could this help to
>>>>> improve the spatial resolution? Thank you!
>>>>>
>>>>Notation: N= num_detectors per ring
>>>>
>>>>Why do you think that the max sinogram width is N /2? This is a
>>>>hardware choice (recent CTI scanners tend to have
sinogram_width=N/2).
>>
>>>>The 'physical' maximum of LORs in 2D sinograms is (N^2-N)/2 (i.e.
all
>>>>lines between pairs of detectors, excluding the degenerate cases,
and
>>>>identifying det pairs ij and ji). The max number of views is N/2
>>>>(you'd expect N, but it's halved because of interleaving). So, the
max
>>
>>>>sinogram width is something like (N-1)
>>>>
>>>>
>>>>Kris
>>>>
>>>>_______________________________________________
>>>>gate-users mailing list
>>>>gate-users at lphe1pet1.epfl.ch
>>>>http://lphe1pet1.epfl.ch/mailman/listinfo/gate-users
>>>>
>>>
>>>
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