[Gate-users] Overlaps when using voxelized phantom

Wed Jun 24 15:32:10 CEST 2020

Hi Steve,

Thank you for your quick answer.

I have tried to implement your solution, but the simulation crushed with the following error message:

terminate called after throwing an instance of 'std::out_of_range'
  what():  vector::_M_range_check: __n (which is 18446744073709551615) >= this->size() (which is 1)
Aborted (core dumped)

If I remove the source from the simulation, the error doesn't appear.

Do you have any insights on the matter?

Thank you,
Ayeleth.	

-----Original Message-----
From: COURT, Steven (UNIVERSITY COLLEGE LONDON HOSPITALS NHS FOUNDATION TRUST) <steven.court at nhs.net> 
Sent: Tuesday, June 23, 2020 12:08 PM
To: Devir-Wolfman, Ayeleth (GE Healthcare) <Ayeleth.Devir-Wolfman at ge.com>
Subject: EXT: Re: Overlaps when using voxelized phantom

Hi there,

I believe there is a work around for this using the Merged Volume Actor here: https://opengate.readthedocs.io/en/latest/tools_to_interact_with_the_simulation_actors.html#merged-volume-actor

Note that the order of things is important. Once everything is in the merged volume, you can still attach other actors to separate volumes within the merged volume.

Hope it helps,
Steve

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Sent: 22 June 2020 11:00
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Subject: Gate-users Digest, Vol 169, Issue 38

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Today's Topics:

   1. (no subject) (amir bahador yeke dehghan)
   2. Overlaps when using voxelized phantom
      (Devir-Wolfman, Ayeleth (GE Healthcare))
   3. Re: FWHM without feeding during SPECT simulating (Khalid Hussain)

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Message: 1
Date: Sun, 21 Jun 2020 16:48:15 +0430
From: amir bahador yeke dehghan <amirbahadordehghan at gmail.com>
To: gate-users at lists.opengatecollaboration.org
Subject: [Gate-users] (no subject)
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        <CAKr4HPM=FW_5GV71bpaoiN+dKPSCgbDh20-6RNos8zj95ZUnHw at mail.gmail.com>
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Hi dear gate users
can you guide me how can I calculate gamma index in dose outputs?is there any application to calculate 2D or 3D gamma index with these outputs?
I used dose actor in my simulation and have dose.mhd and dose.raw files.
best regards.
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Message: 2
Date: Mon, 22 Jun 2020 07:15:44 +0000
From: "Devir-Wolfman, Ayeleth (GE Healthcare)"
        <Ayeleth.Devir-Wolfman at ge.com>
To: "gate-users at lists.opengatecollaboration.org"
        <gate-users at lists.opengatecollaboration.org>
Subject: [Gate-users] Overlaps when using voxelized phantom
Message-ID:
        <SG2P101MB0109F375B28DE5DD2390DC26C0970 at SG2P101MB0109.NAMP101.PROD.OUTLOOK.COM>

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Hello Gate users,

I'm a novel user of GATE and I want to add a voxelized phantom to my SPECT simulation.

I try to imitate a clinical scan, where the detector should be close to the phantom/object, but there an overlapping issue between the scanner and the bounds of the phantom (which are made of air/vacuum).

I know that it's a known issue originating from GEANT4, and I have tried a few of the suggested solutions in the mailing list (splitting the phantom to multi-voxelized phantoms, and building the phantom by defining each voxel independently), but to no avail.

Has anyone found a simple workaround for the overlapping issue?

Thanks,
Ayeleth.
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Message: 3
Date: Mon, 22 Jun 2020 13:21:05 +0500
From: Khalid Hussain <khalidhussain1134 at gmail.com>
To: Gate-users at lists.opengatecollaboration.org
Subject: Re: [Gate-users] FWHM without feeding during SPECT simulating
Message-ID:
        <CAFjakMJBO2qL-qAMRptKLPwnzn06EY_+jvRSU-hyk1esQWg-=g at mail.gmail.com>
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Dear gate users,

I need your kind cooperation in a problem that I asked about three days ago but none has answered.

I am calculating energy resolution (FWHM), to validate the gamma camera.
The way I am preceding is, I used digitizer module and saved it's output in ASCII format, from single.dat ASCII file,I extracted energy deposited and calculated FWHM (energy resolution), this value of energy resolution is same which I set in script as ;

/gate/digitizer/Singles/blurring/setResolution 0.10

My question is how can we calculate energy resolution without pre-setting it's value in script (as above) to validate the camera.

I hope someone will guide me
Thank you

On Sat, Jun 20, 2020, 2:56 PM Khalid Hussain <khalidhussain1134 at gmail.com>
wrote:

> Dear Gate users,
>
> Please have a look on my problem and guide me.
> Thank you very much.
>
> On Fri, Jun 19, 2020, 5:23 PM Khalid Hussain 
> <khalidhussain1134 at gmail.com>
> wrote:
>
>> Dear Users,
>>
>> From the following line we feed the value of FWHM to the simulation.
>>
>> /gate/digitizer/Singles/blurring/setResolution 0.10
>>
>>
>> Whatever I set the value, I get almost same after plotting endep in 
>> single.dat.
>>
>> I want to calculate the FWHM rather than feeding its value to the 
>> simulation
>>
>> I have to validate the camera so I need to calculate myself, please guide.
>>
>> Thank you
>>
>>
>> Regards
>> Khalid Hussain
>> PhD Student, UPM
>>
>
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