[Gate-users] Gate-users Digest, Vol 79, Issue 13
Pietrzyk, Uwe
u.pietrzyk at fz-juelich.de
Thu Dec 13 14:00:05 CET 2012
Hi,
please note the following:
//# HOW TO COMPILE: #
//# 1) Compile using this command line in the terminal: #
//# g++ (name of file) `root-config --cflags --libs` #
//#
In a terminal window you have to enter:
g++ Bin_GATE_v1.0.c `root-config --cflags --libs`
if Bin_GATE_v1.0.c is the name of the c-programme you want to compile.
test.root is the output of the simulation , i.e. Gate program!
Hope this is helpful!
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 + 8229
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
Fachbereich C - Physik / D.08.01
Gaußstr. 20
42097 Wuppertal
Tel: +49-(0)202-439-3523
Fax: +49-(0)202-439-2811
eMail: Uwe.Pietrzyk at physik.uni-wuppertal.de
http://www.medizinphysik.uni-wuppertal.de
----------------------------------------------------------------------/
On 13.12.2012, at 10:54, jehangir khan wrote:
> hello Gate users!
> I recieved test.root output file which contain both singles and
> coincidence data. I am using Dr. C. R. Schmidtlein code to get
> projection data from my test.root file in same folder and try to
> compile by using following command
>
> g++ (test.root) `root-config --cflags --libs` because my output is test.root
>
> it shows me this error
>
> test.root: command not found
> /usr/lib/gcc/i686-linux-gnu/4.6/../../../i386-linux-gnu/crt1.o: In
> function `_start':
> (.text+0x18): undefined reference to `main'
> collect2: ld returned 1 exit status
> any body know know if there is something wrong in output file or
> where I am doing wrong
>
> On 12/13/12, gate-users-request at lists.opengatecollaboration.org
> <gate-users-request at lists.opengatecollaboration.org> wrote:
>> Send Gate-users mailing list submissions to
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>>
>>
>> Today's Topics:
>>
>> 1. Simulation of time of photon propagation in scintillator
>> (Pawe? Kowalski)
>> 2. (no subject) (Ashraf Kaloub)
>> 3. Re: Regarding ASCII SINGLES OUTPUT (open researcher)
>> 4. Errors while installing Geant 4.9.5.p01 (open researcher)
>>
>>
>> ----------------------------------------------------------------------
>>
>> Message: 1
>> Date: Wed, 12 Dec 2012 14:43:25 +0100
>> From: Pawe? Kowalski <flukson at gmail.com>
>> To: gate-users <gate-users at lists.opengatecollaboration.org>
>> Cc: Krzysztof Nawrocki <krzysztof.nawrocki at ncbj.gov.pl>
>> Subject: [Gate-users] Simulation of time of photon propagation in
>> scintillator
>> Message-ID:
>> <CANzsbvJUBCVO-UG7bJ1pDmateJcqtnVPHh_WjR_mFsE4ObKMQw at mail.gmail.com>
>> Content-Type: text/plain; charset="utf-8"
>>
>> Hello,
>>
>> I would like to simulate two periods of time:
>> - time of flight of gamma quantum between source and scintillator (t1 on
>> attached picture)
>> - time of propagation of photon in scintillator (from place of hit of
>> gamma quantum to scintillator to photomultiplier - t2 on attached picture).
>>
>> Is this possible to simulate both these periods of time in GATE?
>>
>> Any help would be appreciated.
>>
>> Best regards,
>> Pawe? Kowalski,
>> National Centre for Nuclear Research, Poland
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>> ------------------------------
>>
>> Message: 2
>> Date: Wed, 12 Dec 2012 23:19:31 +0200
>> From: Ashraf Kaloub <kaloub25 at hotmail.com>
>> To: <gate-users at lists.opengatecollaboration.org>
>> Subject: [Gate-users] (no subject)
>> Message-ID: <DUB120-W3299C720491F0B63B07DF7D64F0 at phx.gbl>
>> Content-Type: text/plain; charset="windows-1255"
>>
>>
>>
>>
>>
>>
>>
>>
>> __________________________________________
>> Ashraf I. kaloub,
>>
>>
>> M.Sc. Candidate in IT-Islamic University
>>
>>
>> Computer lecturer
>>
>>
>> Alaqsa-Community College
>>
>>
>> Khan Younis, Gaza
>> Strip, Palestine
>>
>>
>>
>>
>>
>> Jawwal: +972 599
>> 682875
>>
>>
>> E-mail: kaloub25 at hotmail.com
>>
>>
>>
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>> ------------------------------
>>
>> Message: 3
>> Date: Thu, 13 Dec 2012 09:25:30 +0530
>> From: open researcher <openresearcher90 at gmail.com>
>> To: Vesna Cuplov <vesna.cuplov at gmail.com>
>> Cc: gate-users at lists.opengatecollaboration.org
>> Subject: Re: [Gate-users] Regarding ASCII SINGLES OUTPUT
>> Message-ID:
>> <CAOdjMUwXx6Hcs8J9WuM5yx9RGWEr6+z_5wCgF0bVEg5tmVmaJA at mail.gmail.com>
>> Content-Type: text/plain; charset="iso-8859-1"
>>
>> Thank you for the correction, I didn't notice the line 'For the next
>> sections, the system will be set as a cylindricalPET system, so that the
>> number of lines concerning the Volume ID of each level will always be 5' in
>> users guide so I got confused.
>>
>>
>> On Wed, Dec 12, 2012 at 3:27 PM, Vesna Cuplov
>> <vesna.cuplov at gmail.com>wrote:
>>
>>> Hello,
>>>
>>> I have enabled optical photon generation, and I have included
>>>> opticaladder.
>>>>
>>>> I want to know how many photons had hit a particular pmt (in gate user
>>>> guide it is mentioned that
>>>> by using optical adder, one gets the information about the number of
>>>> photons and not the energy of the photons).
>>>>
>>>
>>> This sentence has been removed in the Gatev6.2 users guide: The optical
>>> adder adds energies.
>>>
>>> But my ascii singles file does not seem to give the details properly.
>>> here
>>>> is a sample of the ascii optical singles output --------
>>>>
>>>> 0 1768 4 -5.000e+01 -2.200e+02 0.000e+00 0 0 0
>>>> 7.60134730474956721302249e-03 1.488e+03 -4.809e+01 -1.649e+02
>>>> -3.745e-01
>>>> 0 0 0 0 NULL NULL
>>>>
>>>
>>>> column no 7 to 12 (0 0 0 7.60134730474956721302249e-03
>>>> 1.488e+03 -4.809e+01) are supposed to be the volume IDs but I don't
>>>> know
>>>> how to interpret these floating point numbers!
>>>>
>>>
>>> Be careful, volumeIDs depend on the system that you use for your
>>> simulation. You use a cylindrical PET as a system?
>>>
>>> It seems to me that you use a SPECThead?
>>>
>>> From the users guide, I read:
>>>
>>> columns 4,5,6 are the source position: -5.000e+01 -2.200e+02 0.000e+00
>>> columns 7, 8, 9 are the volumeIDs: 0 0 0
>>> time: 7.60134730474956721302249e-03
>>> Energy deposited by single: 1.488e+03
>>> position of the single: -4.809e+01 -1.649e+02 -3.745e-01
>>> Compton and Rayleigh stuff: 0 0 0 0 NULL NULL
>>>
>>> vesna
>>>
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>> ------------------------------
>>
>> Message: 4
>> Date: Thu, 13 Dec 2012 14:24:58 +0530
>> From: open researcher <openresearcher90 at gmail.com>
>> To: gate-users at lists.opengatecollaboration.org
>> Subject: [Gate-users] Errors while installing Geant 4.9.5.p01
>> Message-ID:
>> <CAOdjMUwXOnrt-U7Eajk9aD2=W_oeyZu5kWTLb9OKsvc8hp1Mqw at mail.gmail.com>
>> Content-Type: text/plain; charset="iso-8859-1"
>>
>> Hi gate users
>> I want to install Gate V 6.2. so, while installing Geant 4.9.5.p01 after I
>> type the command ccmake ../geant4.9.5.p01 I am getting the screen which is
>> mentioned in the Gate V 6.2 installation guide and when I press 'c' to
>> configure I am getting following errors --------
>>
>> ----------------------------------------------------------------------------
>> CMake Error at CMakeLists.txt:64 (include):
>> include could not find load file:
>>
>> Geant4MacroUtilities
>>
>>
>>
>> CMake Error at CMakeLists.txt:67 (include):
>> include could not find load file:
>>
>> CMakeUninstallTarget
>>
>>
>>
>> CMake Error at CMakeLists.txt:70 (include):
>> include could not find load file:
>>
>> Geant4ValidateSources
>>
>>
>>
>> CMake Error at CMakeLists.txt:73 (include):
>> include could not find load file:
>>
>> Geant4InstallDirs
>>
>>
>>
>> CMake Error at cmake/Modules/Geant4LibraryBuildOptions.cmake:23 (include):
>> include could not find load file:
>>
>> Geant4BuildModes
>> Call Stack (most recent call first):
>> CMakeLists.txt:76 (include)
>>
>>
>>
>> CMake Error at cmake/Modules/Geant4LibraryBuildOptions.cmake:118
>> (GEANT4_ADD_FEATURE):
>> Unknown CMake command "GEANT4_ADD_FEATURE".
>> Call Stack (most recent call first):
>> CMakeLists.txt:76 (include)
>> -----------------------------------------------------------------------------------
>>
>>
>> And where should I put G4EMLOW, RealSurface etc etc folders. (I have copied
>> all these in a folder named data and put this folder in geant4.9.5.p01
>> directory is it ok ?????)
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>>
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>> End of Gate-users Digest, Vol 79, Issue 13
>> ******************************************
>>
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