[Gate-users] Gate v7 installation problem

Wed Jun 11 14:39:56 CEST 2014

Hi David,

Thanks for your reply.
I am using gcc4.4.4
is that ok for G4 9.6.3?

-------- Original Message --------
Subject: Re: [Gate-users] Gate v7 installation problem
From: David Sarrut <David.Sarrut at creatis.insa-lyon.fr>
Date: Wed, 2014-06-11 15:39
To: Tasneem Rahman <Tasneem.Rahman at student.adfa.edu.au>
CC: Beien Wang <benjaminwang91 at gmail.com>,gate-users at lists.opengatecollaboration.org

Hello,

what is your gcc version ? G4 9.6.3 is compatible with gcc 4.2.1

David

On Tue, Jun 10, 2014 at 1:40 PM, Tasneem Rahman <Tasneem.Rahman at student.adfa.edu.au<mailto:Tasneem.Rahman at student.adfa.edu.au>> wrote:

Hi Beien,

Still figuring out my problem. would you please tell me what are the versions you have used for CLHEP, root and geant ? may be I can get something from there. Thanks.

Cheers

Smita

-------- Original Message --------
Subject: Re: [Gate-users] Gate v7 installation problem
From: Beien Wang <benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>>
Date: Mon, 2014-06-09 19:27
To: Tasneem Rahman <Tasneem.Rahman at student.adfa.edu.au<mailto:Tasneem.Rahman at student.adfa.edu.au>>
CC: gate-users at lists.opengatecollaboration.org<mailto:gate-users at lists.opengatecollaboration.org>

Dear Smita,

I think we are having different problems, since the located error files are different (I read you post in the mailing-list). It is possible that you have a minor modification different files like what I did and the problem might be solved. I don't know, but good luck!

Best,
Beien

On 8 June 2014 06:37, Tasneem Rahman <Tasneem.Rahman at student.adfa.edu.au<mailto:Tasneem.Rahman at student.adfa.edu.au>> wrote:
Dear Beien,

Thanks for your help. But it didn’t bring any luck for me. Don’t really sure now how to proceed. :(

Cheers,

Smita

From: Beien Wang [mailto:benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>]
Sent: Saturday, 7 June 2014 6:24 PM
To: Tasneem Rahman
Cc: gate-users at lists.opengatecollaboration.org<mailto:gate-users at lists.opengatecollaboration.org>

Subject: Re: [Gate-users] Gate v7 installation problem

Dear Tasneem,

Sorry I don't have that file at hand these days. But what I have done is quite simple. Just locate the error file: path_to_geant4/geant4/geant4.9.6.p03-install/include/Geant4/G4NeutronHPVector.hh, and locate the error line 403: error: ‘__isnan’ is not a member of ‘std’. Change the error std::isnan(...) to isnan(...). Then the error disappears. I have no idea of why this error exists, neither do I have any idea of why this way solve the problem without trigger further problem... Good luck!

Best,
Beien

On 6 June 2014 15:22, Tasneem Rahman <Tasneem.Rahman at student.adfa.edu.au<mailto:Tasneem.Rahman at student.adfa.edu.au>> wrote:

Dear Beien,

I am having the exact problem. would you mind to send me the link of the error file as you mentioned where I can modify the same?Thanks.

Cheers,

Smita

-------- Original Message --------

Subject: Re: [Gate-users] Gate v7 installation problem

From: Beien Wang <benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>>

Date: Fri, 2014-06-06 22:02

To: "Schnerr R.S. (Roald)" <roald.schnerr at mumc.nl<mailto:roald.schnerr at mumc.nl>>

CC: gate-users at lists.opengatecollaboration.org<mailto:gate-users at lists.opengatecollaboration.org>

Dear Roald,

Finally I fix it out by modifying the line in the error file. The error is 'isnan is not a member of std', and I just change that line from std::isnan to isnan. Then the problem was solved. Thank you all!

Best,
Beien

On 5 June 2014 15:46, Schnerr R.S. (Roald) <roald.schnerr at mumc.nl<mailto:roald.schnerr at mumc.nl>> wrote:
Perhaps try it without the -j4 option. So just make. That helped in my case. Apparently it suffers from some sort of race condition.

Best wishes,
Roald

> -----Original Message-----
> From: gate-users-bounces at lists.opengatecollaboration.org<mailto:gate-users-bounces at lists.opengatecollaboration.org> [mailto:gate-<mailto:gate->
> users-bounces at lists.opengatecollaboration.org<mailto:users-bounces at lists.opengatecollaboration.org>] On Behalf Of Beien Wang
> Sent: donderdag 5 juni 2014 13:52
> To: gate-users at lists.opengatecollaboration.org<mailto:gate-users at lists.opengatecollaboration.org>
> Subject: [Gate-users] Gate v7 installation problem
>
> Dear gate users,
>
>
> I am struggling to install Gate v7.0 on my Scientific Linux 5.3
> computer. GEANT4 and CLHEP have been installed successfully (at least I
> believe so). GATE is also successfully configured by cmake. But when I
> manage to follow the instruction and use make -j4 to install it, the
> error below occurs. Can any one help me with it? Thanks!
>
>
> Best,
>
> Beien
>
>
> The problem after make -j4
>
>
> Linking CXX static library libITKMetaIO.a [  6%] Built target ITKMetaIO
> [  6%] [  6%] [  6%] Building CXX object CMakeFiles/Gate.dir/Gate.cc.o
> [  6%] Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFDataToRootMessenger.cc.o
> Building CXX object CMakeFiles/Gate.dir/source/arf/src/GateARFSD.cc.o
> Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFSDMessenger.cc.o
> [  6%] Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFTable.cc.o
> /home/wuwei/programs/geant4/geant4.9.6.p03-
> install/include/Geant4/G4NeutronHPVector.hh: In member function ‘void
> G4NeutronHPVector::IntegrateAndNormalise()’:
> /home/wuwei/programs/geant4/geant4.9.6.p03-
> install/include/Geant4/G4NeutronHPVector.hh:403: error: ‘__isnan’ is
> not a member of ‘std’
> [  6%] Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFTableMgrMessenger.cc.o
> [  7%] Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFTableMgr.cc.o
> [  7%] Building CXX object
> CMakeFiles/Gate.dir/source/arf/src/GateARFDataToRoot.cc.o
> /home/wuwei/programs/CLHEP/2.1.3.1-
> install/include/CLHEP/Units/PhysicalConstants.h: At global scope:
> /home/wuwei/programs/CLHEP/2.1.3.1-
> install/include/CLHEP/Units/PhysicalConstants.h:80: warning:
> ‘CLHEP::electron_charge’ defined but not used
> /home/wuwei/programs/CLHEP/2.1.3.1-
> install/include/CLHEP/Random/Randomize.h:68: warning:
> ‘CLHEP::HepRandomGenActive’ defined but not used
> make[2]: *** [CMakeFiles/Gate.dir/Gate.cc.o] Error 1
> make[2]: *** Waiting for unfinished jobs....
> make[1]: *** [CMakeFiles/Gate.dir/all] Error 2
> make: *** [all] Error 2
>
> --
>
> Beien Wang
> Master's student at KTH, Royal Institute of Technology
> Email: benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>
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--
Beien Wang
Master's student at KTH, Royal Institute of Technology
Mobile telephone: +46 720 327 308<tel:%2B46%20720%20327%20308>
Email: benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>
Address: Ekebergabacken 4A-1032, 123 63 Farsta, Sweden

--
Beien Wang
Master's student at KTH, Royal Institute of Technology
Mobile telephone: +46 720 327 308<tel:%2B46%20720%20327%20308>
Email: benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>
Address: Ekebergabacken 4A-1032, 123 63 Farsta, Sweden

--
Beien Wang
Master's student at KTH, Royal Institute of Technology
Mobile telephone: +46 720 327 308<tel:%2B46%20720%20327%20308>
Email: benjaminwang91 at gmail.com<mailto:benjaminwang91 at gmail.com>
Address: Ekebergabacken 4A-1032, 123 63 Farsta, Sweden

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--
David Sarrut, Phd
Directeur de recherche CNRS
CREATIS, UMR CNRS 5220, Inserm U 1044
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 "2 + 2 = 5,  for extremely large values of 2"
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