[Gate-users] Can not run Gate 6.1

[Aleksandra Biegun]

Dear Uwe,

I did try your suggestion with the "GateCommon.gmk" file, namely I made the
same changes as were in your file:

I changed:
EXTRALIBS += -L$ROOTSYS/lib $(shell $(ROOTSYS)/bin/root-config --libs) -ldl

into: EXTRALIBS += -L${ROOTSYS}/lib $(shell $(ROOTSYS)/bin/root-config
--libs) -ldl

and also used: LDFLAGS += -L/usr/X11R6/lib -lXt

instead of:LDFLAGS += -L/usr/X11R6/lib64 -lXt

but I got the same problem as at the beginning:

kviq21:gate_v6.1 dendoove$ echo $DYLD_LIBRARY_PATH
/Applications/root/lib:/Applications/CLHEP/lib:/Applications/root/lib:/Applications/CLHEP/lib:/Applications/gate6.1_withGeant492p2/gate_v6.1/tmp/Darwin-g++/Gate
kviq21:gate_v6.1 dendoove$ Gate
dyld: Symbol not found: __ZN12G4VEmProcess12PostStepDoItERK7G4TrackRK6G4Step
  Referenced from:
/Applications/gate6.1_withGeant492p2/gate_v6.1/tmp/Darwin-g++/Gate/libGate.dylib
  Expected in: flat namespace
 in
/Applications/gate6.1_withGeant492p2/gate_v6.1/tmp/Darwin-g++/Gate/libGate.dylib
Trace/BPT trap: 5

So it looks like there is some object missing...

Just to clarify the situation:
echo $DYLD_LIBRARY_PATH

/Applications/root/lib:/Applications/CLHEP/lib:/Applications/root/lib:/Applications/CLHEP/lib:/Applications/gate6.1_withGeant492p2/gate_v6.1/tmp/Darwin-g++/Gate

where: /Applications/CLHEP contain CLHEP 2.0.4.2, as recommended for Geant4
9.2.p02

As I mentioned, I could run Gate when Geant4 9.4.p03 is used
(with CLHEP 2.1.0.1), but I need to run Gate with Geant4 9.2.p02.
This fails so far.

If you have more suggestions I would be happy to try.

Kind regards,
Aleksandra




On Sun, Apr 22, 2012 at 9:47 PM, Pietrzyk, Uwe <u.pietrzyk at fz-juelich.de>wrote:

>
> Hi Aleksandra,
>
> I am not sure, if you know of some changes in the makefile for Mac/Lion.
> I have attached the file we use to this eMail. It concerns some libraries.
> You can see the differences with the command:
>
> diff old-file new-file
>
> Hope this is helpful.
>
> 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 + 8229
> Mobil: +49-162-103-4871
> eMail: U.Pietrzyk at fz-juelich.de
> http://www.fz-juelich.de/inm <http://www.fz-juelich.de/inb/inb-3/>
> &
> 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 22.04.2012, at 20:27, Aleksandra Biegun wrote:
>
> Hello Hermann,
>
> thanks for your response.
>
> I have already tried to add Gate libraries to $DYLD_LIBRARY_PATH, but it
> did not work, and before compiling Gate I followed all the instructions
> recommended by Gate people on the link you have sent me. Did not help.
> I must admit that I have no problem with installing Gate together with
> geant4 9.4.p03 on lion,
> but I do have a problem with Geant4 9.2.p02. But I also know that other
> people could compile Gate 6.1
> with Geant 9.2.p02, but on linux machine.
>
> If anyone still have any suggestions I will be more than happy to hear
> them.
>
> If I will solve this problem, I will surely post it!
>
> Kind regards,
> Aleksandra
>
>
> On Sun, Apr 22, 2012 at 6:49 PM, Hermann Fuchs <
> hermann.fuchs at meduniwien.ac.at> wrote:
>
> Hello
>
>
> I do not have much experience compiling GATE on Mac as I used mostly Linux.
>
> However, such an error message usually means that some path/library is not
>
> found.
>
>
> Perhaps MacOS looks in the wrong place and/or you might need to set a
>
> different environment variable.
>
>
> Try adding GATE to
>
>
> $DYLD_LIBRARY_PATH
>
>
> You might also have a look at the Mac Installation instructions. These can
>
> be found in the previous installation instructions
>
> http://wiki.**opengatecollaboration.org/**index.php/Current_Recommended_**
>
> Procedure<
> http://wiki.opengatecollaboration.org/index.php/Current_Recommended_Procedure
> >
>
> It is only for an old MacOs version, but perhaps it helps.
>
> When I tried it on my Mac some time ago it worked.
>
>
> If you do find the error, please keep me posted.
>
>
> Best regards,
>
> Hermann
>
>
>
> On 20.04.2012 16:17, Aleksandra Biegun wrote:
>
>
>
> Dear Gate-users,
>
>
> I am trying to run Gate on mac (Lion, 10.7.3) and I can not jump over an
>
> error message I have got:
>
>
> $ Gate
>
> dyld: Symbol not found: __**ZN12G4VEmProcess12PostStepDoIt**
>
> ERK7G4TrackRK6G4Step
>
> Referenced from: /Applications/gate_v6.1/tmp/**
>
> Darwin-g++/Gate/libGate.dylib
>
> Expected in: flat namespace
>
> in /Applications/gate_v6.1/tmp/**Darwin-g++/Gate/libGate.dylib
>
> Trace/BPT trap: 5
>
>
> I installed geant4 9.2.p02 with CLHEP 2.0.4.2, ROOT 5.30 and Gate 6.1.
>
> Geant4 works, ROOT works, Gate compiles, but when I try to run Gate
>
> I have this problem I mentioned.
>
>
> echo $DYLD_LIBRARY_PATH
>
> /Applications/root/lib:/**Applications/root/lib/root:/**
>
> Applications/CLHEP/lib:/**Applications/root/lib:/**
>
> Applications/CLHEP/lib::/**Applications/geant4.9.2.p02/**lib/Darwin-g++
>
>
> When I added Gate libraries, the problem remains.
>
>
> I know that according the specification for Gate6.1 I should compile it
>
> with newest version of Geant4,
>
> e.g. 9.4.p03, but because of work purposes I need to have it compiled
>
> with the older one 9.2.p02.
>
>
>
> Could anyone help me with it?
>
>
> Kind regards,
>
> Aleksandra
>
>
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