[Gate-users] Building GATE v9.1 on Ubuntu 20.04

[David Boersma]

Hi Tim,

Just an observation from the sidelines (these days I can spend much less
time on GATE than I did in the past): the subject of your mail is about
version 9.1, but in the build output messages I see source paths with
version 9.0 in them. Can you clarify which version you are really trying to
build? That can be important for whoever is going to try to reproduce this
error.

In principle the newest release is preferred. In case the above errors were
really obtained with 9.0 source code, could you then try to upgrade to 9.1?
Moreover, the next release is also just around the corner, this might also
solve your problem (but maybe introduce a host of new ones :o) ).

Good luck!
David



On Tue, Feb 15, 2022 at 5:36 PM Schneider Tim <Tim.Schneider at curie.fr>
wrote:

> Dear Gaters,
>
> We are trying to install GATE v9.1 on an Ubuntu 20.04 machine and we’re
> having some quite strange errors during the make step:
>
> /home/angela/geant4.10.06.p03-install/include/Geant4/CLHEP/Geometry/BasicVector3D.h:468:3:
> note: candidate: ‘std::ostream& std::operator<<(std::ostream&, int)’
>   468 |   operator<<(std::ostream &, const BasicVector3D<double> &);
>       |   ^~~~~~~~
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:307:56: error:
> invalid use of incomplete type ‘class GateARFTable’
>   307 |     GateARFTable* arfTable = new GateARFTable(tableName);
>       |                                                        ^
> In file included from
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:14:
> /home/angela/Gate-9.0/source/arf/include/GateARFTableMgr.hh:14:7: note:
> forward declaration of ‘class GateARFTable’
>    14 | class GateARFTable;
>       |       ^~~~~~~~~~~~
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:308:13: error:
> invalid use of incomplete type ‘class GateARFTable’
>   308 |     arfTable->Initialize(tableBuffer[4], tableBuffer[5]);
>       |             ^~
> In file included from
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:14:
> /home/angela/Gate-9.0/source/arf/include/GateARFTableMgr.hh:14:7: note:
> forward declaration of ‘class GateARFTable’
>    14 | class GateARFTable;
>       |       ^~~~~~~~~~~~
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:309:13: error:
> invalid use of incomplete type ‘class GateARFTable’
>   309 |     arfTable->SetEnergyReso(tableBuffer[2]);
>       |             ^~
> In file included from
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:14:
> /home/angela/Gate-9.0/source/arf/include/GateARFTableMgr.hh:14:7: note:
> forward declaration of ‘class GateARFTable’
>    14 | class GateARFTable;
>       |       ^~~~~~~~~~~~
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:310:13: error:
> invalid use of incomplete type ‘class GateARFTable’
>   310 |     arfTable->SetERef(tableBuffer[3]);
>       |             ^~
> In file included from
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:14:
> /home/angela/Gate-9.0/source/arf/include/GateARFTableMgr.hh:14:7: note:
> forward declaration of ‘class GateARFTable’
>    14 | class GateARFTable;
>       |       ^~~~~~~~~~~~
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:322:13: error:
> invalid use of incomplete type ‘class GateARFTable’
>   322 |     arfTable->FillTableFromBuffer(tableBuffer);
>       |             ^~
> In file included from
> /home/angela/Gate-9.0/source/arf/src/GateARFTableMgr.cc:14:
> /home/angela/Gate-9.0/source/arf/include/GateARFTableMgr.hh:14:7: note:
> forward declaration of ‘class GateARFTable’
>    14 | class GateARFTable;
>       |       ^~~~~~~~~~~~
> make[2]: *** [CMakeFiles/GateLib.dir/build.make:128:
> CMakeFiles/GateLib.dir/source/arf/src/GateARFTableMgr.cc.o] Error 1
> make[2]: *** [CMakeFiles/GateLib.dir/build.make:154:
> CMakeFiles/GateLib.dir/source/digits_hits/src/GateActions.cc.o] Error 1
> make[1]: *** [CMakeFiles/Makefile2:290: CMakeFiles/GateLib.dir/all] Error 2
> make: *** [Makefile:130: all] Error 2
>
> This is actually only the lost couple of lines, there are many more such
> errors and warnings like these before the build completely fails.
>
> The ccmake options look like this:
>
>  BUILD_TESTING                    OFF
>
>
>  CMAKE_BACKWARDS_COMPATIBILITY    2.4
>
>
>  CMAKE_BUILD_TYPE                 Release
>
>
>  CMAKE_INSTALL_PREFIX             /home/angela/gate-install
>
>
>  EXECUTABLE_OUTPUT_PATH
>
>
>  GATE_COMPILE_GATEDIGIT           OFF
>
>
>  GATE_COMPILE_WITH_NATIVE         OFF
>
>
>  GATE_USE_DAVIS                   OFF
>
>
>  GATE_USE_ECAT7                   OFF
>
>
>  GATE_USE_GEANT4_UIVIS            ON
>
>
>  GATE_USE_ITK                     OFF
>
>
>  GATE_USE_LMF                     OFF
>
>
>  GATE_USE_OPTICAL                 OFF
>
>
>  GATE_USE_RTK                     OFF
>
>
>  GATE_USE_SYSTEM_CLHEP            OFF
>
>
>  GATE_USE_TORCH                   OFF
>
>
>  GATE_USE_XRAYLIB                 OFF
>
>
>  Geant4_DIR
>  /home/angela/geant4.10.06.p03-install/lib/Geant4-10.6.3
>  LIBRARY_OUTPUT_PATH
>
>
>  PTL_DIR
> /home/angela/geant4.10.06.p03-install/lib/Geant4-10.6.3/PTL
>
>  ROOTCINT_EXECUTABLE              /home/angela/root/bin/rootcint
>
>
> There was initially another problem that seemed to originate from root and
> Geant4 having been compiled with different C++ standards. We rebuilt Geant4
> enforcing the C++ 17 standard and root is actually the downloaded binary
> which seems to work fine.
>
> Does anyone have an idea what the error during the GATE build could be and
> how to fix it?
>
> Thanks a lot in advance!
>
> Best,
> Tim
> _______________________________________________
> Gate-users mailing list
> Gate-users at lists.opengatecollaboration.org
> http://lists.opengatecollaboration.org/mailman/listinfo/gate-users
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