[MacPorts] #35992: Gate 6.2 (new port)

5 Sep 2012

      #35992: Gate 6.2 (new port)
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 Reporter:  mojca.miklavec.lists@…          |       Owner:  macports-tickets@…                   
     Type:  submission                      |      Status:  new                                  
 Priority:  Normal                          |   Milestone:                                       
Component:  ports                           |     Version:                                       
 Keywords:                                  |        Port:  gate                                 
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 I would like to see Gate 6.2 included in MacPorts.

 This is slightly related to Geant4 (#32716). Gate needs version 9.5.p01. I
 have written a preliminary Portfile here which needs a bit of help from
 experts to get linker flags work properly (and of course an updated
 Geant4). I'll post updates here as I proceed.

 {{{
 PortSystem          1.0
 PortGroup           cmake 1.0

 name                gate
 version             6.2
 categories          science
 maintainers         gmail.com:mojca.miklavec.lists
 license             TODO
 description         GATE description
 long_description    GATE is dedicated to numerical simulations in medical
 imaging and radiotherapy. \
                     It currently supports simulations of Emission
 Tomography (PET and SPECT), \
                     Computed Tomography (CT) and Radiotherapy experiments.
 homepage            http://www.opengatecollaboration.org
 platforms           darwin

 distfiles           gate_v6_2_tar_gz_15277.gz
 master_sites
 http://www.opengatecollaboration.org/sites/opengatecollaboration.org/files/g...

 checksums           rmd160  3fb8ec0fc7b78761e9eb0f39605ef84f1c485d42 \
                     sha256
 d8c0dcbb74e734a60bae868ba1ce4d334919695e2b59099d87933ec425c7f98a

 patchfiles          patch-compileerrors.diff

 worksrcdir          gate_v${version}
 configure.dir       ${workpath}/build
 build.dir           ${configure.dir}

 post-extract {
     file mkdir ${configure.dir}
 }

 configure.post_args ${worksrcpath}

 depends_lib         port:geant4 \
                     port:clhep
 # clhep implied with geant4

 configure.args-append -DGATE_USE_OWN_CLHEP=OFF
 }}}

 {{{
 --- source/digits_hits/include/GateMaps.hh.orig
 +++ source/digits_hits/include/GateMaps.hh
 @@ -117,7 +117,7 @@ inline GateMap<Tkey,Tvalue>::GateMap(size_t n,
 GateMap<Tkey,Tvalue> *mapArray[])
    for (size_t i=0; i<n ; i++){
      GateMap<Tkey,Tvalue>* mapElement = mapArray[i];
      for (iterator iter = mapElement->begin(); iter != mapElement->end();
 iter++)
 -      insert(*iter);
 +      this->insert(*iter);
    }
  }

 --- source/general/include/GateUIcmdWithAVector.hh.orig
 +++ source/general/include/GateUIcmdWithAVector.hh
 @@ -118,14 +118,14 @@ template<typename vContentType>
  G4String GateUIcmdWithAVector<vContentType>::ConvertToString
  (std::vector<vContentType> vec)
  {
 -  char st[100];
 +  //char st[100];
    //LF
    //std::ostrstream os(st,100);
 -  std::ostringstream os(st,100);
 +  std::ostringstream os;
    //LF
    for (G4int i=0; i<vec.size(); i++) os << vec[i] << " ";
    os << '\0';
 -  G4String vl = st;
 +  G4String vl = os.str();
    G4cout << "GateUIcmdWithAVector::ConvertToString : " << vl << G4endl;
    return vl;
  }
 }}}

 Compilation currently fails with
 {{{
 Undefined symbols for architecture x86_64:
   "vtable for CLHEP::HepVector", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   NOTE: a missing vtable usually means the first non-inline virtual member
 function has no definition.
   "vtable for CLHEP::HepSymMatrix", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   NOTE: a missing vtable usually means the first non-inline virtual member
 function has no definition.
   "CLHEP::HepVector::HepVector(int)", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   "CLHEP::HepVector::operator=(CLHEP::HepVector const&)", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   "CLHEP::HepVector::~HepVector()", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
       GateSourcePencilBeam::~GateSourcePencilBeam() in
 GateSourcePencilBeam.cc.o
       GateSourcePencilBeam::GenerateVertex(G4Event*) in
 GateSourcePencilBeam.cc.o
   "CLHEP::HepSymMatrix::HepSymMatrix(int, int)", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   "CLHEP::HepSymMatrix::operator=(CLHEP::HepSymMatrix const&)", referenced
 from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
   "CLHEP::HepSymMatrix::~HepSymMatrix()", referenced from:
       GateSourcePencilBeam::GateSourcePencilBeam(G4String) in
 GateSourcePencilBeam.cc.o
       GateSourcePencilBeam::~GateSourcePencilBeam() in
 GateSourcePencilBeam.cc.o
   "CLHEP::RandMultiGauss::fire()", referenced from:
       GateSourcePencilBeam::GenerateVertex(G4Event*) in
 GateSourcePencilBeam.cc.o
   "CLHEP::RandMultiGauss::RandMultiGauss(CLHEP::HepRandomEngine*,
 CLHEP::HepVector const&, CLHEP::HepSymMatrix const&)", referenced from:
       GateSourcePencilBeam::GenerateVertex(G4Event*) in
 GateSourcePencilBeam.cc.o
 ld: symbol(s) not found for architecture x86_64
 clang: error: linker command failed with exit code 1 (use -v to see
 invocation)
 make[2]: *** [Gate] Error 1
 }}}

-- 
Ticket URL: <https://trac.macports.org/ticket/35992>
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