My env_gate.sh as follows. Please advise on what is my mistake: export G4ANALYSIS_USE_GENERAL=1 export G4_USE_G4BESTUNIT_FOR_VERBOSE=1 export G4VERSION=9.4 export G4INSTALL=/home/siti/Gate6/geant4.9.4.p04 export ROOTSYS=/home/siti/Gate6/root export GATEHOME=/home/siti/Gate6/gate_v6.1 export LD_LIBRARY_PATH=$ROOTSYS/include/:$LD_LIBRARY_PATH export LD_LIBRARY_PATH=/home/siti/Gate6/<a href="http://2.1.0.1/lib:$LD_LIBRARY_PATH">2.1.0.1/lib:$LD_LIBRARY_PATH</a> export LD_LIBRARY_PATH=$GATEHOME/tmp/Linux-g++/Gate:$LD_LIBRARY_PATH export PATH=$ROOTSYS/bin:$PATH export PATH=$GATEHOME/bin/Linux-g++:$PATH export LMF_HOME=/home/siti/Gate6/lmf_3.0 export ECAT7_HOME=/home/siti/Gate6/ecat_7 ### source command result: The current value of G4INSTALL is: /home/siti/Gate6/geant4.9.4.p04 The current value of G4VERSION is: 9.4 Launching Geant4 configuration script /home/siti/Gate6/geant4.9.4.p04/env.sh On this machine the G4SYSTEM=Linux-g++ On this machine the G4INSTALL=/home/siti/Gate6/geant4.9.4.p04 On this machine the G4INCLUDE=/home/siti/Gate6/geant4.9.4.p04/include/ On this machine the G4LIB=/home/siti/Gate6/geant4.9.4.p04/lib On this machine the G4LEVELGAMMADATA=n/PhotonEvaporation2.1 On this machine the G4RADIOACTIVEDATA=n/RadioactiveDecay3.3 On this machine the G4LEDATA=n/G4EMLOW6.19 On this machine the G4NEUTRONHPDATA=n/G4NDL3.14 On this machine the G4ABLADATA=n/G4ABLA3.0 On this machine the G4REALSURFACEDATA=n/RealSurface1.0 On this machine the G4NEUTRONXSDATA=n/G4NEUTRONXS1.0 On this machine the G4PIIDATA=n/G4PII1.2 On this machine the CLHEP_BASE_DIR=/home/siti/Gate6/<a href="http://2.1.0.1">2.1.0.1</a> On this machine the CLHEP_INCLUDE_DIR=/home/siti/Gate6/<a href="http://2.1.0.1/include">2.1.0.1/include</a> On this machine the CLHEP_LIB_DIR=/home/siti/Gate6/<a href="http://2.1.0.1/lib">2.1.0.1/lib</a> On this machine the CLHEP_LIB=CLHEP On this machine the G4UI_USE_TCSH=1 On this machine the G4VIS_BUILD_OPENGLX_DRIVER=1 On this machine the G4VIS_USE_OPENGLX=1 On this machine the XMFLAGS= On this machine the XMLIBS= On this machine the XMFLAGS= On this machine the XAWFLAGS= On this machine the XAWLIBS= On this machine the G4LIB_BUILD_SHARED=1 On this machine the G4LIB_USE_GRANULAR=1 Configuring GATE options G4WORKDIR set to . G4TMP set to ./tmp G4BIN set to ./bin Data analysis and output features enabled Ascii data output enabled Transport and generation of optical photons is disabled Checking your LD_LIBRARY_PATH variable... ==> OK: /home/siti/Gate6/root/lib added to your LD_LIBRARY_PATH Use of ROOT enabled ROOT real-time plotter disabled Checking your LD_LIBRARY_PATH variable... ==> OK: /home/siti/Gate6/lmf_3.0/lib added to your LD_LIBRARY_PATH LMF data output enabled ECAT7 data output enabled GATEHOME is set to /home/siti/Gate6/gate_v6.1 Checking your path variable... ==> OK: /home/siti/Gate6/gate_v6.1/bin/Linux-g++ is already in your path variable Checking your LD_LIBRARY_PATH variable... ==> OK: /home/siti/Gate6/gate_v6.1/tmp/Linux-g++/Gate is already in your path variable G4VERSION9_3 is set: GATE is compatible with the GEANT4 version 9.3 and 9.4 Done %%%%%%%%%%% Make Making dependency for file Gate.cc ... In file included from ./source/physics/include/GateSourceMgr.hh:20:0, from Gate.cc:21: ./source/physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Entering source/arf ... Making dependency for file src/GateARFTableMgr.cc ... In file included from src/GateARFTableMgr.cc:12:0: ../arf/include/GateARFTable.hh:18:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateARFTable.cc ... In file included from src/GateARFTable.cc:11:0: ../arf/include/GateARFTable.hh:18:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateARFSDMessenger.cc ... In file included from src/GateARFSDMessenger.cc:13:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateARFSD.cc ... In file included from src/GateARFSD.cc:12:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateARFDataToRootMessenger.cc ... In file included from ../arf/include/GateARFDataToRootMessenger.hh:17:0, from src/GateARFDataToRootMessenger.cc:13: ../arf/include/GateARFDataToRoot.hh:18:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateARFDataToRoot.cc ... In file included from src/GateARFDataToRoot.cc:14:0: ../arf/include/GateARFDataToRoot.hh:18:19: fatal error: TROOT.h: No such file or directory compilation terminated. Compiling GateARFDataToRoot.cc ... In file included from src/GateARFDataToRoot.cc:14:0: ../arf/include/GateARFDataToRoot.hh:18:19: fatal error: TROOT.h: No such file or directory compilation terminated. make[1]: *** [../../tmp/Linux-g++/Gate/GateARFDataToRoot.o] Error 1 source/arf finished Entering source/geometry ... Making dependency for file src/GateVVolume.cc ... In file included from src/GateVVolume.cc:46:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateVSystem.cc ... In file included from src/GateVSystem.cc:27:0: ../general/include/GateRootDefs.hh:20:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSPECTHeadSystem.cc ... In file included from src/GateSPECTHeadSystem.cc:19:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateDetectorConstruction.cc ... In file included from src/GateDetectorConstruction.cc:43:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Compiling GateDetectorConstruction.cc ... In file included from src/GateDetectorConstruction.cc:43:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. make[1]: *** [../../tmp/Linux-g++/Gate/GateDetectorConstruction.o] Error 1 source/geometry finished Entering source/general ... Making dependency for file src/GateRootDefs.cc ... In file included from src/GateRootDefs.cc:13:0: ../general/include/GateRootDefs.hh:20:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GatePrimaryGeneratorAction.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GatePrimaryGeneratorAction.cc:28: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateIntImage.cc ... src/GateIntImage.cc:26:19: fatal error: TFile.h: No such file or directory compilation terminated. Making dependency for file src/GateImage.cc ... src/GateImage.cc:26:19: fatal error: TFile.h: No such file or directory compilation terminated. Making dependency for file src/GateApplicationMgr.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateApplicationMgr.cc:24: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Compiling GateApplicationMgr.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateApplicationMgr.cc:24: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. make[1]: *** [../../tmp/Linux-g++/Gate/GateApplicationMgr.o] Error 1 source/general finished Entering source/digits_hits ... Making dependency for file src/GateUserActions.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from src/GateUserActions.cc:16: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateTrajectoryNavigator.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from src/GateTrajectoryNavigator.cc:19: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateTrackLengthActorMessenger.cc ... In file included from src/GateTrackLengthActorMessenger.cc:17:0: ../digits_hits/include/GateTrackLengthActor.hh:29:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateTrackLengthActor.cc ... In file included from src/GateTrackLengthActor.cc:20:0: ../digits_hits/include/GateTrackLengthActor.hh:29:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateTrack.cc ... In file included from src/GateTrack.cc:4:0: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateToRootMessenger.cc ... In file included from ../digits_hits/include/GateToRootMessenger.hh:18:0, from src/GateToRootMessenger.cc:13: ../digits_hits/include/GateToRoot.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateToRoot.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateToRoot.cc:38: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateToASCII.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateToASCII.cc:44: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSteppingActionMessenger.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from src/GateSteppingActionMessenger.cc:13: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSecondaryProductionActor.cc ... In file included from src/GateSecondaryProductionActor.cc:19:0: ../digits_hits/include/GateSecondaryProductionActor.hh:30:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateROOTBasicOutputMessenger.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from ../digits_hits/include/GateROOTBasicOutputMessenger.hh:21, from src/GateROOTBasicOutputMessenger.cc:12: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateROOTBasicOutput.cc ... In file included from src/GateROOTBasicOutput.cc:12:0: ../digits_hits/include/GateROOTBasicOutput.hh:21:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateProjectionSet.cc ... In file included from src/GateProjectionSet.cc:15:0: ../arf/include/GateARFSD.hh:17:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GatePhaseSpaceActorMessenger.cc ... In file included from src/GatePhaseSpaceActorMessenger.cc:24:0: ../digits_hits/include/GatePhaseSpaceActor.hh:21:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GatePhaseSpaceActor.cc ... In file included from src/GatePhaseSpaceActor.cc:23:0: ../digits_hits/include/GatePhaseSpaceActor.hh:21:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateOutputMgr.cc ... In file included from src/GateOutputMgr.cc:27:0: ../digits_hits/include/GateHitFileReader.hh:26:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateHitFileReaderMessenger.cc ... In file included from src/GateHitFileReaderMessenger.cc:15:0: ../digits_hits/include/GateHitFileReader.hh:26:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateHitFileReader.cc ... src/GateHitFileReader.cc:14:21: fatal error: TBranch.h: No such file or directory compilation terminated. Making dependency for file src/GateEnergySpectrumActorMessenger.cc ... In file included from src/GateEnergySpectrumActorMessenger.cc:16:0: ../digits_hits/include/GateEnergySpectrumActor.hh:31:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateEnergySpectrumActor.cc ... In file included from src/GateEnergySpectrumActor.cc:20:0: ../digits_hits/include/GateEnergySpectrumActor.hh:31:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateAnalysis.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateAnalysis.cc:30: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateActions.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from src/GateActions.cc:14: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. Compiling GateActions.cc ... In file included from ../digits_hits/include/GateActions.hh:30:0, from src/GateActions.cc:14: ../digits_hits/include/GateTrack.hh:10:19: fatal error: TROOT.h: No such file or directory compilation terminated. make[1]: *** [../../tmp/Linux-g++/Gate/GateActions.o] Error 1 source/digits_hits finished Entering source/physics ... Making dependency for file src/GateVSourceVoxelReader.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateVSourceVoxelReader.cc:20: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateVSource.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateVSource.cc:24: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceTPSPencilBeamMessenger.cc ... In file included from ../physics/include/GateSourceTPSPencilBeam.hh:27:0, from src/GateSourceTPSPencilBeamMessenger.cc:15: ../physics/include/GateSourcePencilBeam.hh:35:19: fatal error: TMath.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceTPSPencilBeam.cc ... In file included from ../physics/include/GateSourceTPSPencilBeam.hh:27:0, from src/GateSourceTPSPencilBeam.cc:17: ../physics/include/GateSourcePencilBeam.hh:35:19: fatal error: TMath.h: No such file or directory compilation terminated. Making dependency for file src/GateSourcePhaseSpaceMessenger.cc ... In file included from src/GateSourcePhaseSpaceMessenger.cc:15:0: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourcePhaseSpace.cc ... In file included from src/GateSourcePhaseSpace.cc:13:0: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourcePencilBeamMessenger.cc ... In file included from src/GateSourcePencilBeamMessenger.cc:15:0: ../physics/include/GateSourcePencilBeam.hh:35:19: fatal error: TMath.h: No such file or directory compilation terminated. Making dependency for file src/GateSourcePencilBeam.cc ... In file included from src/GateSourcePencilBeam.cc:17:0: ../physics/include/GateSourcePencilBeam.hh:35:19: fatal error: TMath.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceMgrMessenger.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from ../physics/include/GateSourceMgrMessenger.hh:17, from src/GateSourceMgrMessenger.cc:12: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceMgr.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateSourceMgr.cc:19: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceLinacBeamMessenger.cc ... In file included from ../physics/include/GateSourceLinacBeamMessenger.hh:18:0, from src/GateSourceLinacBeamMessenger.cc:12: ../physics/include/GateSourceLinacBeam.hh:21:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateSourceLinacBeam.cc ... In file included from src/GateSourceLinacBeam.cc:11:0: ../physics/include/GateSourceLinacBeam.hh:21:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateRTPhantom.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateRTPhantom.cc:6: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Making dependency for file src/GateFastI124.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateFastI124.cc:14: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. Compiling GateFastI124.cc ... In file included from ../physics/include/GateSourceMgr.hh:20:0, from src/GateFastI124.cc:14: ../physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. make[1]: *** [../../tmp/Linux-g++/Gate/GateFastI124.o] Error 1 source/physics finished Compiling Gate.cc ... In file included from ./source/physics/include/GateSourceMgr.hh:20:0, from Gate.cc:21: ./source/physics/include/GateSourcePhaseSpace.hh:14:19: fatal error: TROOT.h: No such file or directory compilation terminated. make: *** [tmp/Linux-g++/Gate/exe/Gate.o] Error 1