Hello Marko! I recognize your problem, cause I had the same one when I compiled Gate! I dunno if it's the same reason, but here's what I did. My path to the ROOT directory where the library files (ex TROOT.h, TTree.h etc) are was not correct in the file "variables.gmk", located in your Gate_v5.0.0_p01 directory. In my case, the ROOT path is "$ROOTSYS/include/root". If you open variables.gmk, and find the line: CPPFLAGS += -DG4ANALYSIS_USE_ROOT -D_REENTRANT -I$(ROOTSYS)/include you see that the flag to the root library files is not sufficient (at least in my case), it is "$(ROOTSYS)/include". I added "/root" like: CPPFLAGS += -DG4ANALYSIS_USE_ROOT -D_REENTRANT -I$(ROOTSYS)/include/root and recompiled without any problems. As I said, maybe your errors are due to another cause than mine was, but have a look and see if this could be it! Let me know how it works out! Good luck, Ida <div class="gmail_quote">2009/10/12 Marko T. Oreskovic <<a href="mailto:mtoreskovic@yahoo.com">mtoreskovic@yahoo.com</a>> <blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"> <table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td style="font-family: inherit; font-style: inherit; font-variant: inherit; font-weight: inherit; font-size: inherit; line-height: inherit; font-size-adjust: inherit; font-stretch: inherit;" valign="top"> Hi Simon, I have done as you have said and manage to start a compilation process, but with errors. This is now my output from terminal window: mtr@mtr-desktop:/usr/share/gate/gate_v5.0.0_p01$ source env_gate.sh<div> <div></div><div class="h5"> The current value of G4INSTALL is: /usr/share/geant4/geant4.9.2.p01 The current value of G4VERSION is: 9.2 Launching Geant4 configuration script /usr/share/geant4/geant4.9.2.p01/env.sh On this machine the G4SYSTEM=Linux-g++ On this machine the G4INSTALL=/usr/share/geant4/geant4.9.2.p01 On this machine the G4LIB=/usr/share/geant4/geant4.9.2.p01/lib On this machine the G4LEVELGAMMADATA=/usr/share/geant4/geant4.9.2.p01/data/PhotonEvaporation2.0 On this machine the G4RADIOACTIVEDATA=/usr/share/geant4/geant4.9.2.p01/data/RadioactiveDecay3.2 On this machine the G4LEDATA=/usr/share/geant4/geant4.9.2.p01/data/G4EMLOW6.2 On this machine the G4NEUTRONHPDATA=/usr/share/geant4/geant4.9.2.p01/data/G4NDL3.13 On this machine the G4ABLADATA=/usr/share/geant4/geant4.9.2.p01/data/G4ABLA3.0 On this machine the CLHEP_BASE_DIR=/usr/share/CLHEP On this machine the CLHEP_INCLUDE_DIR=/usr/share/CLHEP/include On this machine the CLHEP_LIB_DIR=/usr/share/CLHEP/lib On this machine the CLHEP_LIB=CLHEP On this machine the G4VIS_BUILD_OPENGLX_DRIVER=1 On this machine the G4VIS_BUILD_RAYTRACERX_DRIVER=1 On this machine the G4VIS_USE_OPENGLX=1 On this machine the G4VIS_USE_RAYTRACERX=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_STATIC=1 On this machine the G4LIB_USE_GRANULAR=1 On this machine the G4UI_USE_TCSH=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 enabled </div> </div>/lib directory is no /home/mtr/root you should check that ROOT shared libraries are included in LD_LIBRARY_PATH Use of ROOT enabled<div class="im"> ROOT real-time plotter disabled LMF data output disabled ECAT7 data output disabled GATEHOME is set to /usr/share/gate/gate_v5.0.0_p01 Checking your path variable... ==> OK: /usr/share/gate/gate_v5.0.0_p01/bin/Linux-g++ is already in your path variable G4VERSION9_2 is set: GATE is compatible with the geant4 version 9.2 Done </div>mtr@mtr-desktop:/usr/share/gate/gate_v5.0.0_p01$ make Making dependency for file Gate.cc ... In file included from ./source/mandatory_G4_classes/include/GateSteppingAction.hh:34, from Gate.cc:34: ./source/output/include/GateTrack.hh:10:19: error: TROOT.h: No such file or directory ./source/output/include/GateTrack.hh:11:19: error: TTree.h: No such file or directory In file included from Gate.cc:53: . . .etc... I'm getting a lot of these TROOT.h, TTree.h errors. Is this a problem with root LD_LIBRARY_PATH ? Here is how I configure my enviormental variables: export ROOTSYS=/home/mtr/root export PATH=$ROOTSYS/bin:$PATH export LD_LIBRARY_PATH=/home/mtr/root/lib:$LD_LIBRARY_PATH ROOT is installed in /home/mtr/root directory, and there is a lib directory in there. This is my LD_LIBRARY_PATH after export: mtr@mtr-desktop:/usr/share/gate/gate_v5.0.0_p01$ printenv LD_LIBRARY_PATH /home/mtr/root/lib:/usr/share/CLHEP/lib/: regards Marko --- On Mon, 10/12/09, Simon Stute <<a href="mailto:gate.stute@gmail.com" target="_blank">gate.stute@gmail.com</a>> wrote: <blockquote style="border-left: 2px solid rgb(16, 16, 255); margin-left: 5px; padding-left: 5px;"> From: Simon Stute <<a href="mailto:gate.stute@gmail.com" target="_blank">gate.stute@gmail.com</a>> Subject: Re: [Gate-users] gate5 compilation on Ubuntu problem To: "Marko T. Oreskovic" <<a href="mailto:mtoreskovic@yahoo.com" target="_blank">mtoreskovic@yahoo.com</a>> Cc: <a href="mailto:gate-users@lists.healthgrid.org" target="_blank">gate-users@lists.healthgrid.org</a> Date: Monday, October 12, 2009, 10:49 AM<div><div></div><div class="h5"> <div>Hi, When you launch a command as sudo, your personnal environment is not transmitted. So give all rights to blk-desktop in your gate directory, then launch the compilation as 'you' (without sudo), and once the compilation is successful you can give back all rights to root. Cheers, Simon <div class="gmail_quote">On Fri, Oct 9, 2009 at 5:54 PM, Marko T. Oreskovic <<a rel="nofollow" href="http://mc/compose?to=mtoreskovic@yahoo.com" target="_blank">mtoreskovic@yahoo.com</a>> wrote: <blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;"> <table border="0" cellpadding="0" cellspacing="0"><tbody><tr><td style="font-family: inherit; font-style: inherit; font-variant: inherit; font-weight: inherit; font-size: inherit; line-height: inherit; font-size-adjust: inherit; font-stretch: inherit;" valign="top"> Hi all, I'm new to linux and having problems compiling gate5 on Ubuntu 9.04, here is my listing: blk@blk-desktop:/usr/share/gate/gate_v5.0.0_p01$ ls benchmarks env_gate.sh GateMaterials.db Materials.xml README Surfaces.xml Cluster_Tools examples GNUmakefile noverbose.mac ReleaseNotes.pdf variables.gmk env_gate.csh Gate.cc license prerunGate.mac source blk@blk-desktop:/usr/share/gate/gate_v5.0.0_p01$ source env_gate.sh The current value of G4INSTALL is: /usr/share/geant4/geant4.9.2.p01 The current value of G4VERSION is: 9.2 Launching Geant4 configuration script /usr/share/geant4/geant4.9.2.p01/env.sh On this machine the G4SYSTEM=Linux-g++ On this machine the G4INSTALL=/usr/share/geant4/geant4.9.2.p01 On this machine the G4LIB=/usr/share/geant4/geant4.9.2.p01/lib On this machine the G4LEVELGAMMADATA=/usr/share/geant4/geant4.9.2.p01/data/PhotonEvaporation2.0 On this machine the G4RADIOACTIVEDATA=/usr/share/geant4/geant4.9.2.p01/data/RadioactiveDecay3.2 On this machine the G4LEDATA=/usr/share/geant4/geant4.9.2.p01/data/G4EMLOW6.2 On this machine the G4NEUTRONHPDATA=/usr/share/geant4/geant4.9.2.p01/data/G4NDL3.13 On this machine the G4ABLADATA=/usr/share/geant4/geant4.9.2.p01/data/G4ABLA3.0 On this machine the CLHEP_BASE_DIR=/usr/share/CLHEP On this machine the CLHEP_INCLUDE_DIR=/usr/share/CLHEP/include On this machine the CLHEP_LIB_DIR=/usr/share/CLHEP/lib On this machine the CLHEP_LIB=CLHEP On this machine the G4VIS_BUILD_OPENGLX_DRIVER=1 On this machine the G4VIS_BUILD_RAYTRACERX_DRIVER=1 On this machine the G4VIS_USE_OPENGLX=1 On this machine the G4VIS_USE_RAYTRACERX=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_STATIC=1 On this machine the G4LIB_USE_GRANULAR=1 On this machine the G4UI_USE_TCSH=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 enabled Use of ROOT disabled ROOT real-time plotter disabled LMF data output disabled ECAT7 data output disabled GATEHOME is set to /usr/share/gate/gate_v5.0.0_p01 Checking your path variable... ==> OK: /usr/share/gate/gate_v5.0.0_p01/bin/Linux-g++ is already in your path variable G4VERSION9_2 is set: GATE is compatible with the geant4 version 9.2 Done blk@blk-desktop:/usr/share/gate/gate_v5.0.0_p01$ blk@blk-desktop:/usr/share/gate/gate_v5.0.0_p01$ sudo make GNUmakefile:20: /variables.gmk: No such file or directory GNUmakefile:22: /config/binmake.gmk: No such file or directory make: *** No rule to make target `/config/binmake.gmk'. Stop. I have tried using just make, without sudo, but then I'm getting no permission errors. I have seen this problem posted before but no answers. Only one answer was about setting a date two years back, but that did not help. Any hints ?</td></tr></tbody></table> _______________________________________________ Gate-users mailing list <a rel="nofollow" href="http://mc/compose?to=Gate-users@lists.healthgrid.org" target="_blank">Gate-users@lists.healthgrid.org</a> <a rel="nofollow" href="http://lists.healthgrid.org/mailman/listinfo/gate-users" target="_blank">http://lists.healthgrid.org/mailman/listinfo/gate-users</a> </blockquote></div> </div></div></div></blockquote></td></tr></tbody></table> _______________________________________________ Gate-users mailing list <a href="mailto:Gate-users@lists.healthgrid.org">Gate-users@lists.healthgrid.org</a> <a href="http://lists.healthgrid.org/mailman/listinfo/gate-users" target="_blank">http://lists.healthgrid.org/mailman/listinfo/gate-users</a> </blockquote></div>