<html> <head> </head> <body class='hmmessage'><div dir='ltr'> <style></style> <div dir="ltr"> Hi everyone, I haope you all in great health and happiness. The IT people in my uni have installed the GATE for me. It is GATE 6.2.0 and this is a list of required dependencies: geant4 9.5 p02 root/5.34.10 gcc/4.81 gcc/4.7.3 I did strat using GATE two days ago; however, I have got an error by the first step, when I just inserted my first command /vis/open OGLSX . Yesterday, I realised that there are some differences between the versions I have for the required dependencies and that in GATE website, as I listed before. I have attached the error file, module display and module avail for you to see. I am seeking for your help and advice to fix this problem. Thank you and your support is highly appreciated. Regards, Mohammed ------------------------------the error----------------------------------------------- [msma7@spectre02 ~]$ module load gate/6.2.0 [msma7@spectre02 ~]$ Gate [G4] [G4] ************************************************************* [G4] Geant4 version Name: geant4-09-05-patch-02 (22-October-2012) [G4] Copyright : Geant4 Collaboration [G4] Reference : NIM A 506 (2003), 250-303 [G4] WWW : http://cern.ch/geant4 [G4] ************************************************************* [G4] [Core-0] Initialization of geometry [Core-0] Initialization of physics [Core-0] Initialization of actors [Core-0] [Core-0] ********************************************************************** [Core-0] GATE version name: gate_v6.2 [Core-0] Copyright : OpenGATE Collaboration [Core-0] Reference : Phys. Med. Biol. 49 (2004) 4543-4561 [Core-0] Reference : Phys. Med. Biol. 56 (2011) 881-901 [Core-0] WWW : http://www.opengatecollaboration.org [Core-0] ********************************************************************** [Core-0] [Core-0] You are using a 9.5 version of Geant4 Idle> #VISUALIZATION #VISUALIZATION Idle> /vis/open OGLSX libGL error: failed to load driver: swrast libGL error: Try again with LIBGL_DEBUG=verbose for more details. Idle> -------------------------------module display--------------------------------------------- [msma7@spectre02 ~]$ module display gate/6.2.0 ------------------------------------------------------------------- /cm/shared/modulefiles/gate/6.2.0: module-whatis Loads the GATE 6.2.0 software environment prepend-path LD_LIBRARY_PATH /cm/shared/apps/gcc/4.8.1/lib64 prepend-path LD_LIBRARY_PATH /cm/shared/apps/gate/deps/clhep/lib setenv ROOTSYS /cm/shared/apps/gate/deps/root prepend-path PATH /cm/shared/apps/gate/deps/root/bin prepend-path MANPATH /cm/shared/apps/gate/deps/root/man prepend-path PYTHONPATH /cm/shared/apps/gate/deps/root/lib prepend-path LD_LIBRARY_PATH /cm/shared/apps/gate/deps/root/lib setenv G4NEUTRONHPDATA /cm/shared/apps/gate/data/G4NDL4.4 setenv G4LEDATA /cm/shared/apps/gate/data/G4EMLOW6.35 setenv G4LEVELGAMMADATA /cm/shared/apps/gate/data/PhotonEvaporation3.0 setenv G4RADIOACTIVEDATA /cm/shared/apps/gate/data/RadioactiveDecay4.0 setenv G4NEUTRONXSDATA /cm/shared/apps/gate/data/G4NEUTRONXS1.4 setenv G4PIIDATA /cm/shared/apps/gate/data/G4PII1.3 setenv G4REALSURFACEDATA /cm/shared/apps/gate/data/RealSurface1.0 setenv G4SAIDXSDATA /cm/shared/apps/gate/data/G4SAIDDATA1.1 setenv G4ABLADATA /cm/shared/apps/gate/data/G4ABLA3.0 prepend-path LD_LIBRARY_PATH /cm/shared/apps/gate/deps/geant/lib64 prepend-path PATH /cm/shared/apps/gate/6.2.0/bin ------------------------------------------------------------------- --------------------------------module avail------------------------------------------------ [msma7@spectre02 ~]$ module avail ---------------------------- /cm/local/modulefiles ----------------------------- cluster-tools/6.1 openldap cmd openmpi/gcc/64/1.4.3-mlnx-ofed dot shared freeipmi/1.2.6 torque/4.1.6 ipmitool/1.8.12 torque/4.2.4(default) module-git torque/4.2.6.1 module-info use.own mvapich/gcc/64/1.2.0-mlnx-ofed version null ---------------------------- /cm/shared/modulefiles ---------------------------- abinit/7.2.2 intel/impi/4.1.0 abinit/7.2.2par intel/impi/4.1.1 abinit/7.6.2 intel/impi/4.1.3 abyss/1.3.6 intel/license abyss/1.3.7 intel/mkl/10.3.11 amber/12 intel/mkl/11.0.0 amos/3.1.0 intel/tac/8.0.3 apt/21.2.2 intel/tac/8.1.4 apt/21.2.3 intel/tbb/4.0.5 apt/21.4.1 intel/tbb/4.1.1 apt/21.4.2 iozone/3_414 apt/22.0 iraf/2.16 apt/22.0.2 isis/1.6.2-27 arb/5.1-6213 java/1.7.0_25 avid/2.1 lapack/gcc/3.4.2 bcrypt/1.1 lapack/intel/3.4.2 beast/1.8.0 llvm/3.4 beat/6.7.0 lua/5.2 bedtools/2.17.0 makedepf90/2.8.8 bioperl/1.6.1 mam/7.2.3 biopython/1.63 maple/17 blas/gcc/1 matlab/2013a blas/intel/1 maven/3.1.0 blast+/2.2.28 mira/3.4.1.1 blat/3.5 mira/3.9.18 bonnie++/1.97.1 moab/6.0.0 boost/gcc/1.49.0 moab/7.2.4 boost/gcc/1.53.0 moab/7.2.5(default) boost/gcc/1.55.0 mothur/1.32.1 boost/intel/1.53.0 mpiexec/0.84_432 boost/intel/1.55.0 mrcanavar/0.41 bwa/0.7.5a mrfast/2.6.0 cdo/1.6.1 mrsfast-ultra/3.2.0 cfitsio/3.360 mummer/3.23 cfitsio/gcc/3.350 mysql/5.6.15 cfitsio/intel/3.350 nag/cll6a09dhl CGAL/4.3 nag/cll6a23dhl ciao/ciao-4.6 nag/fdl6i03dcl circos/0.64 nag/fll6a22dfl cmake/2.8.10.2 nag/fll6a23dfl cmgui/6.1 nag/fll6i22dcl cns/1.3 nag/fll6i23dcl coda/2.2 nag/fnl6i04dcl coda/2.5 nag/fsl6i22dcl conifer/0.2.2 nag/gpulib cuda55/blas/5.5.22 nag/npl6a52n cuda55/fft/5.5.22 nag/npl6a53n cuda55/profiler/5.5.22 nasa-baselibs/2.2.0 cuda55/tdk/5.319.43 nco/4.3.0 cuda55/toolkit/5.5.22 ncview/2.1.2 cufflinks/2.1.1 netcdf/gcc/4.2.1.1 cutadapt/1.2.1 netcdf/gcc/all dart/5.4.5-20130620 netcdf/gcc/c/4.3.0 default-environment netcdf/gcc/cxx/4.2.1 ds9/7.2 netcdf/gcc/fortran/4.2 eigen/5097c01bcdc4 netcdf/intel/4.2.1.1 emboss/6.6.0 netperf/2.6.0 envi/4.7 njplot/2.3 exonerate/2.2.0a openblas/bulldozer/0.2.6 fasta/3.6 openblas/dynamic/0.2.6 fastqc/0.10.1 openblas/istanbul/0.2.6 fastx-toolkit/0.0.13 openblas/nehalem/0.2.6 fcgene/1.0.7 openblas/sandybridge/0.2.6 fcm/2014-02 openfoam/2.2.2 fermi/9.31.1 openmpi/gcc/1.6.5 fermi/9.32.5 paraview/4.1.0 ferret/6.84 partek/6.13.0516 ffmpeg/1.2.3 pgplot/5.2.2 fftw2/gcc/2.1.5 phase/2.1.1 fftw2/intel/2.1.5 picard/1.93 fftw2/openmpi/gcc/64/double/2.1.5 plato/1.2.6 fftw2/openmpi/gcc/64/float/2.1.5 plink/1.07 fftw3/openmpi/gcc/64/3.3.3 plinkseq/0.08 finchtv/1.3.1 prokka/1.7 fl/0.79a python/2.4.6 fluent/13.0 python/2.7.3 freebayes/9.9.2-43 python/3.2.3 g95/0.93 qctool/1.1 gamma/20130717 qctool/1.3 gamma/20130902 qdoas/2.0 gate/6.2.0 qdoas/2.103 gatk/2.6-5 qiime/1.7.0 gatk/2.7-2 qt/4.8.4 gauss/gauss11 qt/4.8.5 gauss/gauss12 qwt/6.0.0 gauss/gauss12.1 R/3.0.1 gauss/gauss12-test R/3.0.2 gauss/gaussruntime11 raremetalworker/0.3.4 gauss/gaussruntime12 ray/2.3.1 gauss/gaussruntime12.1 reflex/2.4 gaussian/g03e01 reflex/2.5 gcc/4.7.3 root/5.34.10 gcc/4.8.1 rsem/1.2.9 gdal/1.10.1 ruby/2.0.0 gdl/0.9.3 samtools/0.1.19 gdl/0.9.4 sas/9.3 genemark shapeit/1.416 ghc/7.6.3 shapeit/2.644 glimmer/3.02 snptest/2.4.1 grace/5.1.23 snptest/2.5.b4 gromacs/4.6.2 soapdenovo/2.04 gs454/2.6 solar/7.2.5 gsl/1.16 spex/2.03 gtool/0.7.5 stacks/1.06 hdf4/gcc/4.2.9 staden/2.0.0b9 hdf4/intel/4.2.9 stampy/1.0.22 hdf5/1.6.10 stampy/1.0.23 hdf5/gcc/1.8.11 starlink/2013-04-16 hdf5/intel/1.8.11 stata/11/mp8 heasoft/6.14 stata/12/mp8 heasoft/6.15 stsci_python/2.14 heasoft/6.15.1 subversion/1.8.3 hpl/2.1 supermongo/2.4.38 hwloc/1.7 szip/gcc/2.1 hydra/3.0.1(default) szip/intel/2.1 idl/idl70 tabix/0.2.6 idl/idl80 tablet/1.13.07.31 idl/idl82 topcat/4.0-1 idlastro/20131029 topcat/4.1-0 idlastro/20131105 tophat/2.1.0 idlastro/20140114 transabyss/1.4.8 idlastro/20140403 trans-abyss/1.3.7 igv/2.0.15 trinityRNA/20131110 igv/2.3.18 ureka/1 impute2/2.3.0 vcflib/20140203 intel/compilers/12.1.0 vcftools/0.1.11 intel/compilers/12.1.5 velvet/1.2.10 intel/compilers/13.0.0 vista/1.4.26 intel/compilers/13.1.1 wcstools/3.8.7 intel/compilers/13.1.3 xds/20130330 intel/compilers/14.0.1 xmmsas/13.0.1 intel/compilers/14.0.2 xmmsas/13.5.0 intel/impi/4.0.3 [msma7@spectre02 ~]$ </div> </div></body> </html>