| 1 | #ISSM_DIR and ISSM_ARCH should have been defined already in your shell settings file (.bashrc, .cshrc, etc ...)
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| 2 |
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| 3 | #FIXME: during installation packages are installed one by one but environment.sh was sourced
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| 4 | #before so new packages are NOT in the path.
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| 5 | #may resource environment.sh with:
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| 6 | #if [ -z $(echo "$PATH" | grep "$MATLAB_DIR") ]; then export $PATH...; fi
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| 7 |
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| 8 | #Windows compilers:
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| 9 | if [[ "$ISSM_ARCH" == "cygwin-intel" ]]; then
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| 10 | source $ISSM_DIR/externalpackages/windows/windows_environment.sh
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| 11 | fi
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| 12 |
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| 13 | #Some basic path, in case it is not included by default
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| 14 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:/usr/local/lib"
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| 15 | export LD_RUN_PATH="$LD_RUN_PATH:/usr/local/lib"
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| 16 |
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| 17 | #Load ISSM scripts
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| 18 | export PATH="$PATH:$ISSM_DIR/scripts"
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| 19 |
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| 20 | #MATLAB
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| 21 | MATLAB_DIR="$ISSM_DIR/externalpackages/matlab/install"
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| 22 | #if [ -d "$MATLAB_DIR" ]; then
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| 23 | export MATLAB_DIR
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| 24 | export PATH="$MATLAB_DIR/bin:$PATH" #take precedence over /usr/local/bin/matlab
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| 25 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$MATLAB_DIR/lib"
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| 26 | export LD_RUN_PATH="$LD_RUN_PATH:$MATLAB_DIR/lib"
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| 27 | #fi
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| 28 |
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| 29 | #MPI
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| 30 | MPI_DIR="$ISSM_DIR/externalpackages/mpich2/install"
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| 31 | #if [ -d "$MPI_DIR" ]; then
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| 32 | export MPI_DIR
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| 33 | export PATH="$MPI_DIR/bin:$PATH"
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| 34 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$MPI_DIR/lib"
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| 35 | export LD_RUN_PATH="$LD_RUN_PATH:$MPI_DIR/lib"
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| 36 | export MANPATH="$MANPATH:$MPI_DIR/man"
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| 37 | #fi
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| 38 |
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| 39 | #PETSC
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| 40 | PETSC_DIR="$ISSM_DIR/externalpackages/petsc/install"
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| 41 | #if [ -d "$PETSC_DIR" ]; then
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| 42 | export PETSC_DIR
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| 43 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$PETSC_DIR/lib:$PETSC_DIR/lib"
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| 44 | export LD_RUN_PATH="$LD_RUN_PATH:$PETSC_DIR/lib"
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| 45 | #fi
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| 46 |
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| 47 | #SLEPC
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| 48 | SLEPC_DIR="$ISSM_DIR/externalpackages/slepc/install"
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| 49 | if [ -d "$SLEPC_DIR" ]; then
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| 50 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$SLEPC_DIR/lib/$ISSM_ARCH"
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| 51 | export LD_RUN_PATH="$LD_RUN_PATH:$SLEPC_DIR/lib/$ISSM_ARCH"
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| 52 | fi
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| 53 |
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| 54 | #PETSC
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| 55 | TAO_DIR="$ISSM_DIR/externalpackages/tao/install"
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| 56 | if [ -d "$TAO_DIR" ]; then
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| 57 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$TAO_DIR/lib:$TAO_DIR/lib"
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| 58 | export LD_RUN_PATH="$LD_RUN_PATH:$TAO_DIR/lib"
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| 59 | fi
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| 60 |
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| 61 | #Dakota
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| 62 | DAKOTA_DIR="$ISSM_DIR/externalpackages/dakota/install"
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| 63 | if [ -d "$DAKOTA_DIR" ]; then
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| 64 | export PATH="$PATH:$DAKOTA_DIR/bin"
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| 65 | export MANPATH="$MANPATH:$MPI_DIR/man:$DAKOTA_DIR/docs/man:$DAKOTA_DIR/docs/man-ref"
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| 66 | fi
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| 67 |
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| 68 | #Doxygen
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| 69 | DOXYGEN_DIR="$ISSM_DIR/externalpackages/doxygen/install"
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| 70 | if [ -d "$DOXYGEN_DIR" ]; then
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| 71 | export MANPATH="$MANPATH:$DOXYGEN_DIR/man"
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| 72 | export PATH="$PATH:$DOXYGEN_DIR/bin"
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| 73 | fi
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| 74 |
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| 75 | #AUTOCONF
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| 76 | AUTOCONF_DIR="$ISSM_DIR/externalpackages/autoconf/install"
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| 77 | #if [ -d "$AUTOCONF_DIR" ]; then
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| 78 | export PATH="$AUTOCONF_DIR/bin:$PATH"
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| 79 | #fi
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| 80 |
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| 81 | #AUTOMAKE
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| 82 | AUTOMAKE_DIR="$ISSM_DIR/externalpackages/automake/install"
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| 83 | #if [ -d "$AUTOMAKE_DIR" ]; then
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| 84 | export PATH="$AUTOMAKE_DIR/bin:$PATH"
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| 85 | #fi
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| 86 |
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| 87 | #LIBTOOL
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| 88 | LIBTOOL_DIR="$ISSM_DIR/externalpackages/libtool/install"
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| 89 | #if [ -d "$LIBTOOL_DIR" ]; then
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| 90 | export PATH="$LIBTOOL_DIR/bin:$PATH"
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| 91 | #fi
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| 92 |
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| 93 | #SDK
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| 94 | SDK_DIR="C:/MicrosoftVisualStudio 9.0/Microsoft Visual C++ 2008 Express Edition with SP1 - ENU"
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| 95 | if [ -d "$SDK_DIR" ]; then
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| 96 | export PATH="$PATH:$SDK_DIR"
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| 97 | fi
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| 98 |
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| 99 | #SSH
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| 100 | SSH_DIR="$ISSM_DIR/externalpackages/ssh"
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| 101 | if [ -d "$SSH_DIR" ]; then
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| 102 | export PATH="$PATH:$SSH_DIR"
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| 103 | fi
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| 104 |
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| 105 | #VALGRIND
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| 106 | VALGRIND_DIR="$ISSM_DIR/externalpackages/valgrind/install"
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| 107 | if [ -d "$VALGRIND_DIR" ]; then
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| 108 | export PATH="$VALGRIND_DIR/bin:$PATH"
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| 109 | fi
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| 110 |
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| 111 | #CPPCHECK
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| 112 | CPPCHECK_DIR="$ISSM_DIR/externalpackages/cppcheck/install"
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| 113 | if [ -d "$CPPCHECK_DIR" ]; then
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| 114 | export PATH="$PATH:$CPPCHECK_DIR/bin"
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| 115 | fi
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| 116 |
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| 117 | #GDAL
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| 118 | GDAL_DIR="$ISSM_DIR/externalpackages/gdal/install"
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| 119 | if [ -d "$GDAL_DIR" ]; then
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| 120 | export PATH="$GDAL_DIR/bin:$PATH"
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| 121 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$GDAL_DIR/lib"
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| 122 | fi
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| 123 |
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| 124 | #MERCURIAL
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| 125 | MERCURIAL_DIR="$ISSM_DIR/externalpackages/mercurial/install"
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| 126 | if [ -d "$MERCURIAL_DIR" ]; then
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| 127 | export PYTHONPATH="$PYTHONPATH:$MERCURIAL_DIR/mercurial/pure/"
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| 128 | export PATH="$PATH:$MERCURIAL_DIR/"
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| 129 | fi
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| 130 |
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| 131 | #BOOST
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| 132 | BOOST_DIR="$ISSM_DIR/externalpackages/boost/install"
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| 133 | BOOSTROOT="$ISSM_DIR/externalpackages/boost/install"
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| 134 | if [ -d "$BOOST_DIR" ]; then
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| 135 | export BOOSTROOT
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| 136 | export BOOST_DIR
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| 137 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$BOOST_DIR/lib"
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| 138 | export DYLD_LIBRARY_PATH="$DYLD_LIBRARY_PATH:$BOOST_DIR/lib"
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| 139 | export PATH="$PATH:$BOOST_DIR/bin"
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| 140 | fi
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| 141 |
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| 142 | #XERCES
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| 143 | XERCESROOT="$ISSM_DIR/externalpackages/xerces/install"
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| 144 | XERCESCROOT="$ISSM_DIR/externalpackages/xerces/src"
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| 145 | if [ -d "$XERCESROOT" ]; then
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| 146 | export XERCESROOT
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| 147 | export XERCESCROOT
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| 148 | fi
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| 149 |
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| 150 | #xaifBooster
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| 151 | XAIF_DIR="$ISSM_DIR/externalpackages/xaifbooster/xaifBooster"
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| 152 | XAIFBOOSTERROOT="$ISSM_DIR/externalpackages/xaifbooster/"
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| 153 | XAIFBOOSTER_HOME="$ISSM_DIR/externalpackages/xaifbooster/xaifBooster"
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| 154 | PLATFORM="x86-Linux"
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| 155 | if [ -d "$XAIF_DIR" ]; then
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| 156 | export XAIFBOOSTERROOT
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| 157 | export XAIFBOOSTER_HOME
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| 158 | export XAIF_DIR
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| 159 | export PLATFORM
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| 160 | fi
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| 161 |
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| 162 | #angel
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| 163 | ANGELROOT="$ISSM_DIR/externalpackages/angel/angel"
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| 164 | if [ -d "$ANGELROOT" ]; then
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| 165 | export ANGELROOT
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| 166 | fi
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| 167 |
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| 168 | #openanalysis
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| 169 | OPENANALYSISROOT="$ISSM_DIR/externalpackages/openanalysis/install"
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| 170 | if [ -d "$OPENANALYSISROOT" ]; then
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| 171 | export OPENANALYSISROOT
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| 172 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$OPENANALYSISROOT/lib"
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| 173 | fi
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| 174 |
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| 175 | #JAVA
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| 176 | JVM_DIR="/usr/local/gcc/4.3.2/lib64/gcj-4.3.2-9/"
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| 177 | if [ -d "$JVM_DIR" ]; then
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| 178 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$JVM_DIR"
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| 179 | fi
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| 180 |
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| 181 | #BBFTP
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| 182 | BBFTP_DIR="$ISSM_DIR/externalpackages/bbftp/install"
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| 183 | if [ -d "$BBFTP_DIR" ]; then
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| 184 | export PATH="$PATH:$BBFTP_DIR/bin"
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| 185 | fi
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| 186 |
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| 187 | #ADIC
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| 188 | ADIC_DIR="$ISSM_DIR/externalpackages/adic/install"
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| 189 | if [ -d "$ADIC_DIR" ]; then
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| 190 | export PATH="$PATH:$ADIC_DIR/bin"
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| 191 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$ADIC_DIR/lib"
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| 192 | export LD_RUN_PATH="$LD_RUN_PATH:$ADIC_DIR/lib"
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| 193 | fi
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| 194 |
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| 195 | #COLPACK
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| 196 | COLPACK_DIR="$ISSM_DIR/externalpackages/colpack/install"
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| 197 | if [ -d "$COLPACK_DIR" ]; then
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| 198 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$COLPACK_DIR/lib"
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| 199 | export LD_RUN_PATH="$LD_RUN_PATH:$COLPACK_DIR/lib"
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| 200 | fi
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| 201 |
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| 202 | #ECLIPSE
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| 203 | ECLIPSE_DIR="$ISSM_DIR/externalpackages/eclipse/install"
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| 204 | if [ -d "$ECLIPSE_DIR" ]; then
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| 205 | export PATH="$PATH:$ECLIPSE_DIR"
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| 206 | fi
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| 207 |
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| 208 | #APPSCAN
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| 209 | APPSCAN_DIR="$ISSM_DIR/externalpackages/appscan/install"
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| 210 | if [ -d "$APPSCAN_DIR" ]; then
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| 211 | export PATH="$PATH:$APPSCAN_DIR/bin"
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| 212 | fi
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| 213 |
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| 214 | #RATS
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| 215 | RATS_DIR="$ISSM_DIR/externalpackages/rats/install"
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| 216 | if [ -d "$RATS_DIR" ]; then
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| 217 | export PATH="$PATH:$RATS_DIR/bin"
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| 218 | fi
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| 219 |
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| 220 | #DYSON
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| 221 | DYSON_DIR="$ISSM_DIR/externalpackages/dyson/"
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| 222 | if [ -d "$DYSON_DIR" ]; then
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| 223 | export PATH="$PATH:$DYSON_DIR"
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| 224 | fi
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| 225 |
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| 226 | #CMAKE
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| 227 | CMAKE_DIR="$ISSM_DIR/externalpackages/cmake/install"
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| 228 | if [ -d "$CMAKE_DIR" ]; then
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| 229 | export PATH="$PATH:$CMAKE_DIR/bin"
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| 230 | fi
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| 231 |
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| 232 | #SHAPELIB
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| 233 | SHAPELIB_DIR="$ISSM_DIR/externalpackages/shapelib/install"
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| 234 | if [ -d "$SHAPELIB_DIR" ]; then
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| 235 | export PATH="$PATH:$SHAPELIB_DIR/exec"
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| 236 | fi
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| 237 |
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| 238 | #CCCL
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| 239 | CCCL_DIR="$ISSM_DIR/externalpackages/cccl/install"
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| 240 | if [ -d "$CCCL_DIR" ]; then
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| 241 | export PATH="$PATH:$CCCL_DIR/bin"
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| 242 | fi
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| 243 |
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| 244 | #PACKAGEMAKER
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| 245 | PACKAGEMAKER_DIR="$ISSM_DIR/externalpackages/packagemaker/install"
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| 246 | if [ -d "$PACKAGEMAKER_DIR" ]; then
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| 247 | export PATH="$PATH:$PACKAGEMAKER_DIR"
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| 248 | fi
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| 249 |
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| 250 | #ANDROID_NDK:
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| 251 | ANDROID_NDK_DIR="$ISSM_DIR/externalpackages/android-ndk/install"
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| 252 | if [ -d "$ANDROID_NDK_DIR" ]; then
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| 253 | export PATH="$PATH:$ANDROID_NDK_DIR/"
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| 254 | fi
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| 255 |
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| 256 | #ANDROID_SDK
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| 257 | ANDROID_SDK_DIR="$ANDROID_DIR/android-sdk/install-sdk"
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| 258 | if [ -d "$ANDROID_SDK_DIR" ]; then
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| 259 | export PATH="$PATH:$ANDROID_SDK_DIR/"
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| 260 | fi
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| 261 |
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| 262 | #GSL
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| 263 | GSL_DIR="$ISSM_DIR/externalpackages/gsl/install"
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| 264 | if [ -d "$GSL_DIR" ]; then
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| 265 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$GSL_DIR/lib"
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| 266 | export LD_RUN_PATH="$LD_RUN_PATH:$GSL_DIR/lib"
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| 267 | fi
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| 268 |
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| 269 | #GMAKE
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| 270 | GMAKE_DIR="$ISSM_DIR/externalpackages/gmake/install"
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| 271 | if [ -d "$GMAKE_DIR" ]; then
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| 272 | export PATH="$GMAKE_DIR/bin:$PATH"
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| 273 | fi
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| 274 |
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| 275 | #PYTHON
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| 276 | PYTHON_DIR="$ISSM_DIR/externalpackages/python/install"
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| 277 | if [ -d "$PYTHON_DIR" ]; then
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| 278 | PYTHONSTARTUP="$ISSM_DIR/startup.py"
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| 279 | export PATH="$PYTHON_DIR/bin:$PATH"
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| 280 | export PYTHONPATH="$PYTHONPATH:$ISSM_DIR/src/modules/python"
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| 281 | export LD_LIBRARY_PATH=$ISSM_DIR/src/modules/python:$ISSM_DIR/externalpackages/python/install/lib:$LD_LIBRARY_PATH
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| 282 | export PYTHONSTARTUP="$ISSM_DIR/startup.py"
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| 283 | fi
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| 284 |
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| 285 | #MODELE
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| 286 | MODELE_DIR="$ISSM_DIR/externalpackages/modelE/install"
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| 287 | if [ -d "$MODELE_DIR" ]; then
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| 288 | export PATH="$MODELE_DIR/src/exec:$PATH"
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| 289 | fi
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| 290 |
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| 291 | #GIT
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| 292 | GIT_DIR="$ISSM_DIR/externalpackages/git/install"
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| 293 | if [ -d "$GIT_DIR" ]; then
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| 294 | export PATH="$PATH:$GIT_DIR/bin"
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| 295 | fi
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| 296 |
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| 297 | #NCVIEW
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| 298 | NCVIEW_DIR="$ISSM_DIR/externalpackages/ncview/install"
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| 299 | if [ -d "$NCVIEW_DIR" ]; then
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| 300 | export PATH="$PATH:$NCVIEW_DIR"
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| 301 | fi
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| 302 |
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| 303 | #TCLX
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| 304 | TCLX_DIR="$ISSM_DIR/externalpackages/tclx/install/lib/tclx8.4"
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| 305 | if [ -d "$TCLX_DIR" ]; then
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| 306 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$TCLX_DIR"
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| 307 | export LD_RUN_PATH="$LD_RUN_PATH:$TCLX_DIR"
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| 308 | fi
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| 309 |
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| 310 | #ASPELL
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| 311 | ASPELL_DIR="$ISSM_DIR/externalpackages/aspell/install"
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| 312 | if [ -d "$ASPELL_DIR" ]; then
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| 313 | export PATH="$ASPELL_DIR/bin:$PATH"
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| 314 | fi
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| 315 |
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| 316 | #ESMF
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| 317 | ESMF_DIR="$ISSM_DIR/externalpackages/esmf/esmf"
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| 318 | if [ -d "$ESMF_DIR" ]; then
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| 319 | export ESMF_COMPILER=gfortran
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| 320 | export ESMF_COMM=mpich2
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| 321 | fi
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| 322 |
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| 323 | #HDF5
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| 324 | HDF5_DIR="$ISSM_DIR/externalpackages/hdf5/install"
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| 325 | if [ -d "$HDF5_DIR" ]; then
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| 326 | export DYLD_LIBRARY_PATH="$DYLD_LIBRARY_PATH:$HDF5_DIR/lib"
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| 327 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$HDF5_DIR/lib"
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| 328 | export LIBRARY_PATH="$LIBRARY_PATH:$HDF5_DIR/lib"
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| 329 | export C_INCLUDE_PATH="$C_INCLUDE_PATH:$HDF5_DIR/include"
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| 330 | fi
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| 331 |
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| 332 | #SVN
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| 333 | SVN_DIR="$ISSM_DIR/externalpackages/svn/install"
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| 334 | if [ -d "$SVN_DIR" ]; then
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| 335 | export PATH="$SVN_DIR/bin:$PATH"
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| 336 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$SVN_DIR/lib"
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| 337 | export LIBRARY_PATH="$LIBRARY_PATH:$SVN_DIR/lib"
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| 338 | fi
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| 339 |
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| 340 | #APR
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| 341 | APR_DIR="$ISSM_DIR/externalpackages/apr/install"
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| 342 | if [ -d "$APR_DIR" ]; then
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| 343 | export PATH="$APR_DIR/bin:$PATH"
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| 344 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$APR_DIR/lib"
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| 345 | export LIBRARY_PATH="$LIBRARY_PATH:$APR_DIR/lib"
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| 346 | fi
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| 347 |
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| 348 | #APR_UTIL
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| 349 | APR_UTIL_DIR="$ISSM_DIR/externalpackages/apr-util/install"
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| 350 | if [ -d "$APR_UTIL_DIR" ]; then
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| 351 | export PATH="$APR_UTIL_DIR/bin:$PATH"
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| 352 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$APR_UTIL_DIR/lib"
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| 353 | export LIBRARY_PATH="$LIBRARY_PATH:$APR_UTIL_DIR/lib"
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| 354 | fi
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| 355 |
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| 356 | #SQLITE
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| 357 | SQLITE_DIR="$ISSM_DIR/externalpackages/sqlite/install"
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| 358 | if [ -d "$SQLITE_DIR" ]; then
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| 359 | export PATH="$SQLITE_DIR/bin:$PATH"
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| 360 | export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:$SQLITE_DIR/lib"
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| 361 | export LIBRARY_PATH="$LIBRARY_PATH:$SQLITE_DIR/lib"
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| 362 | fi
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