1 | #!/bin/bash
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2 | #Step 0: download
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3 | #Step 1: install before plapack crasehs
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4 | #Step 2: After Plapack implodes
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5 | STEP=0
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6 |
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7 | if [ $STEP -eq 0 ]; then
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8 | # Adapted from petsc 3.2.
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9 | # Used Mercurial to get code
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10 | rm -rf src
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11 | hg clone http://petsc.cs.iit.edu/petsc/petsc-dev src
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12 | cd src
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13 | hg clone http://petsc.cs.iit.edu/petsc/BuildSystem config/BuildSystem
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14 | fi
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15 |
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16 | # To update (via Mercurial):
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17 | # cd petsc-dev
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18 | # hg pull -u
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19 | # cd config/BuildSystem
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20 | # hg pull -u
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21 |
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22 |
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23 | # configure script
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24 | # Note: using metis from externalpackages did not work...
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25 | # for now downloading new metis
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26 | # -then rename metis in externalpackages to metis2
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27 | if [ $STEP -eq 1 ]; then
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28 |
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29 | mkdir install
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30 |
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31 | #configure
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32 | cd src
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33 | ./config/configure.py \
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34 | --prefix="$ISSM_DIR/externalpackages/petsc/install" \
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35 | --with-batch=1 \
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36 | --PETSC_ARCH="$ISSM_ARCH" \
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37 | --PETSC_DIR="$ISSM_DIR/externalpackages/petsc/src" \
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38 | --with-debugging=0 \
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39 | --with-shared-libraries=0 \
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40 | --with-blas-lapack-dir=/nasa/intel/mkl/10.0.011/ \
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41 | --known-mpi-shared-libraries=1 \
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42 | --with-mpi-lib=/nasa/sgi/mpt/2.04/lib/libmpi.so \
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43 | --with-mpi-include=/nasa/sgi/mpt/2.04/include \
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44 | --download-mumps=yes \
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45 | --download-plapack=yes \
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46 | --download-scalapack=yes \
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47 | --download-blacs=yes \
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48 | --download-blas=yes \
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49 | --download-f-blas-lapack=yes \
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50 | --download-parmetis=yes \
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51 | --download-metis=yes \
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52 | --download-trilinos=yes \
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53 | --download-euclid=yes \
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54 | --download-pastix=yes \
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55 | --download-ptscotch=yes \
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56 | --download-spooles=yes \
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57 | --download-spai=yes \
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58 | --download-superlu=http://crd.lbl.gov/~xiaoye/SuperLU/superlu_4.3.tar.gz \
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59 | --FFLAGS=-I/usr/include \
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60 | --with-cc=icc \
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61 | --with-fc=ifort \
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62 | --COPTFLAGS=" -O3 -xS" \
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63 | --FOPTFLAGS=" -O3 -xS" \
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64 | --CXXOPTFLAGS=" -O3 -xS" \
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65 | --with-pic=1
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66 | echo "== Fix Plapack compilation manually (http://issm.jpl.nasa.gov/documentation/faq/petsc32/) =="
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67 | echo "== Then run STEP=2 =="
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68 | fi
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69 | if [ $STEP -eq 2 ]; then
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70 | cd src
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71 | ./config/configure.py \
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72 | --prefix="$ISSM_DIR/externalpackages/petsc/install" \
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73 | --with-batch=1 \
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74 | --PETSC_ARCH="$ISSM_ARCH" \
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75 | --PETSC_DIR="$ISSM_DIR/externalpackages/petsc/src" \
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76 | --with-debugging=0 \
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77 | --with-shared-libraries=0 \
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78 | --with-blas-lapack-dir=/nasa/intel/mkl/10.0.011/ \
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79 | --with-mpi-lib=/nasa/sgi/mpt/2.04/lib/libmpi.so \
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80 | --with-mpi-include=/nasa/sgi/mpt/2.04/include \
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81 | --known-mpi-shared-libraries=1 \
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82 | --download-mumps=yes \
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83 | --download-scalapack=yes \
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84 | --download-blacs=yes \
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85 | --download-blas=yes \
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86 | --with-f-blas-lapack-dir=$ISSM_DIR/externalpackages/petsc/src/$ISSM_ARCH \
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87 | --download-parmetis=yes \
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88 | --download-metis=yes \
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89 | --with-cxx=icpc \
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90 | --download-hypre=yes \
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91 | --download-trilinos=yes \
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92 | --download-prometheus=yes \
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93 | --download-euclid=yes \
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94 | --download-pastix=yes \
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95 | --download-ptscotch=yes \
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96 | --download-spooles=yes \
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97 | --download-superlu=http://crd.lbl.gov/~xiaoye/SuperLU/superlu_4.3.tar.gz \
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98 | --with-spai-dir=$ISSM_DIR/externalpackages/petsc/src/$ISSM_ARCH \
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99 | --with-plapack-dir=$ISSM_DIR/externalpackages/petsc/src/$ISSM_ARCH \
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100 | --FFLAGS=-I/usr/include \
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101 | --with-cc=icc \
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102 | --with-fc=ifort \
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103 | --COPTFLAGS=" -O3 -xS" \
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104 | --FOPTFLAGS=" -O3 -xS" \
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105 | --CXXOPTFLAGS=" -O3 -xS" \
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106 | --with-pic=1
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107 | cat > script.queue << EOF
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108 | #PBS -S /bin/bash
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109 | #PBS -q debug
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110 | #PBS -l select=1:ncpus=1:model=har
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111 | #PBS -l walltime=200
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112 | #PBS -W group_list=s1010
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113 | #PBS -m e
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114 | . /usr/share/modules/init/bash
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115 | module load comp-intel/11.1.046
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116 | module load mpi-sgi/mpt.2.04 #DEFINES MPI_Type_create_indexed_block
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117 | module load math/intel_mkl_64_10.0.011
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118 | export PATH="$PATH:."
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119 | export MPI_GROUP_MAX=64
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120 | mpiexec -np 1 ./conftest-linux-gnu-ia64-intel.py
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121 | EOF
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122 | echo "== Follow PETSc's instructions"
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123 | fi
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