fixed installation, will test now
This commit is contained in:
parent
c9c6588f7c
commit
d66b41c686
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@ -2,13 +2,12 @@
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# usage: source DAMASK_env.sh
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if [ "$OSTYPE" == "linux-gnu" ] || [ "$OSTYPE" == 'linux' ]
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then LOCATION=$(readlink -f "`dirname $BASH_SOURCE`")
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then DAMASK_ROOT=$(readlink -f "`dirname $BASH_SOURCE`")
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else
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STAT=$(stat "`dirname $BASH_SOURCE`")
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LOCATION=${STAT##* }
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DAMASK_ROOT=${STAT##* }
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fi
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export DAMASK_ROOT=${LOCATION}
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source $DAMASK_ROOT/installation/options
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if [ "x$DAMASK_NUM_THREADS" != "x" ]
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then export DAMASK_NUM_THREADS=$DAMASK_NUM_THREADS
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fi
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@ -27,6 +26,9 @@ fi
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if [ "x$F90" != "x" ]
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then export F90=$F90
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fi
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if [ "x$DAMASK_BIN" == "x" ]
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then DAMASK_BIN=$DAMASK_ROOT/bin
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fi
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# disable output in case of scp
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if [ ! -z "$PS1" ]; then
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@ -36,7 +38,7 @@ if [ ! -z "$PS1" ]; then
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echo http://damask.mpie.de
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echo
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echo Preparing environment ...
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echo "DAMASK_ROOT=$DAMASK_ROOT"
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echo "DAMASK installation in $DAMASK_ROOT"
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echo "DAMASK_NUM_THREADS=$DAMASK_NUM_THREADS"
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echo "F90=$F90"
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echo "prepending to LD_LIBRARY_PATH: $LD_NEW"
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@ -45,7 +47,5 @@ ulimit -s unlimited
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ulimit -c 0
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ulimit -v unlimited
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ulimit -m unlimited
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export DAMASK_BIN=$DAMASK_ROOT/bin
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export PATH=$PATH:$DAMASK_BIN
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export PYTHONPATH=$PYTHONPATH:$DAMASK_ROOT/lib
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export LD_LIBRARY_PATH=$LD_NEW:$LD_LIBRARY_PATH
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@ -35,11 +35,18 @@ SHELL = /bin/sh
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# SUFFIX = arbitrary suffix (after file to compile)
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# STANDARD_CHECK = checking for Fortran 2008, compiler dependend
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########################################################################################
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include ../installation/options
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ifeq ($(wildcard "${HOME}/.damask/damask.conf"),)
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include ${HOME}/.damask/damask.conf
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else
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include /etc/damask.conf
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endif
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COMPILERNAME ?= $(F90)
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INCLUDE_DIRS +=-I$(DAMASK_ROOT)/lib
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INCLUDE_DIRS :=-I../lib
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LIBRARIES :=-lfftw3
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LIB_DIRS :=-L$(FFTWROOT)/lib
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ifeq "$(FASTBUILD)" "YES"
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OPENMP := OFF
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@ -75,7 +82,22 @@ ifeq "$(PORTABLE)" "FALSE"
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PORTABLE_SWITCH =-msse3
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endif
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# settings for multicore support
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ifeq "$(OPENMP)" "ON"
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OPENMP_FLAG_ifort =-openmp -openmp-report0 -parallel
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OPENMP_FLAG_gfortran =-fopenmp
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ACML_ARCH =_mp
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IMKL_ARCH =_intel_thread
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LIBRARIES +=-lfftw3_threads -lpthread
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else
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IMKL_ARCH =_sequential
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endif
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ifneq "x$(IMKLROOT)" "x"
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LIB_DIRS :=-L$(IMKLROOT)/lib/intel64
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INCLUDE_DIRS +=-I$(IMKLROOT)/include
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LIBRARIES +=-lmkl_intel_lp64 -lmkl_core -lmkl$(ACML_ARCH) -lm -lpthread -liomp5
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else
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ifneq "x$(ACMLROOT)" "x"
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LIB_DIRS +=-L$(ACMLROOT)/$(F90)64$(ACML_ARCH)/lib
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LIBRARIES +=-lacml$(ACML_ARCH)
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@ -85,26 +107,10 @@ LIB_DIRS +=-L$(LAPACKROOT)/lib64 -L$(LAPACKROOT)/lib
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LIBRARIES +=-llapack
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endif
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endif
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COMPILE_OPTIONS_ifort :=
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ifeq "$(F90)" "ifort"
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ifneq "x$(IMKLROOT)" "x"
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COMPILE_OPTIONS_ifort +=-I$(IMKLROOT)/include -mkl=sequential
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LIBRARIES :=-lmkl_intel_lp64 -lmkl_sequential -lmkl_core -lm
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LIB_DIRS :=-L$(IMKLROOT)/lib/intel64
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endif
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endif
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# settings for multicore support
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ifeq "$(OPENMP)" "ON"
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OPENMP_FLAG_ifort =-openmp -openmp-report0 -parallel
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OPENMP_FLAG_gfortran =-fopenmp
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ACML_ARCH =_mp
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LIBRARIES +=-lfftw3_threads -lpthread
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endif
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LIBRARIES +=-lfftw3
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LIB_DIRS +=-L$(FFTWROOT)/lib
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#hdf5
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ifeq "$(HDF5)" "ON"
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@ -139,7 +145,7 @@ OPTIMIZATION_AGGRESSIVE_ifort :=-O3 $(PORTABLE_SWITCH) -no-prec-div -fp-model
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OPTIMIZATION_AGGRESSIVE_gfortran :=-O3 $(PORTABLE_SWITCH) -ffast-math -funroll-loops -ftree-vectorize
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COMPILE_OPTIONS_ifort +=-fpp\
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COMPILE_OPTIONS_ifort :=-fpp\
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-ftz\
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-assume byterecl
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ifneq "$(FASTBUILD)" "YES"
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@ -465,11 +471,13 @@ endif
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$(PREFIX) $(COMPILERNAME) $(COMPILE) -c $< $(SUFFIX)
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.PHONY: tidy
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tidy:
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@rm -rf *.o
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@rm -rf *.mod
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.PHONY: clean
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clean:
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@rm -rf *.o
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@rm -rf *.mod
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@rm -rf *.exe
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@ -1,5 +1,5 @@
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#!/usr/bin/env python
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import os,re,sys,string,subprocess
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import os,re,sys,string,subprocess,shutil
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from optparse import OptionParser, Option
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@ -28,67 +28,225 @@ class extendableOption(Option):
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########################################################
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parser = OptionParser(option_class=extendableOption, usage='%prog options', description = """
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Sets up the pre and post processing tools of DAMASK
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Configures the compilation and installation of DAMASK
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""" + string.replace('$Id$','\n','\\n')
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)
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compilers = ['ifort','gfortran']
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blastypes = ['LAPACK','ACML','IMKL']
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parser.add_option('--with-fc', dest='compiler', type='string',
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help='F90 compiler [%default]')
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parser.add_option('--with-marc-dir', dest='marcdir', type='string',
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help='root directory of MSC.Marc [%default]')
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parser.add_option('--with-fftw-dir', dest='fftwdir', type='string',
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help='root directory of FFTW [%default]')
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parser.add_option('--with-blas-lapack-dir', dest='blasdir', type='string',
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help='root directory of LAPACK [%default]')
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parser.add_option('--with-blas-type', dest='blastype', type='string',
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help='type of BLAS/LAPACK library [%default]')
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parser.add_option('--with-spectral-options', dest='spectraloptions', type='string', action='extend',
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help='options for spectral solver %default')
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#--- determine default compiler ----------------------------------------------------------------------
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compiler = os.getenv('F90')
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if compiler == None: compiler ={True:'ifort',False:'gfortran'}[\
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subprocess.call(['which', 'ifort'],\
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stdout=subprocess.PIPE, stderr=subprocess.PIPE) == 0]
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parser.set_defaults(compiler = compiler)
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parser.set_defaults(blastype = 'LAPACK')
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parser.set_defaults(fftwdir = '/usr/local')
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parser.set_defaults(blasdir = '/usr')
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parser.set_defaults(marcdir = '/msc')
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#--- default option values --------------------------------------------------------------------------
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defaults={'F90':compiler,\
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'FFTW_ROOT':'/usr/local',\
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'MARC_ROOT':'/msc',\
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'HDF5_ROOT':'/usr/local',\
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'DAMASK_NUM_THREADS':4,\
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'blasType':'LAPACK',\
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'blasRoot':{'LAPACK':'/usr',\
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'ACML' :'/opt/acml5.3.1',\
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'IMKL' :{True:'/opt/intel/composerxe/mkl',False:os.getenv('MKLROOT')}\
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[os.getenv('MKLROOT')==None]},\
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'spectralOptions':{}}
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#--- if local config file exists, read, otherwise assume global config file ------------------------
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if os.path.isfile(os.path.join(os.getenv('HOME'),'.damask/damask.conf')):
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configFile = os.path.join(os.getenv('HOME'),'.damask/damask.conf')
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else:
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configFile = '/etc/damask.conf'
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#--- set default values according to read in values ------------------------------------------------
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try:
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with open(configFile,'r') as f:
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print('\n-----\n reading default values from %s\n-----'%configFile)
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for line in f:
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items = re.split('[= ]',line)
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if (not line.strip() or items[0].startswith('#')):
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pass
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elif items[0] == 'F90':
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defaults['F90']=items[1].rstrip()
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elif items[0] == 'FFTW_ROOT':
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defaults['FFTW_ROOT']=items[1].rstrip()
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elif items[0] == 'MARC_ROOT':
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defaults['MARC_ROOT']=items[1].rstrip()
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elif items[0] == 'HDF5_ROOT':
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defaults['HDF5_ROOT']=items[1].rstrip()
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elif items[0] == 'DAMASK_NUM_THREADS':
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defaults['DAMASK_NUM_THREADS']=int(items[1])
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elif items[0] in [name+'_ROOT' for name in defaults['blasRoot']]:
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defaults['blasType']=items[0][:-5]
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defaults['blasRoot'][items[0][:-5]] =items[1].rstrip()
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else:
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defaults['spectralOptions'][items[0]]=items[1].rstrip()
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except IOError:
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pass
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parser.add_option('--with-fc', dest='compiler', type='string', metavar='string', \
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help='F90 compiler [%default]')
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parser.add_option('--with-fftw-dir', dest='fftwRoot', type='string', metavar='string', \
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help='root directory of FFTW [%default]')
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parser.add_option('--with-marc-dir', dest='marcRoot', type='string', metavar='string', \
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help='root directory of MSC.Marc [%default]')
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parser.add_option('--with-HDF5-dir', dest='hdf5Root', type='string', metavar='string', \
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help='root directory of HDF5 [%default]')
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parser.add_option('--with-OMP-threads', dest='threads', type='int', metavar='int',\
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help='number of openMP threads [%default]')
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parser.add_option('--with-blas-type', dest='blasType', type='string', metavar='string', \
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help='type of BLAS/LAPACK library [%default]')
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parser.add_option('--with-blas-dir', dest='blasRoot', type='string', metavar='string', \
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help='root directory of BLAS/LAPACK library [%default]')
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parser.add_option('--with-spectral-options', dest='spectraloptions', type='string', action='extend', metavar='<string LIST>', \
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help='options for compilation of spectral solver')
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parser.set_defaults(compiler = defaults['F90'])
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parser.set_defaults(fftwRoot = defaults['FFTW_ROOT'])
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parser.set_defaults(marcRoot = defaults['MARC_ROOT'])
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parser.set_defaults(hdf5Root = defaults['HDF5_ROOT'])
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parser.set_defaults(threads = defaults['DAMASK_NUM_THREADS'])
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parser.set_defaults(blasType = defaults['blasType'])
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#--- set default for blasRoot depending on current option (or default) for blasType --------------------
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blasType = defaults['blasType'].upper()
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for i, arg in enumerate(sys.argv):
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if arg.startswith('--with-blas-type'):
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if arg.endswith('--with-blas-type'):
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blasType = sys.argv[i+1].upper()
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else:
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blasType = sys.argv[i][17:].upper()
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if blasType not in ['LAPACK','ACML','IMKL']:
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blasType='LAPACK'
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parser.set_defaults(blasRoot = [defaults['blasRoot'][blasType]][0])
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parser.set_defaults(spectraloptions = [])
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(options,filenames) = parser.parse_args()
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options.blastype = options.blastype.upper()
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#--- consistency checks --------------------------------------------------------------------------------
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options.compiler=options.compiler.lower()
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options.blasType=options.blasType.upper()
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options.fftwRoot=options.fftwRoot.rstrip('/')
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options.marcRoot=options.marcRoot.rstrip('/')
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options.hdf5Root=options.hdf5Root.rstrip('/')
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options.blasRoot=options.blasRoot.rstrip('/')
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if options.blastype not in blastypes: print('Unknown BLAS type selected')
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if options.compiler not in compilers: print('Unknown compiler type selected')
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if options.compiler not in ['ifort','gfortran']:
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print('Error: Unknown compiler option: %s'%options.compiler)
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sys.exit(1)
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if not subprocess.call(['which', options.compiler],stdout=subprocess.PIPE, stderr=subprocess.PIPE) == 0:
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print('Compiler Warning: executable %s not found!'%options.compiler)
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for lib in ['libfftw3.a','libfftw3.a']:
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if not os.path.isfile(os.path.join(options.fftwRoot,'lib/%s'%lib)):
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print('FFTW Warning: %s not found in %s!'%(lib,os.path.join(options.fftwRoot,'lib')))
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if not os.path.isdir(options.marcRoot):
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print('MSC.Marc Warning: Root directory %s not found!'%options.marcRoot)
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if options.blasType == 'LAPACK':
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if os.path.isdir(os.path.join(options.blasRoot,'lib64')):
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blasLocation = os.path.join(options.blasRoot,'lib64')
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else:
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blasLocation=os.path.join(options.blasRoot,'lib')
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for lib in ['liblapack.a','liblapack.a']:
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if not os.path.isfile(os.path.join(blasLocation,lib)):
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print('LAPACK Warning: %s not found in %s!'%(lib,blasLocation))
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elif options.blasType == 'ACML':
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blasLocationSerial=os.path.join(options.blasRoot,'%s64/lib'%options.compiler)
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for lib in ['libacml.a','libacml.a']:
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if not os.path.isfile(os.path.join(blasLocationSerial,lib)):
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print('ACML Warning: %s not found in %s!'%(lib,blasLocationSerial))
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blasLocationParallel=os.path.join(options.blasRoot,'%s64_mp/lib'%options.compiler)
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for lib in ['libacml_mp.a','libacml_mp.a']:
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if not os.path.isfile(os.path.join(blasLocationParallel,lib)):
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print('ACML Warning: %s not found in %s!'%(lib,blasLocationParallel))
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elif options.blasType == 'IMKL':
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if options.compiler == 'gfortran':
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print('Error: IMKL does not support gfortran')
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sys.exit(1)
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blasLocation=os.path.join(options.blasRoot,'lib/intel64')
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for lib in ['libmkl_core.so','libmkl_core.a',\
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'libmkl_sequential.so','libmkl_sequential.a',\
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'libmkl_intel_lp64.so','libmkl_intel_lp64.a']:
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if not os.path.isfile(os.path.join(blasLocation,lib)):
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print('IMKL Warning: %s not found in %s!'%(lib,blasLocation))
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else:
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print('Error: Unknown BLAS/LAPACK library: %s'%options.blasType)
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sys.exit(1)
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#--- try to read config file (to keep comments and order) ----------------------------------------------
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output = []
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with open('installation/options','r') as f:
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try:
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with open(configFile,'r') as f:
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for line in f:
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items = re.split('[= ]',line)
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if items[0] == 'F90': line = '%s=%s\n'%(items[0],options.compiler)
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if items[0] == 'FFTW_ROOT': line = '%s=%s\n'%(items[0],options.fftwdir.rstrip('/'))
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if items[0] == 'MSC_ROOT': line = '%s=%s\n'%(items[0],options.marcdir.rstrip('/'))
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for blastype in blastypes:
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if options.blastype == blastype and items[0] == '%s_ROOT'%blastype:
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line = '%s=%s\n'%(items[0],options.blasdir.rstrip('/'))
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if (not line.strip() or items[0].startswith('#')):
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pass
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if items[0] == 'F90':
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line = '%s=%s\n'%(items[0],options.compiler)
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options.compiler =''
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if items[0] == 'FFTW_ROOT':
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line = '%s=%s\n'%(items[0],options.fftwRoot)
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options.fftwRoot =''
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if items[0] == 'MARC_ROOT':
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line = '%s=%s\n'%(items[0],options.marcRoot)
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options.marcRoot =''
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if items[0] == 'HDF5_ROOT':
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line = '%s=%s\n'%(items[0],options.hdf5Root)
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options.hdf5Root =''
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if items[0] == 'DAMASK_NUM_THREADS':
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line = '%s=%s\n'%(items[0],options.threads)
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options.threads =''
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for blasType in defaults['blasRoot'].keys():
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if items[0] == '%s_ROOT'%blasType and items[0] == '%s_ROOT'%options.blasType:
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line = '%s=%s\n'%(items[0],options.blasRoot)
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options.blasType=''
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elif items[0] == '%s_ROOT'%blasType: line = '#'+line
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for spectralOption in options.spectraloptions:
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[key,value] = re.split('[= ]',spectralOption)[0:2]
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if key == items[0]:
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line = '%s=%s\n'%(items[0],value)
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options.spectraloptions.remove(spectralOption)
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output.append(line)
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except IOError:
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pass
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#--- write remaining options --------------------------------------------------------------------------
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for opt, value in options.__dict__.items():
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if opt == 'compiler' and value !='':
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output.append('F90=%s\n'%value)
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if opt == 'fftwRoot' and value !='':
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output.append('FFTW_ROOT=%s\n'%value)
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if opt == 'marcRoot' and value !='':
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output.append('MARC_ROOT=%s\n'%value)
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if opt == 'hdf5Root' and value !='':
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output.append('HDF5_ROOT=%s\n'%value)
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if opt == 'threads' and value !='':
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output.append('DAMASK_NUM_THREADS=%s\n'%value)
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if opt == 'blasType' and value !='':
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output.append('%s_ROOT=%s\n'%(blasType,options.blasRoot))
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|
||||
for spectralOption in options.spectraloptions:
|
||||
output.append(spectralOption+'\n')
|
||||
|
||||
with open('installation/options','w') as f:
|
||||
#--- decide where do save the data ----------------------------------------------------------------------
|
||||
root=os.access('/etc/', os.W_OK)
|
||||
if root:
|
||||
configFileNew = '/etc/damask.conf'
|
||||
else:
|
||||
configFileNew = os.path.join(os.getenv('HOME'),'.damask/damask.conf')
|
||||
if not os.path.isdir(os.path.join(os.getenv('HOME'),'.damask')):
|
||||
os.mkdir(os.path.join(os.getenv('HOME'),'.damask'))
|
||||
|
||||
print('\n-----\n writing values to %s\n-----'%configFileNew)
|
||||
with open(configFileNew,'w') as f:
|
||||
for line in output:
|
||||
f.write(line)
|
||||
|
|
|
@ -32,7 +32,7 @@ compileCommand = {
|
|||
|
||||
# see http://cens.ioc.ee/pipermail/f2py-users/2003-December/000621.html
|
||||
if options['IMKL_ROOT'] != '' and options['F90'] != 'gfortran':
|
||||
lib_lapack = '-L%s/lib/intel64 -I%s/include -lmkl_intel_lp64 -lmkl_sequential -lmkl_core -liomp5 -lm'%(options['IMKL_ROOT'],options['IMKL_ROOT'])
|
||||
lib_lapack = '-L%s/lib/intel64 -I%s/include -lmkl_intel_lp64 -lmkl_core -lmkl_sequential -lpthread -lm -liomp5'%(options['IMKL_ROOT'],options['IMKL_ROOT'])
|
||||
elif options['ACML_ROOT'] != '':
|
||||
lib_lapack = '-L%s/%s64/lib -lacml'%(options['ACML_ROOT'],options['F90'])
|
||||
elif options['LAPACK_ROOT'] != '':
|
||||
|
|
|
@ -4,7 +4,11 @@ DEFAULT_VERSION='2013.1'
|
|||
|
||||
WORKINGDIR="$( cd "$( dirname "$0" )" && pwd )"
|
||||
|
||||
source $WORKINGDIR/../options
|
||||
if [ -f $HOME/.damask/damask.conf ] then
|
||||
source $HOME/.damask/damask.conf
|
||||
else
|
||||
source /etc/damask.conf
|
||||
fi
|
||||
|
||||
while [ ! -d "$WORKINGDIR/$VERSION" ] || [ -z "$VERSION" ]
|
||||
do
|
||||
|
|
|
@ -1,18 +0,0 @@
|
|||
# $Id: pathinfo 2176 2013-02-19 13:35:38Z MPIE\p.eisenlohr $
|
||||
# possible options are
|
||||
# IMKL_ROOT base installation directory of Intel Math Kernel Library
|
||||
# ACML_ROOT base installation directory of AMD Core Math Library
|
||||
# LAPAC_KROOT base installation directory of (system) LAPACK Library
|
||||
# MSC_ROOT base installation directory of MSC.Marc/Mentat
|
||||
# FFTW_ROOT base installation directory of Fastest Fourier Transform in the West library
|
||||
# Do NOT add any trailing /lib/ to the end
|
||||
# of the base installation path---this will be done automatically
|
||||
|
||||
FFTW_ROOT=
|
||||
LAPACK_ROOT=
|
||||
ACML_ROOT=
|
||||
IMKL_ROOT=
|
||||
MSC_ROOT=
|
||||
F90=
|
||||
DAMASK_NUM_THREADS=2
|
||||
|
|
@ -10,14 +10,21 @@ bin_link = { \
|
|||
|
||||
MarcReleases =[2011,2012,2013,2013.1]
|
||||
|
||||
damaskEnv = damask.Environment('../../') # script location relative to root
|
||||
baseDir = damaskEnv.relPath('code/')
|
||||
baseDir = damask.Environment('../../').relPath('code/')
|
||||
|
||||
root=os.access('/usr/local/bin', os.W_OK)
|
||||
if root:
|
||||
binDir = '/usr/local/bin'
|
||||
else:
|
||||
binDir = os.path.join(os.getenv('HOME'),'bin')
|
||||
if not os.path.isdir(binDir):
|
||||
os.mkdir(binDir)
|
||||
|
||||
for dir in bin_link:
|
||||
for file in bin_link[dir]:
|
||||
src = os.path.abspath(os.path.join(baseDir,dir,file))
|
||||
if os.path.exists(src):
|
||||
sym_link = os.path.abspath(os.path.join(damaskEnv.binDir(),\
|
||||
sym_link = os.path.abspath(os.path.join(binDir,\
|
||||
{True: dir,
|
||||
False:os.path.splitext(file)[0]}[file == '']))
|
||||
if os.path.lexists(sym_link): os.remove(sym_link)
|
||||
|
|
|
@ -5,7 +5,7 @@ import os
|
|||
from damask import Environment
|
||||
|
||||
damaskEnv = Environment()
|
||||
baseDir = damaskEnv.relPath('processing/')
|
||||
baseDir = damaskEnv.relPath('installation/')
|
||||
codeDir = damaskEnv.relPath('code/')
|
||||
|
||||
#define ToDo list
|
||||
|
@ -82,13 +82,21 @@ bin_link = { \
|
|||
],
|
||||
}
|
||||
|
||||
root=os.access('/usr/local/bin', os.W_OK)
|
||||
if root:
|
||||
binDir = '/usr/local/bin'
|
||||
else:
|
||||
binDir = os.path.join(os.getenv('HOME'),'bin')
|
||||
if not os.path.isdir(binDir):
|
||||
os.mkdir(binDir)
|
||||
|
||||
for dir in bin_link:
|
||||
for file in bin_link[dir]:
|
||||
src = os.path.abspath(os.path.join(baseDir,dir,file))
|
||||
if (file == ''):
|
||||
sym_link = os.path.abspath(os.path.join(damaskEnv.binDir(),dir))
|
||||
sym_link = os.path.abspath(os.path.join(binDir,dir))
|
||||
else:
|
||||
sym_link = os.path.abspath(os.path.join(damaskEnv.binDir(),os.path.splitext(file)[0]))
|
||||
sym_link = os.path.abspath(os.path.join(binDir,os.path.splitext(file)[0]))
|
||||
print sym_link,'-->',src
|
||||
if os.path.lexists(sym_link):
|
||||
os.remove(sym_link)
|
||||
|
|
|
@ -17,21 +17,8 @@ class Environment():
|
|||
return os.path.join(self.rootDir(),relative)
|
||||
|
||||
def rootDir(self):
|
||||
damask_root = os.getenv('DAMASK_ROOT')
|
||||
if damask_root == '' or damask_root == None: # env not set
|
||||
if sys.argv[0] == '': # no caller path
|
||||
cwd = os.getcwd()
|
||||
else:
|
||||
cwd = sys.argv[0] if os.path.isdir(sys.argv[0]) else os.path.dirname(sys.argv[0])
|
||||
return os.path.normpath(os.path.join(os.path.realpath(__file__),'../../../'))
|
||||
|
||||
damask_root = os.path.normpath(os.path.join(os.path.realpath(cwd),self.rootRelation))
|
||||
|
||||
return damask_root
|
||||
|
||||
def binDir(self):
|
||||
damask_bin = os.getenv('DAMASK_BIN')
|
||||
if damask_bin == '' or damask_bin == None: damask_bin = self.relPath('bin/')
|
||||
return damask_bin
|
||||
|
||||
def get_options(self):
|
||||
with open(self.relPath('installation/options')) as file:
|
||||
|
|
Loading…
Reference in New Issue