Initial commit

.gitignore

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+# KDevelop4
+*.kdev4
+*.kdev4/
+
+# SCons
+build/
+config.log
+.sconsign.dblite
+.sconf_temp/

.gitmodules

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+[submodule "submodules/scons-tools"]
+	path = submodules/scons-tools
+	url = https://github.com/TUM-I5/scons-tools.git
+[submodule "submodules/utils"]
+	path = submodules/utils
+	url = https://github.com/TUM-I5/utils.git

COPYING

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+Copyright (c) 2017, Technical University of Munich
+All rights reserved.
+
+Redistribution and use in source and binary forms, with or without
+modification, are permitted provided that the following conditions are met:
+
+1. Redistributions of source code must retain the above copyright notice,
+   this list of conditions and the following disclaimer.
+
+2. Redistributions in binary form must reproduce the above copyright notice
+   this list of conditions and the following disclaimer in the documentation
+   and/or other materials provided with the distribution.
+
+3. Neither the name of the copyright holder nor the names of its
+   contributors may be used to endorse or promote products derived from this
+   software without specific prior written permission.
+
+THIS SOFTWARE IS PROVIDED BY THE COPYRIGHT HOLDERS AND CONTRIBUTORS "AS IS"
+AND ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE
+IMPLIED WARRANTIES OF  MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE
+ARE DISCLAIMED. IN NO EVENT SHALL THE COPYRIGHT HOLDER OR CONTRIBUTORS BE
+LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR
+CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF
+SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS
+INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN
+CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE)
+ARISING IN ANY WAY OUT OF THE  USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE
+POSSIBILITY OF SUCH DAMAGE.

SConstruct

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+#! /usr/bin/python
+
+# @file
+#  This file is part of PUMGen
+#
+#  For conditions of distribution and use, please see the copyright
+#  notice in the file 'COPYING' at the root directory of this package
+#  and the copyright notice at https://github.com/SeisSol/PUMGen
+#
+# @copyright 2017 Technical University of Munich
+# @author Sebastian Rettenberger <[email protected]>
+#
+
+import os
+import sys
+
+import libs
+import utils.compiler
+import utils.variables
+
+# set possible variables
+vars = utils.variables.Variables()
+
+# Add build type
+vars.AddBuildType()
+
+# Add prefix path
+vars.AddPrefixPathVariable()
+
+# Add compiler variables
+vars.AddCompilerVariable()
+
+# PUMGen specific variables
+vars.AddVariables(
+	PathVariable( 'buildDir', 'where to build the code', 'build', PathVariable.PathIsDirCreate ),
+
+	EnumVariable( 'logLevel',
+		'logging level. \'debug\' prints all information available, \'info\' prints information at runtime (time step, plot number), \'warning\' prints warnings during runtime, \'error\' is most basic and prints errors only',
+		'info',
+		allowed_values=('debug', 'info', 'warning', 'error')
+	),
+
+	BoolVariable( 'netcdf', 'compile netCDF support (required to read old SeisSol meshes)',
+		False,
+	),
+
+	BoolVariable( 'simModSuite', 'compile with support for simModSuite from Simmetrix',
+		False
+	),
+
+	( 'mpiLib', 'MPI library against this is linked (only required for simModSuite)',
+		'mpich2',
+		None, None
+	),
+
+	PathVariable( 'cc',
+		'C compiler (default: mpicc)',
+		None,
+		PathVariable.PathAccept
+	),
+
+	PathVariable( 'cxx',
+		'C++ compiler (default: mpicxx)',
+		None,
+		PathVariable.PathAccept
+	),
+
+	BoolVariable( 'useEnv',
+		'set variables set in the execution environment',
+		True
+	)
+)
+
+vars.ParseVariableFile()
+
+# Create the environment
+env = Environment(variables=vars)
+
+# generate help text
+vars.SetHelpText(env)
+
+# Check for any unknown (maybe misspelled) variables
+vars.CheckUnknownVariables(env)
+
+# Set environment
+if env['useEnv']:
+	env['ENV'] = os.environ
+
+#
+# precompiler, compiler and linker flags
+#
+
+# Set compiler
+env['CC'] = 'mpicc'
+env['CXX'] = 'mpicxx'
+vars.SetCompiler(env)
+
+# set level of logger
+if env['logLevel'] == 'debug':
+	env.Append(CPPDEFINES=['LOG_LEVEL=3'])
+elif env['logLevel'] == 'info':
+	env.Append(CPPDEFINES=['LOG_LEVEL=2'])
+elif env['logLevel'] == 'warning':
+	env.Append(CPPDEFINES=['LOG_LEVEL=1'])
+elif env['logLevel'] == 'error':
+	env.Append(CPPDEFINES=['LOG_LEVEL=0'])
+else:
+	assert(false)
+
+# compiler flags for generated kernels
+env.Append(CXXFLAGS = ['-Wall', '-ansi', '-std=c++0x'])
+if utils.compiler.optimizationEnabled(env):
+	env.Append(CPPDEFINES=['NDEBUG'])
+	env.Append(CXXFLAGS=['-O2'])
+else:
+	env.Append(CXXFLAGS=['-O0'])
+if utils.compiler.debugEnabled(env):
+	env.Append(CXXFLAGS=['-g'])
+
+# add pathname to the list of directories which are search for include
+env.Append(CPPPATH=['#/src'])
+
+# Enable openmp
+env.Append(CXXFLAGS = ['-fopenmp'])
+env.Append(LINKFLAGS= ['-fopenmp'])
+
+# Set prefix pathes for libraries
+vars.SetPrefixPathes(env)
+
+# utils library
+env.Append(CPPPATH=['#/submodules'])
+
+# APF (one of the Zoltan functions is required)
+libs.find(env, 'apf', simmetrix=env['simModSuite'], zoltan=True)
+
+# netCDF
+env['use_netcdf'] = libs.find(env, 'netcdf', required=env['netcdf'], parallel=True)
+if env['use_netcdf']:
+	env.Append(CPPDEFINES=['USE_NETCDF'])
+
+# SimModSuite
+env['use_simmodsuite'] = libs.find(env, 'simmodsuite', required=env['simModSuite'], mpiLib=env['mpiLib'])
+if env['use_simmodsuite']:
+	env.Append(CPPDEFINES=['USE_SIMMOD'])
+
+# get the source files
+env.sourceFiles = []
+
+Export('env')
+SConscript('src/SConscript', variant_dir='#/'+env['buildDir']+'/src', src_dir='#/src', duplicate=0)
+Import('env')
+
+# build tools
+env.Program('#/'+env['buildDir']+'/pumgen', env.sourceFiles)

site_scons/libs

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+../submodules/scons-tools/libs/

site_scons/utils

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+../submodules/scons-tools/utils/

src/SConscript

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+#! /usr/bin/python
+
+# @file
+#  This file is part of PUMGen
+#
+#  For conditions of distribution and use, please see the copyright
+#  notice in the file 'COPYING' at the root directory of this package
+#  and the copyright notice at https://github.com/SeisSol/PUMGen
+#
+# @copyright 2017 Technical University of Munich
+# @author Sebastian Rettenberger <[email protected]>
+#
+
+Import('env')
+
+env.sourceFiles = [env.Object('pumgen.cpp')]
+
+for dir in ['input', 'meshreader']:
+	Export('env')
+	SConscript(dir+'/SConscript', variant_dir='#/'+env['buildDir']+'/src/'+dir, src_dir='#/src/'+dir, duplicate=0)
+	Import('env')
+
+Export('env')

src/input/ApfNative.h

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+/**
+ * @file
+ *  This file is part of PUMGen
+ *
+ *  For conditions of distribution and use, please see the copyright
+ *  notice in the file 'COPYING' at the root directory of this package
+ *  and the copyright notice at https://github.com/SeisSol/PUMGen
+ *
+ * @copyright 2017 Technical University of Munich
+ * @author Sebastian Rettenberger <[email protected]>
+ */
+
+#ifndef APF_NATIVE_H
+#define APF_NATIVE_H
+
+#include <apfMDS.h>
+#include <gmi_mesh.h>
+#include <gmi_null.h>
+
+#include "utils/logger.h"
+
+#include "MeshInput.h"
+
+class ApfNative : public MeshInput
+{
+public:
+	ApfNative(const char* mesh, const char* model = 0L)
+	{
+		if (model)
+			gmi_register_mesh();
+		else {
+			gmi_register_null();
+			model = ".null";
+		}
+		m_mesh = apf::loadMdsMesh(model, mesh);
+	}
+};
+
+#endif // APF_NATIVE_H

src/input/MeshInput.h

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+/**
+ * @file
+ *  This file is part of PUMGen
+ *
+ *  For conditions of distribution and use, please see the copyright
+ *  notice in the file 'COPYING' at the root directory of this package
+ *  and the copyright notice at https://github.com/SeisSol/PUMGen
+ *
+ * @copyright 2017 Technical University of Munich
+ * @author Sebastian Rettenberger <[email protected]>
+ */
+
+#include <apfMesh2.h>
+
+#ifndef MESH_INTPUT_H
+#define MESH_INTPUT_H
+
+/**
+ * Interface for mesh input
+ */
+class MeshInput
+{
+protected:
+	apf::Mesh2* m_mesh;
+
+public:
+	virtual ~MeshInput() {}
+
+	apf::Mesh2* getMesh()
+	{
+		return m_mesh;
+	}
+};
+
+#endif // MESH_INPUT_H