Commit 89b584c0 authored by incardon's avatar incardon

Fixing memory initialization

parent 9ed3dcf1
......@@ -9,10 +9,7 @@ AC_CONFIG_SRCDIR([src/main.cpp])
AM_INIT_AUTOMAKE
AC_CONFIG_HEADER([src/config/config.h])
m4_ifdef([ACX_PTHREAD],,[m4_include([m4/acx_pthread.m4])])
m4_ifdef([AX_CHECK_CL],,[m4_include([m4/ax_opencl.m4])])
m4_ifdef([AX_BOOST_BASE],,[m4_include([m4/ax_boost_base.m4])])
m4_ifdef([AX_BOOST_PROGRAM_OPTIONS],,[m4_include([m4/ax_boost_program_options.m4])])
m4_ifdef([AX_BOOST_THREAD],,[m4_include([m4/ax_boost_thread.m4])])
m4_ifdef([AX_BOOST],,[m4_include([m4/ax_boost.m4])])
m4_ifdef([ACX_MPI],,[m4_include([m4/acx_mpi.m4])])
m4_ifdef([AX_OPENMP],,[m4_include([m4/ax_openmp.m4])])
m4_ifdef([AX_CUDA],,[m4_include([m4/ax_cuda.m4])])
......@@ -53,6 +50,10 @@ else
NVCCFLAGS+="$NVCCFLAGS -O3 "
fi
####### include OpenFPM_devices include path
INCLUDES_PATH+="-I. -Iconfig -I../../OpenFPM_devices/src"
###### Check for memleak check compilation
AC_MSG_CHECKING(whether to build with memory check)
......@@ -72,9 +73,9 @@ if test x"$mem_check" = x"yes"; then
AC_DEFINE([MEMLEAK_CHECK],[],[Memory check])
fi
####### include OpenFPM_devices include path
##### CHECK FOR BOOST ##############
INCLUDES_PATH+="-I. -Iconfig -I../../OpenFPM_devices/src"
AX_BOOST([1.52],[],[])
####### Checking for GPU support
......@@ -106,7 +107,11 @@ fi
AM_CONDITIONAL(BUILDCUDA, test x$gpu_support = x"yes")
###########################
##### CHECK FOR BOOST ###
AX_BOOST([1.52],[],[])
##########################
AC_SUBST(NVCCFLAGS)
AC_SUBST(INCLUDES_PATH)
......
This diff is collapsed.
# ============================================================================
# http://www.gnu.org/software/autoconf-archive/ax_boost_program_options.html
# ============================================================================
#
# SYNOPSIS
#
# AX_BOOST_PROGRAM_OPTIONS
#
# DESCRIPTION
#
# Test for program options library from the Boost C++ libraries. The macro
# requires a preceding call to AX_BOOST_BASE. Further documentation is
# available at <http://randspringer.de/boost/index.html>.
#
# This macro calls:
#
# AC_SUBST(BOOST_PROGRAM_OPTIONS_LIB)
#
# And sets:
#
# HAVE_BOOST_PROGRAM_OPTIONS
#
# LICENSE
#
# Copyright (c) 2009 Thomas Porschberg <thomas@randspringer.de>
#
# Copying and distribution of this file, with or without modification, are
# permitted in any medium without royalty provided the copyright notice
# and this notice are preserved. This file is offered as-is, without any
# warranty.
#serial 20
AC_DEFUN([AX_BOOST_PROGRAM_OPTIONS],
[
AC_ARG_WITH([boost-program-options],
AS_HELP_STRING([--with-boost-program-options@<:@=special-lib@:>@],
[use the program options library from boost - it is possible to specify a certain library for the linker
e.g. --with-boost-program-options=boost_program_options-gcc-mt-1_33_1 ]),
[
if test "$withval" = "no"; then
want_boost="no"
elif test "$withval" = "yes"; then
want_boost="yes"
ax_boost_user_program_options_lib=""
else
want_boost="yes"
ax_boost_user_program_options_lib="$withval"
fi
],
[want_boost="yes"]
)
if test "x$want_boost" = "xyes"; then
AC_REQUIRE([AC_PROG_CC])
export want_boost
CPPFLAGS_SAVED="$CPPFLAGS"
CPPFLAGS="$CPPFLAGS $BOOST_CPPFLAGS"
export CPPFLAGS
LDFLAGS_SAVED="$LDFLAGS"
LDFLAGS="$LDFLAGS $BOOST_LDFLAGS"
export LDFLAGS
AC_CACHE_CHECK([whether the Boost::Program_Options library is available],
ax_cv_boost_program_options,
[AC_LANG_PUSH(C++)
AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[@%:@include <boost/program_options.hpp>
]],
[[boost::program_options::options_description generic("Generic options");
return 0;]])],
ax_cv_boost_program_options=yes, ax_cv_boost_program_options=no)
AC_LANG_POP([C++])
])
if test "$ax_cv_boost_program_options" = yes; then
AC_DEFINE(HAVE_BOOST_PROGRAM_OPTIONS,,[define if the Boost::PROGRAM_OPTIONS library is available])
BOOSTLIBDIR=`echo $BOOST_LDFLAGS | sed -e 's/@<:@^\/@:>@*//'`
if test "x$ax_boost_user_program_options_lib" = "x"; then
for libextension in `ls $BOOSTLIBDIR/libboost_program_options*.so* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^lib\(boost_program_options.*\)\.so.*$;\1;'` `ls $BOOSTLIBDIR/libboost_program_options*.a* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^lib\(boost_program_options.*\)\.a*$;\1;'` ; do
ax_lib=${libextension}
AC_CHECK_LIB($ax_lib, exit,
[BOOST_PROGRAM_OPTIONS_LIB="-l$ax_lib"; AC_SUBST(BOOST_PROGRAM_OPTIONS_LIB) link_program_options="yes"; break],
[link_program_options="no"])
done
if test "x$link_program_options" != "xyes"; then
for libextension in `ls $BOOSTLIBDIR/boost_program_options*.dll* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^\(boost_program_options.*\)\.dll.*$;\1;'` `ls $BOOSTLIBDIR/boost_program_options*.a* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^\(boost_program_options.*\)\.a*$;\1;'` ; do
ax_lib=${libextension}
AC_CHECK_LIB($ax_lib, exit,
[BOOST_PROGRAM_OPTIONS_LIB="-l$ax_lib"; AC_SUBST(BOOST_PROGRAM_OPTIONS_LIB) link_program_options="yes"; break],
[link_program_options="no"])
done
fi
else
for ax_lib in $ax_boost_user_program_options_lib boost_program_options-$ax_boost_user_program_options_lib; do
AC_CHECK_LIB($ax_lib, main,
[BOOST_PROGRAM_OPTIONS_LIB="-l$ax_lib"; AC_SUBST(BOOST_PROGRAM_OPTIONS_LIB) link_program_options="yes"; break],
[link_program_options="no"])
done
fi
if test "x$ax_lib" = "x"; then
AC_MSG_ERROR(Could not find a version of the library!)
fi
if test "x$link_program_options" != "xyes"; then
AC_MSG_ERROR([Could not link against [$ax_lib] !])
fi
fi
CPPFLAGS="$CPPFLAGS_SAVED"
LDFLAGS="$LDFLAGS_SAVED"
fi
])
# ===========================================================================
# http://www.gnu.org/software/autoconf-archive/ax_boost_thread.html
# ===========================================================================
#
# SYNOPSIS
#
# AX_BOOST_THREAD
#
# DESCRIPTION
#
# Test for Thread library from the Boost C++ libraries. The macro requires
# a preceding call to AX_BOOST_BASE. Further documentation is available at
# <http://randspringer.de/boost/index.html>.
#
# This macro calls:
#
# AC_SUBST(BOOST_THREAD_LIB)
#
# And sets:
#
# HAVE_BOOST_THREAD
#
# LICENSE
#
# Copyright (c) 2009 Thomas Porschberg <thomas@randspringer.de>
# Copyright (c) 2009 Michael Tindal
#
# Copying and distribution of this file, with or without modification, are
# permitted in any medium without royalty provided the copyright notice
# and this notice are preserved. This file is offered as-is, without any
# warranty.
#serial 22
AC_DEFUN([AX_BOOST_THREAD],
[
AC_ARG_WITH([boost-thread],
AS_HELP_STRING([--with-boost-thread@<:@=special-lib@:>@],
[use the Thread library from boost - it is possible to specify a certain library for the linker
e.g. --with-boost-thread=boost_thread-gcc-mt ]),
[
if test "$withval" = "no"; then
want_boost="no"
elif test "$withval" = "yes"; then
want_boost="yes"
ax_boost_user_thread_lib=""
else
want_boost="yes"
ax_boost_user_thread_lib="$withval"
fi
],
[want_boost="yes"]
)
if test "x$want_boost" = "xyes"; then
AC_REQUIRE([AC_PROG_CC])
AC_REQUIRE([AC_CANONICAL_BUILD])
CPPFLAGS_SAVED="$CPPFLAGS"
CPPFLAGS="$CPPFLAGS $BOOST_CPPFLAGS"
export CPPFLAGS
LDFLAGS_SAVED="$LDFLAGS"
LDFLAGS="$LDFLAGS $BOOST_LDFLAGS"
export LDFLAGS
AC_CACHE_CHECK(whether the Boost::Thread library is available,
ax_cv_boost_thread,
[AC_LANG_PUSH([C++])
CXXFLAGS_SAVE=$CXXFLAGS
if test "x$build_os" = "xsolaris" ; then
CXXFLAGS="-pthreads $CXXFLAGS"
elif test "x$build_os" = "xming32" ; then
CXXFLAGS="-mthreads $CXXFLAGS"
else
CXXFLAGS="-pthread $CXXFLAGS"
fi
AC_COMPILE_IFELSE([AC_LANG_PROGRAM([[@%:@include <boost/thread/thread.hpp>]],
[[boost::thread_group thrds;
return 0;]])],
ax_cv_boost_thread=yes, ax_cv_boost_thread=no)
CXXFLAGS=$CXXFLAGS_SAVE
AC_LANG_POP([C++])
])
if test "x$ax_cv_boost_thread" = "xyes"; then
if test "x$build_os" = "xsolaris" ; then
BOOST_CPPFLAGS="-pthreads $BOOST_CPPFLAGS"
elif test "x$build_os" = "xming32" ; then
BOOST_CPPFLAGS="-mthreads $BOOST_CPPFLAGS"
else
BOOST_CPPFLAGS="-pthread $BOOST_CPPFLAGS"
fi
AC_SUBST(BOOST_CPPFLAGS)
AC_DEFINE(HAVE_BOOST_THREAD,,[define if the Boost::Thread library is available])
BOOSTLIBDIR=`echo $BOOST_LDFLAGS | sed -e 's/@<:@^\/@:>@*//'`
LDFLAGS_SAVE=$LDFLAGS
case "x$build_os" in
*bsd* )
LDFLAGS="-pthread $LDFLAGS"
break;
;;
esac
if test "x$ax_boost_user_thread_lib" = "x"; then
for libextension in `ls $BOOSTLIBDIR/libboost_thread*.so* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^lib\(boost_thread.*\)\.so.*$;\1;'` `ls $BOOSTLIBDIR/libboost_thread*.a* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^lib\(boost_thread.*\)\.a*$;\1;'`; do
ax_lib=${libextension}
AC_CHECK_LIB($ax_lib, exit,
[BOOST_THREAD_LIB="-l$ax_lib"; AC_SUBST(BOOST_THREAD_LIB) link_thread="yes"; break],
[link_thread="no"])
done
if test "x$link_thread" != "xyes"; then
for libextension in `ls $BOOSTLIBDIR/boost_thread*.dll* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^\(boost_thread.*\)\.dll.*$;\1;'` `ls $BOOSTLIBDIR/boost_thread*.a* 2>/dev/null | sed 's,.*/,,' | sed -e 's;^\(boost_thread.*\)\.a*$;\1;'` ; do
ax_lib=${libextension}
AC_CHECK_LIB($ax_lib, exit,
[BOOST_THREAD_LIB="-l$ax_lib"; AC_SUBST(BOOST_THREAD_LIB) link_thread="yes"; break],
[link_thread="no"])
done
fi
else
for ax_lib in $ax_boost_user_thread_lib boost_thread-$ax_boost_user_thread_lib; do
AC_CHECK_LIB($ax_lib, exit,
[BOOST_THREAD_LIB="-l$ax_lib"; AC_SUBST(BOOST_THREAD_LIB) link_thread="yes"; break],
[link_thread="no"])
done
fi
if test "x$ax_lib" = "x"; then
AC_MSG_ERROR(Could not find a version of the library!)
fi
if test "x$link_thread" = "xno"; then
AC_MSG_ERROR(Could not link against $ax_lib !)
else
case "x$build_os" in
*bsd* )
BOOST_LDFLAGS="-pthread $BOOST_LDFLAGS"
break;
;;
esac
fi
fi
CPPFLAGS="$CPPFLAGS_SAVED"
LDFLAGS="$LDFLAGS_SAVED"
fi
])
......@@ -710,7 +710,7 @@ public:
*
*/
inline void addVertex(V & vrt)
inline void addVertex(const V & vrt)
{
v.add(vrt);
......
......@@ -288,4 +288,39 @@ struct comb<0>
};
// create a specialization of std::vector<comb<0>>
namespace std
{
// On compiler previous 4.9.2 the code compile, and provide trivial functionality,
// (complex operations produce crash at runtime)
//
// On 4.9.2 does not even compile
// So we create a particular case that pass compilation give basic functionality, and
// crash in case of complex usage
//
//
template<>
class vector<comb<0>>
{
comb<0> * ptr;
public:
size_t size()
{
return 0;
}
comb<0> & operator[](size_t i)
{
return ptr[i];
}
void push_back(comb<0> & obj)
{
}
};
}
#endif
LINKLIBS = $(PTHREAD_LIBS) $(OPT_LIBS) $(BOOST_LDFLAGS) $(BOOST_PROGRAM_OPTIONS_LIB) $(CUDA_LIBS) $(BOOST_THREAD_LIB)
LINKLIBS = $(PTHREAD_LIBS) $(OPT_LIBS) $(BOOST_PROGRAM_OPTIONS_LIB) $(CUDA_LIBS) $(BOOST_IOSTREAMS_LIB)
if BUILDCUDA
CUDA_SOURCES=../../OpenFPM_devices/src/memory/CudaMemory.cu
......
......@@ -34,6 +34,8 @@ public:
//! boost fusion that store the point
typedef boost::fusion::vector<T[dim],T[dim]> type;
//! type of the box
typedef T btype;
//! layout that interleave the properties
typedef typename memory_traits_inte<type>::type memory_int;
//! layout with linear properties
......@@ -49,6 +51,8 @@ public:
//! Maximum number of properties
static const unsigned int max_prop = 2;
static const unsigned int dims = dim;
/*! \brief Intersect
*
* Intersect two boxes and return the result boxes, if the boxes does not intersect, return false
......
......@@ -185,6 +185,24 @@ template<unsigned int dim ,typename T> class Point
}
}
/*! \brief Return the string with the point coordinate
*
* \return the string
*
*/
std::string toString()
{
std::string str;
for (size_t i = 0 ; i < dim - 1 ; i++)
{
str += std::to_string(get(i)) + " ";
}
str += std::to_string(get(dim-1));
return str;
}
/*! \brief Point constructor from point
*
* \param p the point
......
......@@ -308,7 +308,7 @@ namespace openfpm
if (arg == 0)
{sz[0] = 1;}
else
{sz[0] = 2*arg;}
{sz[0] = arg;}
}
public:
......
......@@ -101,6 +101,14 @@ class memory
*/
virtual long int ref() = 0;
/*! \brief Return if the actual memory that is going to be allocated is already initialized
*
* \return true if already initialized
*
*/
virtual bool isInitialized() = 0;
};
#endif
......@@ -55,13 +55,20 @@ class memory_array
//! Default constructor
memory_array() {};
//! Constructor
memory_array(void * ptr, size_t sz)
/*! \brief Memory array constructor
*
* \param ptr Memory pointer
* \param sz size
* \param init specify if the pointer is initialized
*
*/
memory_array(void * ptr, size_t sz, bool init)
: ptr(static_cast<T *>(ptr))
{
// Initialize the constructors
// new (ptr)T[sz];
if (init == false)
new (ptr)T[sz];
};
};
......
......@@ -96,7 +96,7 @@ class memory_c
mem->resize( sz*sizeof(T) );
//! we create the representation for this buffer
mem_r = new memory_array<T>(mem->getPointer(),sz);
mem_r = new memory_array<T>(mem->getPointer(),sz,mem->isInitialized());
return true;
}
......
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