Add missing files

Makefile.am

-SUBDIRS = src
 
-bin_PROGRAMS = 
\ No newline at end of file
+LINKLIBS = $(PTHREAD_LIBS) $(OPT_LIBS) $(BOOST_LDFLAGS) $(BOOST_PROGRAM_OPTIONS_LIB) $(CUDA_LIBS) $(BOOST_THREAD_LIB)
+
+if BUILDCUDA
+ CUDA_SOURCES=memory/CudaMemory.cu
+else
+ CUDA_SOURCES=
+endif
+
+noinst_PROGRAMS = mem
+mem_SOURCES = main.cpp memory/HeapMemory.cpp $(CUDA_SOURCES) Memleak_check.cpp
+mem_CXXFLAGS = $(INCLUDES_PATH) $(BOOST_CPPFLAGS) -I/usr/local/include
+mem_CFLAGS = 
+mem_LDADD = $(LINKLIBS) -L/usr/lib64/nvidia-bumblebee/
+
+lib_LIBRARIES = libofpmmemory.a libofpmmemory_se2.a
+libofpmmemory_a_SOURCES = memory/HeapMemory.cpp $(CUDA_SOURCES) memory/PtrMemory.cpp Memleak_check.cpp
+libofpmmemory_a_CXXFLAGS = $(INCLUDES_PATH) $(BOOST_CPPFLAGS) -I/usr/local/include
+libofpmmemory_a_CFLAGS =
+
+libofpmmemory_se2_a_SOURCES = memory/HeapMemory.cpp $(CUDA_SOURCES) memory/PtrMemory.cpp Memleak_check.cpp
+libofpmmemory_se2_a_CXXFLAGS = $(INCLUDES_PATH) $(BOOST_CPPFLAGS) -I/usr/local/include -DSE_CLASS2
+libofpmmemory_se2_a_CFLAGS = 
+
+nobase_include_HEADERS = memory/ExtPreAlloc.hpp memory/HeapMemory.hpp memory/memory.hpp memory/PreAllocHeapMemory.hpp memory/PtrMemory.hpp \
+Memleak_check.hpp ptr_info.hpp \
+util/se_util.hpp
+
+.cu.o :
+	$(NVCC) $(NVCCFLAGS) -I. $(INCLUDES_PATH) -o $@ -c $<

Memleak_check.cpp

+#include "config.h"
+#include "Memleak_check.hpp"
+#include "ptr_info.hpp"
+
+// counter for allocation of new memory
+long int new_data;
+
+// counter to delete memory
+size_t delete_data;
+
+// structure that store all the active pointer
+std::map<byte_ptr, ptr_info> active_ptr;
+
+// Running process id
+long int process_v_cl;
+
+// Process to print
+long int process_to_print = 0;
+
+// A way to stop the color
+std::string col_stop("\e[0m");
+
+// Print a message when allocation with id==msg_on_alloc is performed
+long int msg_on_alloc = -1;
+
+// throw when allocation with id==throw_on_alloc is performed
+long int thr_on_alloc = -1;

Memleak_check.hpp

+#include "config.h"
+#include <iostream>
+#include <map>
+#include <iomanip>
+
+#ifndef MEMLEAK_CHECK_HPP
+#define MEMLEAK_CHECK_HPP
+
+typedef unsigned char * byte_ptr;
+
+#ifdef SE_CLASS2
+
+/////// POSSIBLE EVENTS /////////
+
+#define VCLUSTER_EVENT 0x2001
+
+#define VECTOR_EVENT 0x1102
+#define VECTOR_STD_EVENT 0x1101
+#define GRID_EVENT 0x1100
+
+#define VECTOR_DIST_EVENT 0x4002
+#define GRID_DIST_EVENT   0x4001
+
+#define HEAPMEMORY_EVENT 0x0100
+#define CUDAMEMORY_EVENT 0x0101
+
+/////////////////////////////////
+
+#include "util/se_util.hpp"
+#include "ptr_info.hpp"
+
+#define MEM_ERROR 1300lu
+
+extern long int msg_on_alloc;
+extern long int thr_on_alloc;
+extern std::string col_stop;
+extern long int new_data;
+extern size_t delete_data;
+
+extern std::map<byte_ptr,ptr_info> active_ptr;
+
+extern long int process_v_cl;
+extern long int process_to_print;
+
+/*! \brief Check and remove the active pointer
+ *
+ * Check and remove the pointer from the active list
+ *
+ * \param pointer to check and remove
+ *
+ * \return true if the operation succeded, false if the pointer does not exist
+ *
+ */
+static bool remove_ptr(const void * ptr)
+{
+	// Check if the pointer exist
+	std::map<byte_ptr, ptr_info>::iterator it = active_ptr.find((byte_ptr)ptr);
+
+	// if the element does not exist, print that something wrong happened and return
+	if ( it == active_ptr.end() )
+	{
+		std::cout << "Error " << __FILE__ << ":" << __LINE__ << " pointer not found " << ptr << "\n";
+		ACTION_ON_ERROR(MEM_ERROR);
+		return false;
+	}
+
+	// erase the pointer
+	active_ptr.erase((byte_ptr)ptr);
+
+	return true;
+}
+
+#define PRJ_DEVICES 0
+#define PRJ_DATA 1
+#define PRJ_VCLUSTER 2
+#define PRJ_IO 3
+#define PRJ_PDATA 4
+
+/*! \brief Get the color for printing unalloc pointers
+ *
+ * \param project_id id of the project
+ * \param size size of the allocation
+ * \param col color
+ *
+ */
+inline static void get_color(size_t project_id, size_t size, std::string & col)
+{
+	if (size == 8)
+	{
+		switch (project_id)
+		{
+		case PRJ_DEVICES:
+			col = std::string("\e[97m");
+			break;
+		case PRJ_DATA:
+			col = std::string("\e[95m");
+			break;
+		case PRJ_VCLUSTER:
+			col = std::string("\e[96m");
+			break;
+		case PRJ_IO:
+			col = std::string("\e[97m");
+			break;
+		case PRJ_PDATA:
+			col = std::string("\e[93m");
+			break;
+		}
+	}
+	else
+	{
+		switch (project_id)
+		{
+		case PRJ_DEVICES:
+			col = std::string("\e[7;92m");
+			break;
+		case PRJ_DATA:
+			col = std::string("\e[7;95m");
+			break;
+		case PRJ_VCLUSTER:
+			col = std::string("\e[7;96m");
+			break;
+		case PRJ_IO:
+			col = std::string("\e[7;97m");
+			break;
+		case PRJ_PDATA:
+			col = std::string("\e[7;93m");
+			break;
+		}
+	}
+}
+
+/*! \brief Given the structure id it convert to a human readable structure string
+ *
+ * \param project_id id of the project
+ * \param prj string that identify the project
+ *
+ */
+inline static void get_structure(size_t struct_id, std::string & str)
+{
+	switch (struct_id)
+	{
+		case VCLUSTER_EVENT:
+			str = std::string("Vcluster");
+			break;
+		case VECTOR_STD_EVENT:
+			str = std::string("Vector_std");
+			break;
+		case VECTOR_EVENT:
+			str = std::string("Vector_native");
+			break;
+		case GRID_EVENT:
+			str = std::string("Grid");
+			break;
+		case VECTOR_DIST_EVENT:
+			str = std::string("Vector distributed");
+			break;
+		case GRID_DIST_EVENT:
+			str = std::string("Grid distributed");
+			break;
+		case HEAPMEMORY_EVENT:
+			str = std::string("HeapMemory");
+			break;
+		case CUDAMEMORY_EVENT:
+			str = std::string("CudaMemory");
+			break;
+		default:
+			str = std::to_string(struct_id);
+	}
+}
+
+
+/*! \brief Given the project id it convert to a human readable project string
+ *
+ * \param project_id id of the project
+ * \param prj string that identify the project
+ *
+ */
+inline static void get_project(size_t project_id, std::string & prj)
+{
+	switch (project_id)
+	{
+	case PRJ_DEVICES:
+		prj = std::string("devices");
+		break;
+	case PRJ_DATA:
+		prj = std::string("data");
+		break;
+	case PRJ_VCLUSTER:
+		prj = std::string("vcluster");
+		break;
+	case PRJ_IO:
+		prj = std::string("io");
+		break;
+	case PRJ_PDATA:
+		prj = std::string("pdata");
+		break;
+	}
+}
+
+/*! \brief Print all active structures
+ *
+ * Print all active structures
+ *
+ */
+static void print_alloc()
+{
+	std::string col;
+	std::string sid;
+	std::string prj;
+
+	for (std::map<byte_ptr,ptr_info>::iterator it = active_ptr.begin(); it != active_ptr.end(); ++it)
+	{
+		get_color(it->second.project_id,it->second.size,col);
+		get_structure(it->second.struct_id,sid);
+		get_project(it->second.project_id,prj);
+
+		std::cout << col << "Allocated memory " << (void *)it->first << "     size=" << it->second.size << "     id=" << it->second.id << "     structure id=" << std::hex <<  sid << std::dec << "    project id=" << prj << col_stop << "\n";
+	}
+}
+
+/* \brief When the allocation id==break_id is performed, print a message
+ *
+ * \param break_id
+ *
+ */
+static void message_on_alloc(long int break_id)
+{
+	msg_on_alloc = break_id;
+}
+
+/* \brief When the allocation id==break_id is performed, throw
+ *
+ * \param throw_id
+ *
+ */
+static void throw_on_alloc(long int throw_id)
+{
+	thr_on_alloc = throw_id;
+}
+
+/*! \brief Add the new allocated active pointer
+ *
+ * Add the new allocated active pointer
+ *
+ * \param new data active pointer
+ * \param sz size of the new allocated memory
+ *
+ */
+static bool check_new(const void * data, size_t sz, size_t struct_id, size_t project_id)
+{
+	// Add a new pointer
+	new_data++;
+	ptr_info & ptr = active_ptr[(byte_ptr)data];
+	ptr.size = sz;
+	ptr.id = new_data;
+	ptr.struct_id = struct_id;
+	ptr.project_id = project_id;
+
+#ifdef SE_CLASS2_VERBOSE
+	if (process_to_print < 0 || process_to_print == process_v_cl)
+		std::cout << "New data: " << new_data << "   " << data << "\n";
+#endif
+
+	if  (msg_on_alloc == new_data)
+		std::cout << "Detected allocation: " << __FILE__ << ":" << __LINE__ << " id=" << msg_on_alloc << "\n";
+
+	if (thr_on_alloc == new_data)
+		throw MEM_ERROR;
+
+	return true;
+}
+
+/*! \brief check and delete a pointer
+ *
+ * check and delete a pointer from the list of active pointers
+ *
+ * \param pointer data
+ * \return true if the operation to delete succeed
+ *
+ */
+static bool check_delete(const void * data)
+{
+	if (data == NULL)	return true;
+	// Delete the pointer
+	delete_data++;
+	bool result = remove_ptr(data);
+
+#ifdef SE_CLASS2_VERBOSE
+	if (process_to_print < 0 || process_to_print == process_v_cl)
+		std::cout << "Delete data: " << delete_data << "   " << data << "\n";
+#endif
+
+	return result;
+}
+
+/*! \brief check if the access is valid
+ *
+ * check if the access is valid
+ *
+ * \param ptr pointer we are going to access
+ * \param size_access is the size in byte of the data we are fetching
+ *
+ * \return true if the pointer is valid
+ *
+ */
+static bool check_valid(const void * ptr, size_t size_access)
+{
+	if (active_ptr.size() == 0)
+	{
+		std::cerr << "Error invalid pointer: " << __FILE__ << ":" << __LINE__ << "  " << ptr << "\n";
+		ACTION_ON_ERROR(MEM_ERROR);
+		return false;
+	}
+
+	// get the upper bound
+
+	std::map<byte_ptr, ptr_info>::iterator l_b = active_ptr.upper_bound((byte_ptr)ptr);
+
+	// if there is no memory that satisfy the request
+	if (l_b == active_ptr.begin())
+	{
+		if (process_to_print < 0 || process_to_print == process_v_cl)
+		{
+			std::cerr << "Error invalid pointer: " << __FILE__ << ":" << __LINE__ << "  " << ptr << "   base allocation id=" << l_b->second.id << "\n";
+			ACTION_ON_ERROR(MEM_ERROR);
+		}
+		return false;
+	}
+
+	//! subtract one
+	l_b--;
+
+	// if there is no memory that satisfy the request
+	if (l_b == active_ptr.end())
+	{
+		if (process_to_print < 0 || process_to_print == process_v_cl)
+		{
+			std::cerr << "Error invalid pointer: " << __FILE__ << ":" << __LINE__ << "  " << ptr << "   base allocation id=" << l_b->second.id  << "\n";
+			ACTION_ON_ERROR(MEM_ERROR);
+		}
+		return false;
+	}
+
+	// check if ptr is in the range
+
+	size_t sz = l_b->second.size;
+
+	if (((unsigned char *)l_b->first) + sz < ((unsigned char *)ptr) + size_access)
+	{
+		if (process_to_print < 0 || process_to_print == process_v_cl)
+		{
+			std::cerr << "Error invalid pointer: " << __FILE__ << ":" << __LINE__ << "  "  << ptr << "   base allocation id=" << l_b->second.id << "\n";
+			ACTION_ON_ERROR(MEM_ERROR);
+		}
+		return false;
+	}
+
+	return true;
+}
+
+
+/*! \brief check if the access is valid
+ *
+ * check if the access is valid
+ *
+ * \param ptr pointer we are going to access
+ * \param size_access is the size in byte of the data we are fetching
+ *
+ * \return true if the pointer is valid
+ *
+ */
+static long int check_whoami(const void * ptr, size_t size_access)
+{
+	if (active_ptr.size() == 0)
+		return -1;
+
+	// get the upper bound
+
+	std::map<byte_ptr, ptr_info>::iterator l_b = active_ptr.upper_bound((byte_ptr)ptr);
+
+	// if there is no memory that satisfy the request
+	if (l_b == active_ptr.begin())
+		return -1;
+
+	//! subtract one
+	l_b--;
+
+	// if there is no memory that satisfy the request
+	if (l_b == active_ptr.end())
+		return -1;
+
+	// check if ptr is in the range
+
+	size_t sz = l_b->second.size;
+
+	if (((unsigned char *)l_b->first) + sz < ((unsigned char *)ptr) + size_access)
+		return -1;
+
+	return l_b->second.id;
+}
+
+/*! \brief In case of Parallel application it set the process that print the
+ *
+ * \param p_to_print is < 0 (Mean all)
+ *
+ */
+static void set_process_to_print(long int p_to_print)
+{
+	process_to_print = p_to_print;
+}
+
+#else
+
+
+
+#endif
+#endif

cuda_macro.h

+/*
+ * cuda_macro.h
+ *
+ *  Created on: Aug 17, 2014
+ *      Author: Pietro Incardona
+ */
+
+#include <iostream>
+
+#define CUDA_SAFE_CALL(call) {\
+	cudaError_t err = call;\
+	if (cudaSuccess != err) {\
+		std::cerr << "Cuda error in file "<< __FILE__ << " in line " << __LINE__ <<  ": " << cudaGetErrorString(err);\
+	}\
+}
+
+

main.cpp

+#include <iostream>
+
+#include "config.h"
+#define BOOST_TEST_MODULE "C++ test module for OpenFPM_data project"
+#include <boost/test/included/unit_test.hpp>
+
+#include "memory/HeapMemory_unit_tests.hpp"
+

ptr_info.hpp

+/*
+ * ptr_info.hpp
+ *
+ *  Created on: Nov 19, 2015
+ *      Author: i-bird
+ */
+
+#ifndef OPENFPM_DEVICES_SRC_PTR_INFO_HPP_
+#define OPENFPM_DEVICES_SRC_PTR_INFO_HPP_
+
+
+struct ptr_info
+{
+	size_t id;
+	size_t struct_id;
+	size_t project_id;
+	size_t size;
+};
+
+
+#endif /* OPENFPM_DEVICES_SRC_PTR_INFO_HPP_ */