* Please see README: Installation for help in building BamTools toolkit & API and integrating the new shared library into your application
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# top-level
+# ==========================
+
+# set project name
+project (BamTools)
+
+# Cmake requirements
+cmake_minimum_required (VERSION 2.6.4)
+
+# Force the build directory to be different from source directory
+macro (ENSURE_OUT_OF_SOURCE_BUILD MSG)
+ string (COMPARE EQUAL "${CMAKE_SOURCE_DIR}" "${CMAKE_BINARY_DIR}" insource)
+ get_filename_component (PARENTDIR ${CMAKE_SOURCE_DIR} PATH)
+ string (COMPARE EQUAL "${CMAKE_SOURCE_DIR}" "${PARENTDIR}" insourcesubdir)
+ IF (insource OR insourcesubdir)
+ message (FATAL_ERROR "${MSG}")
+ ENDIF (insource OR insourcesubdir)
+endmacro (ENSURE_OUT_OF_SOURCE_BUILD)
+
+ensure_out_of_source_build ("
+ ${PROJECT_NAME} requires an out of source build.
+ $ mkdir build
+ $ cd build
+ $ cmake ..
+ $ make
+(or the Windows equivalent)\n")
+
+# set BamTools version information
+set (BamTools_VERSION_MAJOR 0)
+set (BamTools_VERSION_MINOR 9)
+set (BamTools_VERSION_BUILD 0)
+
+# set our library and executable destination dirs
+set (EXECUTABLE_OUTPUT_PATH "${CMAKE_SOURCE_DIR}/bin")
+set (LIBRARY_OUTPUT_PATH "${CMAKE_SOURCE_DIR}/lib")
+
+# define compiler flags for all code
+add_definitions (-Wall -O3 -D_FILE_OFFSET_BITS=64)
+
+# add our includes root path
+include_directories (src)
+
+# list subdirectories to build in
+add_subdirectory (src)
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# top-level
-# ==========================
-
-# define current BamTools version
-BT_MAJOR_VER = 0
-BT_MINOR_VER = 8
-BT_BUILD_VER = 1025
-export BT_VERSION = $(BT_MAJOR_VER).$(BT_MINOR_VER).$(BT_BUILD_VER)
-
-# define main directories
-export OBJ_DIR = obj
-export BIN_DIR = bin
-export SRC_DIR = src
-
-# define compile/link flags
-export CXX = g++
-export CXXFLAGS = -Wall -O3 -D_FILE_OFFSET_BITS=64 -DBT_VERSION=$(BT_VERSION)
-export LIBS = -lz
-
-# define source subdirectories
-SUBDIRS = $(SRC_DIR)/api \
- $(SRC_DIR)/utils \
- $(SRC_DIR)/third_party \
- $(SRC_DIR)/toolkit
-
-all:
- @echo "Building BamTools:"
- @echo "Version: $$BT_VERSION"
- @echo "========================================================="
- @echo ""
- @echo "- Creating target directories"
- @mkdir -p $(BIN_DIR)
- @mkdir -p $(OBJ_DIR)
- @echo ""
- @for dir in $(SUBDIRS); do \
- echo "- Building in $$dir"; \
- $(MAKE) --no-print-directory -C $$dir; \
- echo ""; \
- done
-
-.PHONY: all
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
a. The API
b. The Toolkit
-II. Usage
+II. Installation
+
+III. Usage
a. The API
b. The Toolkit
-III. License
+IV. License
-IV. Acknowledgements
+V. Acknowledgements
-V. Contact
+VI. Contact
--------------------------------------------------------------------------------
I. Introduction:
See 'bamtools help COMMAND' for more information on a specific command.
--------------------------------------------------------------------------------
-II. Usage :
+II. Installation :
+--------------------------------------------------------------------------------
+
+----------------------------------------
+IIa. Get CMake
+----------------------------------------
+
+BamTools has been migrated to a CMake-based build system. We believe that this
+should simplify the build process across all platforms, especially as the
+BamTools API moves into a shared library (that you link to instead of compiling
+lots of source files directly into your application). CMake is available on all
+major platforms, and indeed comes *out-of-the-box* with many Linux distributions.
+
+To see if you have CMake (and which version), try this command:
+
+ $ cmake --version
+
+BamTools requires CMake version >= 2.6.4. If you are missing CMake or have an
+older version, check your OS package manager (for Linux) or download it here:
+http://www.cmake.org/cmake/resources/software.html .
+
+----------------------------------------
+IIb. Build BamTools
+----------------------------------------
+
+Ok, now that you have CMake ready to go, let's build BamTools. A good
+practice in building applications is to do an out-of-source build, meaning
+that we're going to set up an isolated place to hold all the intermediate
+installation steps.
+
+In the top-level directory of BamTools, type the following commands:
+
+ $ mkdir build
+ $ cd build
+ $ cmake ..
+
+Windows users:
+This creates a Visual Studio solution file, which can then be built to create
+the toolkit executable and API DLL's.
+
+Everybody else:
+After running cmake, just run:
+
+ $ make
+
+Then go back up to the BamTools root directory.
+
+ $ cd ..
+
+----------------------------------------
+IIIb. Check It
+----------------------------------------
+
+Assuming the build process finished correctly, you should be able to find the
+toolkit executable here:
+
+ ./bin/
+
+The BamTools-associated libraries will be found here:
+
+ ./lib/
+
+--------------------------------------------------------------------------------
+III. Usage :
--------------------------------------------------------------------------------
** General usage information - perhaps explain common terms, point to SAM/BAM
spec, etc **
----------------------------------------
-IIa. The API
+IIIa. The API
----------------------------------------
The API, as noted above, contains 2 main modules - BamReader & BamWriter - for
To use this API in your application, you simply need to do 3 things:
- 1 - Drop the BamTools API files somewhere the compiler can find them.
+ 1 - Build the BamTools library (see Installation steps above).
2 - Import BamTools API with the following lines of code
#include "BamReader.h" // (or "BamMultiReader.h") as needed
using namespace BamTools; // all of BamTools classes/methods live in
// this namespace
- 3 - Link with '-lz' ('l' as in Lima) to access ZLIB compression library
- (For MSVC users, I can provide you modified zlib headers - just contact
- me if needed).
+ 3 - Link with '-lbamtools' ('l' as in Lima).
+
+You may need to modify the -L flag (library path) as well to help your linker
+find the (BAMTOOLS_ROOT)/lib directory.
+
+See any included programs for more detailed usage examples. See comments in the
+header files for more detailed API documentation.
-See any included programs and Makefile for more specific compiling/usage
-examples. See comments in the header files for more detailed API documentation.
+Note - For users that don't want to bother with the new BamTools shared library
+scheme: you are certainly free to just compile the API source code directly into
+your application, but be aware that the files involved are subject to change.
+Meaning that filenames, number of files, etc. are not fixed. You will also need
+to be sure to link with '-lz' for ZLIB functionality (linking with '-lbamtools'
+gives you this automatically).
----------------------------------------
-IIb. The Toolkit
+IIIb. The Toolkit
----------------------------------------
BamTools provides a small, but powerful suite of command-line utility programs
--help, -h shows this help text
--------------------------------------------------------------------------------
-III. License :
+IV. License :
--------------------------------------------------------------------------------
Both the BamTools API and toolkit are released under the MIT License.
See included file LICENSE for details.
--------------------------------------------------------------------------------
-IV. Acknowledgements :
+V. Acknowledgements :
--------------------------------------------------------------------------------
* Aaron Quinlan for several key feature ideas and bug fix contributions
* Heng Li, author of SAMtools - the original C-language BAM API/toolkit.
--------------------------------------------------------------------------------
-V. Contact :
+VI. Contact :
--------------------------------------------------------------------------------
Feel free to contact me with any questions, comments, suggestions, bug reports,
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/
+# ==========================
+
+add_subdirectory (api)
+add_subdirectory (utils)
+add_subdirectory (third_party)
+add_subdirectory (toolkit)
+
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/api/
+# ==========================
+
+# list include paths
+include_directories ( ${BamTools_SOURCE_DIR}/src/shared )
+
+# add compiler definitions
+add_definitions(-DBAMTOOLS_API_LIBRARY) # (for proper exporting of library symbols)
+
+# create main BamTools API library
+add_library ( BamTools SHARED
+ BamAlignment.cpp
+ BamIndex.cpp
+ BamMultiReader.cpp
+ BamReader.cpp
+ BamWriter.cpp
+ BGZF.cpp
+ )
+
+# link BamTools library with zlib automatically
+target_link_libraries ( BamTools z )
+
+# set BamTools library properties
+set_target_properties( BamTools PROPERTIES
+ SOVERSION 0.9.0
+ OUTPUT_NAME bamtools
+ )
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# src/api
-# ==========================
-
-OBJ_DIR = ../../obj
-BIN_DIR = ../../bin
-
-# ----------------------------------
-# define our source and object files
-# ----------------------------------
-SOURCES = BGZF.cpp \
- BamAlignment.cpp \
- BamIndex.cpp \
- BamReader.cpp \
- BamMultiReader.cpp \
- BamWriter.cpp
-OBJECTS= $(SOURCES:.cpp=.o)
-BUILT_OBJECTS= $(patsubst %,$(OBJ_DIR)/%,$(OBJECTS))
-
-all: $(BUILT_OBJECTS)
-
-$(BUILT_OBJECTS): $(SOURCES)
- @echo " * compiling" $(*F).cpp
- @$(CXX) -c -o $@ $(*F).cpp $(LDFLAGS) $(CXXFLAGS) $(INCLUDES)
-
-.PHONY: all
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
--- /dev/null
+// ***************************************************************************
+// api_global.h (c) 2010 Derek Barnett
+// Marth Lab, Department of Biology, Boston College
+// All rights reserved.
+// ---------------------------------------------------------------------------
+// Last modified: 19 November 2010 (DB)
+// ---------------------------------------------------------------------------
+// Provides macros for exporting & importing BamTools API library symbols
+// ***************************************************************************
+
+#ifndef API_GLOBAL_H
+#define API_GLOBAL_H
+
+#include "shared/bamtools_global.h"
+
+#ifdef BAMTOOLS_API_LIBRARY
+# define API_EXPORT BAMTOOLS_LIBRARY_EXPORT
+#else
+# define API_EXPORT BAMTOOLS_LIBRARY_IMPORT
+#endif
+
+#endif // API_GLOBAL_H
--- /dev/null
+// ***************************************************************************
+// bamtools_global.h (c) 2010 Derek Barnett
+// Marth Lab, Department of Biology, Boston College
+// All rights reserved.
+// ---------------------------------------------------------------------------
+// Last modified: 19 November 2010 (DB)
+// ---------------------------------------------------------------------------
+// Provides the basic definitions for exporting & importing library symbols
+// ***************************************************************************
+
+#ifndef BAMTOOLS_GLOBAL_H
+#define BAMTOOLS_GLOBAL_H
+
+// BAMTOOLS_LIBRARY_EXPORT
+#ifndef BAMTOOLS_LIBRARY_EXPORT
+# if defined(WIN32)
+# define BAMTOOLS_LIBRARY_EXPORT __declspec(dllexport)
+# else
+# define BAMTOOLS_LIBRARY_EXPORT __attribute__((visibility("default")))
+# endif
+#endif // BAMTOOLS_LIBRARY_EXPORT
+
+// BAMTOOLS_LIBRARY_IMPORT
+#ifndef BAMTOOLS_LIBRARY_IMPORT
+# if defined(WIN32)
+# define BAMTOOLS_LIBRARY_IMPORT __declspec(dllimport)
+# else
+# define BAMTOOLS_LIBRARY_IMPORT
+# endif
+#endif // BAMTOOLS_LIBRARY_IMPORT
+
+#endif // BAMTOOLS_GLOBAL_H
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/third-party/
+# ==========================
+
+# list third-party subdirectories to build in
+add_subdirectory (jsoncpp)
+
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# src/third_party
-# ==========================
-
-OBJ_DIR = ../../obj
-BIN_DIR = ../../bin
-SRC_DIR =
-
-# define source subdirectories
-SUBDIRS = jsoncpp
-
-all:
- @for dir in $(SUBDIRS); do \
- echo "- Building in $$dir"; \
- $(MAKE) --no-print-directory -C $$dir; \
- echo ""; \
- done
-
-.PHONY: all
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/third-party/jsoncpp
+# ==========================
+
+# add compiler definitions
+#add_definitions(-DJSONCPP_LIBRARY) # (for proper exporting of library symbols)
+
+# create jsoncpp library
+add_library ( jsoncpp SHARED
+ json_reader.cpp
+ json_value.cpp
+ json_writer.cpp
+ )
+
+# set jsoncpp library properties
+set_target_properties( jsoncpp PROPERTIES
+ SOVERSION 1.0.0
+ OUTPUT_NAME jsoncpp
+ )
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# src/third_party/jsoncpp
-# ==========================
-
-OBJ_DIR = ../../../obj
-BIN_DIR = ../../../bin
-
-# ----------------------------------
-# define our source and object files
-# ----------------------------------
-SOURCES = json_reader.cpp \
- json_value.cpp \
- json_writer.cpp
-OBJECTS= $(SOURCES:.cpp=.o)
-BUILT_OBJECTS= $(patsubst %,$(OBJ_DIR)/%,$(OBJECTS))
-
-all: $(BUILT_OBJECTS)
-
-$(BUILT_OBJECTS): $(SOURCES)
- @echo " * compiling" $(*F).cpp
- @$(CXX) -c -o $@ $(*F).cpp $(LDFLAGS) $(CXXFLAGS) $(INCLUDES)
-
-.PHONY: all
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
// See file LICENSE for detail or copy at http://jsoncpp.sourceforge.net/LICENSE
#ifndef JSON_CONFIG_H_INCLUDED
-# define JSON_CONFIG_H_INCLUDED
+#define JSON_CONFIG_H_INCLUDED
-/// If defined, indicates that json library is embedded in CppTL library.
-//# define JSON_IN_CPPTL 1
+// Last Modified: Derek Barnett, 19 November 2010
-/// If defined, indicates that json may leverage CppTL library
-//# define JSON_USE_CPPTL 1
-/// If defined, indicates that cpptl vector based map should be used instead of std::map
-/// as Value container.
-//# define JSON_USE_CPPTL_SMALLMAP 1
-/// If defined, indicates that Json specific container should be used
-/// (hash table & simple deque container with customizable allocator).
-/// THIS FEATURE IS STILL EXPERIMENTAL!
-//# define JSON_VALUE_USE_INTERNAL_MAP 1
-/// Force usage of standard new/malloc based allocator instead of memory pool based allocator.
-/// The memory pools allocator used optimization (initializing Value and ValueInternalLink
-/// as if it was a POD) that may cause some validation tool to report errors.
-/// Only has effects if JSON_VALUE_USE_INTERNAL_MAP is defined.
-//# define JSON_USE_SIMPLE_INTERNAL_ALLOCATOR 1
-
-/// If defined, indicates that Json use exception to report invalid type manipulation
-/// instead of C assert macro.
-# define JSON_USE_EXCEPTION 1
-
-# ifdef JSON_IN_CPPTL
-# include <cpptl/config.h>
-# ifndef JSON_USE_CPPTL
-# define JSON_USE_CPPTL 1
-# endif
-# endif
-
-# ifdef JSON_IN_CPPTL
-# define JSON_API CPPTL_API
-# elif defined(JSON_DLL_BUILD)
-# define JSON_API __declspec(dllexport)
-# elif defined(JSON_DLL)
-# define JSON_API __declspec(dllimport)
-# else
-# define JSON_API
-# endif
-
-// If JSON_NO_INT64 is defined, then Json only support C++ "int" type for integer
-// Storages.
-// #define JSON_NO_INT64 1
+#include "shared/bamtools_global.h"
+#ifdef BAMTOOLS_JSONCPP_LIBRARY
+# define JSON_API BAMTOOLS_LIBRARY_EXPORT
+#else
+# define JSON_API BAMTOOLS_LIBRARY_IMPORT
+#endif
#if defined(_MSC_VER) && _MSC_VER <= 1200 // MSVC 6
// Microsoft Visual Studio 6 only support conversion from __int64 to double
// (no conversion from unsigned __int64).
-#define JSON_USE_INT64_DOUBLE_CONVERSION 1
+# define JSON_USE_INT64_DOUBLE_CONVERSION 1
#endif // if defined(_MSC_VER) && _MSC_VER < 1200 // MSVC 6
-
namespace Json {
-# if defined(JSON_NO_INT64)
+
+#if defined(JSON_NO_INT64)
typedef int Int;
typedef unsigned int UInt;
-# else // if defined(JSON_NO_INT64)
+#else // if defined(JSON_NO_INT64)
// For Microsoft Visual use specific types as long long is not supported
# if defined(_MSC_VER) // Microsoft Visual Studio
- typedef __int64 Int;
- typedef unsigned __int64 UInt;
+ typedef __int64 Int;
+ typedef unsigned __int64 UInt;
# else // if defined(_MSC_VER) // Other platforms, use long long
- typedef long long int Int;
- typedef unsigned long long int UInt;
+ typedef long long int Int;
+ typedef unsigned long long int UInt;
# endif // if defined(_MSC_VER)
-# endif // if defined(JSON_NO_INT64)
-} // end namespace Json
+#endif // if defined(JSON_NO_INT64)
+} // end namespace Json
#endif // JSON_CONFIG_H_INCLUDED
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/toolkit
+# ==========================
+
+# set include path
+include_directories ( ${BamTools_SOURCE_DIR}/src/api
+ ${BamTools_SOURCE_DIR}/src/utils
+ ${BamTools_SOURCE_DIR}/src/third_party
+ )
+
+# compile main bamtools application
+add_executable ( bamtools
+ bamtools_convert.cpp
+ bamtools_count.cpp
+ bamtools_coverage.cpp
+ bamtools_filter.cpp
+ bamtools_header.cpp
+ bamtools_index.cpp
+ bamtools_merge.cpp
+ bamtools_random.cpp
+ bamtools_sort.cpp
+ bamtools_split.cpp
+ bamtools_stats.cpp
+ bamtools.cpp
+ )
+
+# set BamTools application properties
+set_target_properties( BamTools PROPERTIES
+ VERSION 0.9.0
+ )
+# make version info available in application
+configure_file(bamtools_version.h.in ${BamTools_SOURCE_DIR}/src/toolkit/bamtools_version.h)
+
+# define libraries to link
+target_link_libraries ( bamtools BamTools BamTools-utils jsoncpp )
+
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# src/toolkit
-# ==========================
-
-API_DIR = ../api
-UTILS_DIR = ../utils
-OBJ_DIR = ../../obj
-BIN_DIR = ../../bin
-THIRD_PARTY_DIR = ../third_party
-
-INCLUDES = -I$(API_DIR)/ -I$(UTILS_DIR) -I$(THIRD_PARTY_DIR)
-
-# ----------------------------------
-# define our source and object files
-# ----------------------------------
-SOURCES = bamtools_convert.cpp \
- bamtools_count.cpp \
- bamtools_coverage.cpp \
- bamtools_filter.cpp \
- bamtools_header.cpp \
- bamtools_index.cpp \
- bamtools_merge.cpp \
- bamtools_random.cpp \
- bamtools_sort.cpp \
- bamtools_split.cpp \
- bamtools_stats.cpp \
- bamtools.cpp
-OBJECTS= $(SOURCES:.cpp=.o)
-BUILT_OBJECTS= $(patsubst %,$(OBJ_DIR)/%,$(OBJECTS))
-EXT_OBJECTS = $(OBJ_DIR)/*.o
-PROGRAM = bamtools
-
-all: $(PROGRAM)
-
-.PHONY: all
-
-$(PROGRAM): $(BUILT_OBJECTS) $(EXT_OBJECTS)
- @echo " * linking $(PROGRAM)"
- @$(CXX) $(LDFLAGS) $(CXXFLAGS) -o $(BIN_DIR)/$@ $^ $(LIBS)
-
-$(BUILT_OBJECTS): $(SOURCES)
- @echo " * compiling" $(*F).cpp
- @$(CXX) -c -o $@ $(*F).cpp $(LDFLAGS) $(CXXFLAGS) $(INCLUDES)
-
-$(EXT_OBJECTS):
- @$(MAKE) --no-print-directory -C $(API_DIR) $(UTILS_DIR)
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
--- /dev/null
+// ***************************************************************************
+// bamtools_version.h.in (c) 2010 Derek Barnett
+// Marth Lab, Department of Biology, Boston College
+// All rights reserved.
+// ---------------------------------------------------------------------------
+// Last modified: 19 November 2010 (DB)
+// ---------------------------------------------------------------------------
+// Provides version information for the BamTools toolkit.
+// ***************************************************************************
+
+#ifndef BAMTOOLS_VERSION_H
+#define BAMTOOLS_VERSION_H
+
+// CMake uses this file as a template to generate "bamtools_version.h".
+// These constants are defined to match the variables set in the build system.
+#define BAMTOOLS_VERSION_MAJOR @BamTools_VERSION_MAJOR@
+#define BAMTOOLS_VERSION_MINOR @BamTools_VERSION_MINOR@
+#define BAMTOOLS_VERSION_BUILD @BamTools_VERSION_BUILD@
+
+#endif // BAMTOOLS_VERSION_H
+
--- /dev/null
+# ==========================
+# BamTools CMakeLists.txt
+# (c) 2010 Derek Barnett
+#
+# src/utils/
+# ==========================
+
+# list include paths
+include_directories (${BamTools_SOURCE_DIR}/src/api)
+
+# add compiler definitions
+#add_definitions(-DBAMTOOLS_UTILS_LIBRARY) # (for proper exporting of library symbols)
+
+# create BamTools utils library
+add_library ( BamTools-utils SHARED
+ bamtools_fasta.cpp
+ bamtools_options.cpp
+ bamtools_pileup_engine.cpp
+ bamtools_utilities.cpp
+ )
+
+# link BamTools-utils library with BamTools automatically
+target_link_libraries ( BamTools-utils BamTools )
+
+# set BamTools library properties
+set_target_properties( BamTools-utils PROPERTIES
+ SOVERSION 0.9.0
+ OUTPUT_NAME bamtools-utils
+ )
+++ /dev/null
-# ==========================
-# BamTools Makefile
-# (c) 2010 Derek Barnett
-#
-# src/utils
-# ==========================
-
-API_DIR = ../api
-OBJ_DIR = ../../obj
-BIN_DIR = ../../bin
-
-INCLUDES = -I$(API_DIR)/
-
-# ----------------------------------
-# define our source and object files
-# ----------------------------------
-SOURCES = bamtools_fasta.cpp \
- bamtools_options.cpp \
- bamtools_pileup_engine.cpp \
- bamtools_utilities.cpp
-OBJECTS= $(SOURCES:.cpp=.o)
-BUILT_OBJECTS= $(patsubst %,$(OBJ_DIR)/%,$(OBJECTS))
-
-all: $(BUILT_OBJECTS)
-
-$(BUILT_OBJECTS): $(SOURCES)
- @echo " * compiling" $(*F).cpp
- @$(CXX) -c -o $@ $(*F).cpp $(LDFLAGS) $(CXXFLAGS) $(INCLUDES)
-
-.PHONY: all
-
-clean:
- @echo "Cleaning up."
- @rm -f $(OBJ_DIR)/* $(BIN_DIR)/*
-
-.PHONY: clean
--- /dev/null
+// ***************************************************************************
+// utils_global.h (c) 2010 Derek Barnett
+// Marth Lab, Department of Biology, Boston College
+// All rights reserved.
+// ---------------------------------------------------------------------------
+// Last modified: 19 November 2010 (DB)
+// ---------------------------------------------------------------------------
+// Provides macros for exporting & importing BamTools-utils library symbols
+// ***************************************************************************
+
+#ifndef UTILS_GLOBAL_H
+#define UTILS_GLOBAL_H
+
+#include "shared/bamtools_global.h"
+
+#ifdef BAMTOOLS_UTILS_LIBRARY
+# define UTILS_EXPORT BAMTOOLS_LIBRARY_EXPORT
+#else
+# define UTILS_EXPORT BAMTOOLS_LIBRARY_IMPORT
+#endif
+
+#endif // UTILS_GLOBAL_H
projects / bamtools.git / commitdiff