# add compiler definitions
add_definitions( -DBAMTOOLS_API_LIBRARY ) # (for proper exporting of library symbols)
+add_definitions( -fPIC ) # (attempt to force PIC compiling on CentOS, not being set on shared libs by CMake)
-# create main BamTools API library
-add_library( BamTools SHARED
- BamAlignment.cpp
- BamIndex.cpp
- BamMultiReader.cpp
- BamReader.cpp
- BamWriter.cpp
- BGZF.cpp
- internal/BamReader_p.cpp
- internal/BamStandardIndex_p.cpp
- internal/BamToolsIndex_p.cpp
- internal/BamWriter_p.cpp
- )
-
-# link BamTools library with zlib automatically
-target_link_libraries( BamTools z )
-
-# set BamTools library properties
+# fetch all internal source files
+add_subdirectory ( internal )
+
+# make list of all API source files
+set( BamToolsAPISources
+ BamAlignment.cpp
+ BamMultiReader.cpp
+ BamReader.cpp
+ BamWriter.cpp
+ SamHeader.cpp
+ SamProgram.cpp
+ SamProgramChain.cpp
+ SamReadGroup.cpp
+ SamReadGroupDictionary.cpp
+ SamSequence.cpp
+ SamSequenceDictionary.cpp
+ ${InternalSources}
+)
+
+# create main BamTools API shared library
+add_library( BamTools SHARED ${BamToolsAPISources} )
set_target_properties( BamTools PROPERTIES
- SOVERSION 0.9.0
- OUTPUT_NAME bamtools
- )
+ SOVERSION "2.1.0"
+ OUTPUT_NAME "bamtools" )
+
+# create main BamTools API static library
+add_library( BamTools-static STATIC ${BamToolsAPISources} )
+set_target_properties( BamTools-static PROPERTIES
+ OUTPUT_NAME "bamtools"
+ PREFIX "lib" )
-install( TARGETS BamTools LIBRARY DESTINATION "lib/bamtools")
+# link libraries automatically with zlib (and Winsock2, if applicable)
+if( _WIN32 )
+ set( APILibs z ws2_32 )
+else( _WIN32 )
+ set( APILibs z )
+endif( _WIN32 )
+
+target_link_libraries( BamTools ${APILibs} )
+target_link_libraries( BamTools-static ${APILibs} )
+
+# set library install destinations
+install( TARGETS BamTools LIBRARY DESTINATION "lib/bamtools" RUNTIME DESTINATION "bin")
+install( TARGETS BamTools-static ARCHIVE DESTINATION "lib/bamtools")
# export API headers
include(../ExportHeader.cmake)
set(ApiIncludeDir "api")
-ExportHeader(APIHeaders api_global.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamAlignment.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamAux.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamIndex.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamMultiReader.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamReader.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BamWriter.h ${ApiIncludeDir})
-ExportHeader(APIHeaders BGZF.h ${ApiIncludeDir})
+ExportHeader(APIHeaders api_global.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamAlgorithms.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamAlignment.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamAux.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamConstants.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamIndex.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamMultiReader.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamReader.h ${ApiIncludeDir})
+ExportHeader(APIHeaders BamWriter.h ${ApiIncludeDir})
+ExportHeader(APIHeaders IBamIODevice.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamConstants.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamHeader.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamProgram.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamProgramChain.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamReadGroup.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamReadGroupDictionary.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamSequence.h ${ApiIncludeDir})
+ExportHeader(APIHeaders SamSequenceDictionary.h ${ApiIncludeDir})
+
+set( AlgorithmsIncludeDir "api/algorithms" )
+ExportHeader( AlgorithmsHeaders algorithms/Sort.h ${AlgorithmsIncludeDir} )