# ==========================
# list include paths
-include_directories ( ${BamTools_SOURCE_DIR}/src )
+include_directories( ${BamTools_SOURCE_DIR}/src )
# add compiler definitions
-add_definitions(-DBAMTOOLS_API_LIBRARY) # (for proper exporting of library symbols)
+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
- )
+# list of all BamTools API source (.cpp) 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
+ internal/BamDeviceFactory_p.cpp
+ internal/BamException_p.cpp
+ internal/BamFile_p.cpp
+ internal/BamFtp_p.cpp
+ internal/BamHeader_p.cpp
+ internal/BamHttp_p.cpp
+ internal/BamIndexFactory_p.cpp
+ internal/BamMultiReader_p.cpp
+ internal/BamPipe_p.cpp
+ internal/BamRandomAccessController_p.cpp
+ internal/BamReader_p.cpp
+ internal/BamStandardIndex_p.cpp
+ internal/BamToolsIndex_p.cpp
+ internal/BamWriter_p.cpp
+ internal/BgzfStream_p.cpp
+ internal/ILocalIODevice_p.cpp
+ internal/IRemoteIODevice_p.cpp
+ internal/SamFormatParser_p.cpp
+ internal/SamFormatPrinter_p.cpp
+ internal/SamHeaderValidator_p.cpp
+)
-# link BamTools library with zlib automatically
-target_link_libraries ( BamTools z )
-
-# set BamTools library properties
+# create main BamTools API shared library
+add_library( BamTools SHARED ${BamToolsAPISources} )
set_target_properties( BamTools PROPERTIES
- SOVERSION 0.9.0
- OUTPUT_NAME bamtools
- )
+ SOVERSION "2.0.5"
+ OUTPUT_NAME "bamtools" )
+target_link_libraries( BamTools z )
+install( TARGETS BamTools LIBRARY DESTINATION "lib/bamtools" RUNTIME DESTINATION "bin" )
+
+# create main BamTools API static library
+add_library( BamTools-static STATIC ${BamToolsAPISources} )
+set_target_properties( BamTools-static PROPERTIES
+ OUTPUT_NAME "bamtools"
+ PREFIX "lib" )
+target_link_libraries( BamTools-static z )
+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 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} )