X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=src%2Fapi%2FCMakeLists.txt;h=c8504edba46e3023c35a1f51ac9d66bf7e109e4d;hb=a50400c186a05160e1164bf544571b739ff6fac8;hp=5d9d592997cd0e63f59ba22e15e4822d9615c705;hpb=e24bc523b0bd086dbfad7165901b2237b5d64316;p=bamtools.git

diff --git a/src/api/CMakeLists.txt b/src/api/CMakeLists.txt
index 5d9d592..c8504ed 100644
--- a/src/api/CMakeLists.txt
+++ b/src/api/CMakeLists.txt
@@ -6,26 +6,84 @@
 # ==========================
 
 # 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} )