Use CFLAGS that pkg-config says we need for the found htslib and tabixpp

vgteam · Apr 24, 2023 · d905f69 · d905f69
1 parent 3dde0f4
commit d905f69
Showing 1 changed file with 8 additions and 2 deletions.
diff --git a/CMakeLists.txt b/CMakeLists.txt
@@ -116,13 +116,19 @@ include_directories(contrib/multichoose)
 include_directories(contrib/filevercmp)
 include_directories(contrib/c-progress-bar)
 
-if(NOT HTSLIB_FOUND)
+if(HTSLIB_FOUND)
+  set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${HTSLIB_CFLAGS}")
+  set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${HTSLIB_CFLAGS}")
+else(HTSLIB_FOUND)
   message(STATUS "Using included htslib")
   set(HTSLIB_LOCAL contrib/tabixpp/htslib)
   set(TABIXPP_FOUND OFF) # also build tabixpp if htslib is missing
 endif()
 
-if (NOT TABIXPP_FOUND)
+if(TABIXPP_FOUND)
+  set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${TABIXPP_CFLAGS}")
+  set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${TABIXPP_CFLAGS}")
+else(TABIXPP_FOUND)
   message(STATUS "Using included tabixpp")
   set(TABIXPP_LOCAL contrib/tabixpp)
   include_directories(contrib/tabixpp)