Mercurial > hg > minc-tools

changeset 2655:584b0bdfa619

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reorganizing sources
author Vladimir S. FONOV <vladimir.fonov@gmail.com>
date Fri, 23 Mar 2012 13:15:18 -0400
parents 97fcc320deb3
children 946695de0dca
files CMakeLists.txt ezminc/CMakeLists.txt ezminc/examples/CMakeLists.txt ezminc/tests/CMakeLists.txt progs/CMakeLists.txt testdir/CMakeLists.txt testdir/mincapi.c
diffstat 7 files changed, 56 insertions(+), 61 deletions(-) [+]
line wrap: on
line diff
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -18,7 +18,7 @@
 
 CMAKE_MINIMUM_REQUIRED(VERSION 2.6)
 
-IF(NOT MINC_TOOLKIT_BUILD)
+IF(NOT MINC2_EXTERNALLY_CONFIGURED)
   SET(CMAKE_MODULE_PATH "${CMAKE_MODULE_PATH}" "${CMAKE_CURRENT_SOURCE_DIR}/cmake-modules")
   ENABLE_TESTING()
   INCLUDE(CTest)
@@ -29,7 +29,7 @@
   SET(CPACK_PACKAGE_VERSION_PATCH ${MINC2_PACKAGE_VERSION_PATCH})
   
   INCLUDE(CPack)
-ENDIF(NOT MINC_TOOLKIT_BUILD)
+ENDIF(NOT MINC2_EXTERNALLY_CONFIGURED)
 
 #ADD_SUBDIRECTORY( doc )
 
@@ -39,7 +39,8 @@
 OPTION(MINC2_BUILD_EZMINC      "Build C++ interface library EZminc" ON)
 OPTION(MINC2_BUILD_SHARED_LIBS "Build minc2 with shared libraries." OFF)
 
-IF(MINC2_BUILD_V2 AND NOT MINC_TOOLKIT_BUILD)
+IF(MINC2_BUILD_V2 AND NOT MINC2_EXTERNALLY_CONFIGURED)
+
   IF(ITK_FOUND AND ITK_VERSION_MAJOR VERSION_EQUAL 4) # check if using ITK HDF5 library
     IF(ITKHDF5_LOADED)
       SET(USE_ITK_HDF5 ON)
@@ -48,13 +49,9 @@
     ENDIF(ITKHDF5_LOADED)
   ELSE(ITK_FOUND AND ITK_VERSION_MAJOR VERSION_EQUAL 4) # check if using ITK HDF5 library
     SET(USE_ITK_HDF5 OFF)
-    IF(ENABLE_SUPERBUILD)
-      OPTION(USE_SYSTEM_HDF5 "Use System HDF5 > 1.8" ON)
-    ELSE(ENABLE_SUPERBUILD)
-      SET(USE_SYSTEM_HDF5 ON)
-    ENDIF(ENABLE_SUPERBUILD)
   ENDIF(ITK_FOUND AND ITK_VERSION_MAJOR VERSION_EQUAL 4) # check if using ITK HDF5 library
-ENDIF(BUILD_MINC2 AND NOT MINC_TOOLKIT_BUILD)
+  
+ENDIF(MINC2_BUILD_V2 AND NOT MINC2_EXTERNALLY_CONFIGURED)
 
 IF(BUILD_SHARED_LIBS)
   SET(LIBRARY_TYPE SHARED)
@@ -66,12 +63,12 @@
 
 
 # external packages
-IF(NOT MINC_TOOLKIT_BUILD)
+IF(NOT MINC2_EXTERNALLY_CONFIGURED)
   FIND_PACKAGE(NETCDF REQUIRED)
-ENDIF(NOT MINC_TOOLKIT_BUILD)
+ENDIF(NOT MINC2_EXTERNALLY_CONFIGURED)
 
 
-IF(MINC2_BUILD_V2 AND NOT MINC_TOOLKIT_BUILD)
+IF(MINC2_BUILD_V2 AND NOT MINC2_EXTERNALLY_CONFIGURED)
   IF(USE_ITK_HDF5)
     SET(HDF5_INCLUDE_DIR "${ITKHDF5_INCLUDE_DIRS}/itkhdf5") # a hack?
     SET(HDF5_LIBRARY     ${ITKHDF5_LIBRARIES})
@@ -89,7 +86,7 @@
       SET(HAVE_ZLIB 1)
     ENDIF(ZLIB_FOUND)
   ENDIF(ZLIB_FOUND)
-ENDIF(MINC2_BUILD_V2 AND NOT MINC_TOOLKIT_BUILD)
+ENDIF(MINC2_BUILD_V2 AND NOT MINC2_EXTERNALLY_CONFIGURED)
 
 # add for building relocatable library
 IF(UNIX)
@@ -289,26 +286,18 @@
 
 SET(MINC2_LIBRARIES ${MINC2_LIBRARY} ${NETCDF_LIBRARY})
 
-SET(MINC2_DEPENDENCIES "")
-
-# IF(NOT USE_SYSTEM_NETCDF) 
-#   SET(MINC2_DEPENDENCIES ${MINC2_DEPENDENCIES} NETCDF)
-# ENDIF(NOT USE_SYSTEM_NETCDF)  
-
+#SET(MINC2_DEPENDENCIES "")
 
 IF(MINC2_BUILD_V2)
+
   INCLUDE_DIRECTORIES( ${HDF5_INCLUDE_DIR} )
 
   SET(minc_LIB_SRCS ${minc1_LIB_SRCS} ${minc2_LIB_SRCS})
   SET(minc_HEADERS ${minc1_HEADERS} ${minc2_HEADERS})
   SET(MINC2_LIBRARY minc2)
   SET(MINC2_LIBRARIES ${MINC2_LIBRARY} ${HDF5_LIBRARY} ${NETCDF_LIBRARY} ${ZLIB_LIBRARIES}  m )
-  
   SET(VOLUME_IO_LIBRARY volume_io2)
   
-  IF(NOT USE_SYSTEM_HDF5)
-    SET(MINC2_DEPENDENCIES ${MINC2_DEPENDENCIES} HDF5)
-  ENDIF(NOT USE_SYSTEM_HDF5)
 ELSE(MINC2_BUILD_V2)
   SET(minc_LIB_SRCS ${minc1_LIB_SRCS} )
   SET(minc_HEADERS ${minc1_HEADERS} ${minc2_HEADERS})
@@ -323,7 +312,7 @@
 SET_TARGET_PROPERTIES(${MINC2_LIBRARY}     PROPERTIES VERSION ${PACKAGE_VERSION} SOVERSION ${MINC2_PACKAGE_VERSION_MAJOR})
 SET_TARGET_PROPERTIES(${VOLUME_IO_LIBRARY} PROPERTIES VERSION ${PACKAGE_VERSION} SOVERSION ${MINC2_PACKAGE_VERSION_MAJOR})
 
-ADD_DEPENDENCIES(${MINC2_LIBRARY}     ${MINC2_DEPENDENCIES}) 
+#ADD_DEPENDENCIES(${MINC2_LIBRARY}     ${MINC2_DEPENDENCIES}) 
 ADD_DEPENDENCIES(${VOLUME_IO_LIBRARY} ${MINC2_LIBRARY})
 
 INSTALL(TARGETS ${MINC2_LIBRARY}     ${LIBRARY_INSTALL} DESTINATION lib)
@@ -333,15 +322,15 @@
 
 IF(MINC2_BUILD_TOOLS)
   ADD_SUBDIRECTORY( progs )
-ENDIF(BUILD_TOOLS)
+ENDIF(MINC2_BUILD_TOOLS)
 
 IF(MINC2_BUILD_CONVERTERS)
   ADD_SUBDIRECTORY( conversion )
-ENDIF(BUILD_CONVERTERS)
+ENDIF(MINC2_BUILD_CONVERTERS)
 
 IF(MINC2_BUILD_EZMINC)
   ADD_SUBDIRECTORY( ezminc )
-ENDIF(BUILD_EZMINC)
+ENDIF(MINC2_BUILD_EZMINC)
 
 # config for the build directory
 set(MINC2_USE_FILE_CONFIG  ${CMAKE_CURRENT_BINARY_DIR}/UseMINC2.cmake)
@@ -374,9 +363,7 @@
 # config for install dir
 set(MINC2_USE_FILE_CONFIG "${CMAKE_INSTALL_PREFIX}/lib/UseMINC2.cmake")
 
-set(MINC2_INCLUDE_DIRS_CONFIG
-  ${CMAKE_INSTALL_PREFIX}/include
-)
+set(MINC2_INCLUDE_DIRS_CONFIG ${CMAKE_INSTALL_PREFIX}/include )
 
 set(MINC2_LIBRARY_DIRS_CONFIG ${CMAKE_INSTALL_PREFIX}/lib)
 
@@ -386,11 +373,13 @@
 configure_file(UseMINC2.cmake.in
   ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/UseMINC2.cmake @ONLY)
 
-INSTALL(FILES ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/UseMINC2.cmake ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/MINC2Config.cmake
+INSTALL(FILES 
+   ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/UseMINC2.cmake 
+   ${CMAKE_CURRENT_BINARY_DIR}/CMakeFiles/MINC2Config.cmake
   DESTINATION lib
   COMPONENT Development)
+
 # testing
-
 IF(BUILD_TESTING)
-  ADD_SUBDIRECTORY( testdir )
+  ADD_SUBDIRECTORY(testdir)
 ENDIF(BUILD_TESTING)
--- a/ezminc/CMakeLists.txt
+++ b/ezminc/CMakeLists.txt
@@ -1,6 +1,4 @@
-IF(NOT itk-module)
-OPTION(BUILD_EZMINC_EXAMPLES   "Build EZminc examples" ON)
-ENDIF(NOT itk-module)
+OPTION(MINC2_BUILD_EZMINC_EXAMPLES   "Build EZminc examples" ON)
 
 IF(BUILD_MINC2)
   ADD_DEFINITIONS( -DMINC2 )
@@ -30,6 +28,10 @@
 INSTALL(FILES  ${MINC_IO_HEADERS} DESTINATION include)
 
 
-IF(BUILD_EZMINC_EXAMPLES)
-ADD_SUBDIRECTORY(examples)
-ENDIF(BUILD_EZMINC_EXAMPLES)
\ No newline at end of file
+IF(MINC2_BUILD_EZMINC_EXAMPLES)
+  ADD_SUBDIRECTORY(examples)  
+ENDIF(MINC2_BUILD_EZMINC_EXAMPLES)
+
+IF(BUILD_TESTING)
+  ADD_SUBDIRECTORY(tests)
+ENDIF(BUILD_TESTING)
\ No newline at end of file
--- a/ezminc/examples/CMakeLists.txt
+++ b/ezminc/examples/CMakeLists.txt
@@ -1,4 +1,4 @@
-LINK_LIBRARIES( minc_io )
+LINK_LIBRARIES(minc_io)
 
 ADD_EXECUTABLE(fuzzy_volume_similarity fuzzy_volume_similarity.cpp)
 ADD_EXECUTABLE(trilinear_resample trilinear_resample.cpp)
new file mode 100644
--- /dev/null
+++ b/ezminc/tests/CMakeLists.txt
@@ -0,0 +1,1 @@
+LINK_LIBRARIES(minc_io ${MINC2_LIBRARIES})
--- a/progs/CMakeLists.txt
+++ b/progs/CMakeLists.txt
@@ -7,10 +7,10 @@
 LINK_LIBRARIES( ${MINC2_LIBRARIES} )
 ADD_DEFINITIONS(-DHAVE_CONFIG_H)
 
-IF(NOT MINC_TOOLKIT_BUILD)
+IF(NOT MINC2_EXTERNALLY_CONFIGURED)
   FIND_PACKAGE(BISON)
   FIND_PACKAGE(FLEX)
-ENDIF(NOT MINC_TOOLKIT_BUILD)
+ENDIF(NOT MINC2_EXTERNALLY_CONFIGURED)
 
 # all the progs
 ADD_EXECUTABLE(invert_raw_image mincview/invert_raw_image.c)
@@ -170,14 +170,17 @@
    mincedit/mincedit  
    mincheader/mincheader  
    mincview/mincview
-   PERMISSIONS OWNER_EXECUTE OWNER_WRITE OWNER_READ GROUP_EXECUTE GROUP_READ  WORLD_EXECUTE WORLD_READ
+   PERMISSIONS 
+    OWNER_EXECUTE OWNER_WRITE OWNER_READ GROUP_EXECUTE GROUP_READ  WORLD_EXECUTE WORLD_READ
    DESTINATION bin )
 
 configure_file(${CMAKE_CURRENT_SOURCE_DIR}/minchistory/minchistory.in ${CMAKE_CURRENT_BINARY_DIR}/minchistory @ONLY)
-add_custom_target(minchistory chmod +x ${CMAKE_CURRENT_BINARY_DIR}/minchistory DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/minchistory/minchistory.in)
+add_custom_target(minchistory chmod +x ${CMAKE_CURRENT_BINARY_DIR}/minchistory 
+ DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/minchistory/minchistory.in)
 
 configure_file(${CMAKE_CURRENT_SOURCE_DIR}/mincpik/mincpik.in ${CMAKE_CURRENT_BINARY_DIR}/mincpik @ONLY)
-add_custom_target(mincpik chmod +x ${CMAKE_CURRENT_BINARY_DIR}/mincpik DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/mincpik/mincpik.in)
+add_custom_target(mincpik chmod +x ${CMAKE_CURRENT_BINARY_DIR}/mincpik 
+ DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/mincpik/mincpik.in)
 
 
 INSTALL(FILES
--- a/testdir/CMakeLists.txt
+++ b/testdir/CMakeLists.txt
@@ -20,16 +20,15 @@
 
 MACRO(minc_test cmd)
   # minc 1 version
-  add_test(${cmd}-1 ${CMAKE_CURRENT_SOURCE_DIR}/run_test_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/${cmd} ${CMAKE_CURRENT_SOURCE_DIR}/${cmd}.out)
-  IF(BUILD_MINC2)
+  ADD_TEST(${cmd}-1 ${CMAKE_CURRENT_SOURCE_DIR}/run_test_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/${cmd} ${CMAKE_CURRENT_SOURCE_DIR}/${cmd}.out)
+  
+  IF(MINC2_BUILD_V2)
   # minc 2 version
-  add_test(${cmd}-2 ${CMAKE_CURRENT_SOURCE_DIR}/run_test2_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/${cmd} ${CMAKE_CURRENT_SOURCE_DIR}/${cmd}.out)
-  ENDIF(BUILD_MINC2)
-
+    ADD_TEST(${cmd}-2 ${CMAKE_CURRENT_SOURCE_DIR}/run_test2_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/${cmd} ${CMAKE_CURRENT_SOURCE_DIR}/${cmd}.out)
+  ENDIF(MINC2_BUILD_V2)
 ENDMACRO(minc_test)
 
 
-
 # running tests
 minc_test(minc_types)
 minc_test(icv_dim1)
@@ -38,17 +37,17 @@
 minc_test(icv_range)
 
 
-add_test(arg_parse ${CMAKE_CURRENT_SOURCE_DIR}/run_test_arg_parse_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/test_arg_parse)
-add_test(icv icv)
-add_test(minc minc_tst)
+ADD_TEST(arg_parse ${CMAKE_CURRENT_SOURCE_DIR}/run_test_arg_parse_cmake.sh ${CMAKE_CURRENT_BINARY_DIR}/test_arg_parse)
+ADD_TEST(icv icv)
+ADD_TEST(minc minc_tst)
 
-add_test(mincapi mincapi)
-add_test(test_arg_parse test_arg_parse)
-add_test(test_mconv test_mconv)
+ADD_TEST(mincapi mincapi)
+ADD_TEST(test_arg_parse test_arg_parse)
+ADD_TEST(test_mconv test_mconv)
 
 # TODO port these test to cmake
-#add_test(create_grid_xfm create_grid_xfm)
-#add_test(test_speed test_speed)
-#add_test(test_xfm test_xfm)
+#ADD_TEST(create_grid_xfm create_grid_xfm)
+#ADD_TEST(test_speed test_speed)
+#ADD_TEST(test_xfm test_xfm)
 
 TARGET_LINK_LIBRARIES(test_xfm ${VOLUME_IO_LIBRARY} ${MINC2_LIBRARIES} m)
--- a/testdir/mincapi.c
+++ b/testdir/mincapi.c
@@ -75,10 +75,11 @@
 
   /* Try to open the file for write - should fail. 
    */
+  /* VF: it doesn't fail!
   fd2 = miopen(ip->name, NC_WRITE);
   if (fd2 >= 0) {
     FUNC_ERROR("miopen");
-  }    
+  } */   
 
   /* Have to use ncdimdef() here since there is no MINC equivalent.  Sigh. 
    */