# HG changeset patch
# User Vladimir Fonov <vladimir.fonov@gmail.com>
# Date 1331056495 18000
# Node ID a9aee65d93ad1c368d54eb6cf35e05cb0a0b6e27
# Parent  9a29271fcbbeebd1d1aac63f2d4fd8a852376d63# Parent  55fac3cfdf486dbafe4b8fb09155ab099251c6f3
Merged with Andrew's patches and also resolving errors for in-source build

diff --git a/CMakeLists.txt b/CMakeLists.txt
--- a/CMakeLists.txt
+++ b/CMakeLists.txt
@@ -37,11 +37,11 @@
 SET(PACKAGE_VERSION "${CPACK_PACKAGE_VERSION_MAJOR}.${CPACK_PACKAGE_VERSION_MINOR}.${CPACK_PACKAGE_VERSION_PATCH}")
 SET(PACKAGE_STRING "${PACKAGE_NAME} ${PACKAGE_VERSION}")
 
-option(BUILD_SHARED_LIBS "Build minc2 with shared libraries." OFF)
 OPTION(BUILD_MINC2       "Support minc2 file format" ON)
 OPTION(BUILD_TOOLS       "Build minc tools (mincreshape,mincresample, etc)" ON)
 OPTION(BUILD_CONVERTERS  "Build minc conversion programs (mnc2nii, nii2mnc , dcm2mnc...)" ON)
 OPTION(BUILD_EZMINC      "Build C++ interface library EZminc" ON)
+OPTION(BUILD_SHARED_LIBS "Build minc2 with shared libraries." OFF)
 
 IF(ENABLE_SUPERBUILD)
 OPTION(USE_SYSTEM_NETCDF "Use System NETCDF > 3.6.3" OFF)
@@ -58,16 +58,16 @@
 IF(BUILD_MINC2)
  IF(ITK_FOUND AND ITK_VERSION_MAJOR VERSION_EQUAL 4) # check if using ITK HDF5 library
 
-  IF(ITKHDF5_LOADED)#ITK_MODULES_ENABLED MATCHES "ITKHDF5"
-  message(WARNING "ITK compiled with HDF5 support!")
+  IF(ITKHDF5_LOADED)
+		message(WARNING "ITK compiled with HDF5 support!")
     SET(USE_ITK_HDF5 ON)
-  ENDIF(ITKHDF5_LOADED)#ITK_MODULES_ENABLED MATCHES "ITKHDF5"
+  ENDIF(ITKHDF5_LOADED)
  ELSE(ITK_FOUND AND ITK_VERSION_MAJOR VERSION_EQUAL 4) # check if using ITK HDF5 library
  
   IF(ENABLE_SUPERBUILD)
-  OPTION(USE_SYSTEM_HDF5 "Use System HDF5 > 1.8" OFF)
-  ELSE(ENABLE_SUPERBUILD)
-  SET(USE_SYSTEM_HDF5 ON)
+		OPTION(USE_SYSTEM_HDF5 "Use System HDF5 > 1.8" OFF)
+	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
@@ -111,6 +111,12 @@
 
 ADD_DEFINITIONS(-DHAVE_CONFIG_H)
 
+# add for building relocatable library
+IF(UNIX)
+	SET(CMAKE_C_FLAGS "${CMAKE_C_FLAGS} -fPIC")
+	SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -fPIC")
+ENDIF(UNIX)
+
 # aliases
 SET(VERSION "${PACKAGE_VERSION}")
 
@@ -455,6 +461,3 @@
 IF(BUILD_TESTING)
   ADD_SUBDIRECTORY( testdir )
 ENDIF(BUILD_TESTING)
-
-
-
diff --git a/progs/CMakeLists.txt b/progs/CMakeLists.txt
--- a/progs/CMakeLists.txt
+++ b/progs/CMakeLists.txt
@@ -155,7 +155,7 @@
    DESTINATION bin)
 
 # perl and shell scripts
-INSTALL(FILES
+INSTALL(PROGRAMS
    mincdiff/mincdiff  
    mincedit/mincedit  
    mincheader/mincheader  
@@ -165,10 +165,11 @@
    DESTINATION bin )
 
 
-configure_file(minchistory/minchistory.in ${CMAKE_CURRENT_BINARY_DIR}/minchistory @ONLY)
-add_custom_target(minchistory chmod +x ${CMAKE_CURRENT_BINARY_DIR}/minchistory DEPENDS minchistory/minchistory.in)
+configure_file(${CMAKE_CURRENT_SOURCE_DIR}/minchistory/minchistory.in ${CMAKE_CURRENT_BINARY_DIR}/minchistory.pl @ONLY)
+add_custom_target(minchistory.pl chmod +x ${CMAKE_CURRENT_BINARY_DIR}/minchistory.pl DEPENDS ${CMAKE_CURRENT_SOURCE_DIR}/minchistory/minchistory.in)
 
-INSTALL(FILES
-  ${CMAKE_CURRENT_BINARY_DIR}/minchistory
+INSTALL(PROGRAMS
+  ${CMAKE_CURRENT_BINARY_DIR}/minchistory.pl
   PERMISSIONS OWNER_EXECUTE OWNER_WRITE OWNER_READ GROUP_EXECUTE GROUP_READ  WORLD_EXECUTE WORLD_READ
-   DESTINATION bin )
+   DESTINATION bin 
+	RENAME minchistory )