Add all CCPi patches (patches are not applied automatically, but just collected)

1 files changed, 169 insertions, 0 deletions

diff --git a/patches/ccpi-regularisation-toolkit-fast-tnv/CMakeLists.txt b/patches/ccpi-regularisation-toolkit-fast-tnv/CMakeLists.txt
new file mode 100644
index 0000000..1a3b37a
--- /dev/null
+++ b/patches/ccpi-regularisation-toolkit-fast-tnv/CMakeLists.txt
@@ -0,0 +1,169 @@
+#   Copyright 2018 Edoardo Pasca
+#cmake_minimum_required (VERSION 3.0)
+
+project(RGL_core)
+#https://stackoverflow.com/questions/13298504/using-cmake-with-setup-py
+
+# The version number.
+
+set (CIL_VERSION $ENV{CIL_VERSION} CACHE INTERNAL "Core Imaging Library version" FORCE)
+
+# conda orchestrated build
+message("CIL_VERSION ${CIL_VERSION}")
+#include (GenerateExportHeader)
+
+## Build the regularisers package as a library
+message("Creating Regularisers as a shared library")
+
+find_package(GLIB2 REQUIRED)
+find_package(OpenMP REQUIRED)
+if (OPENMP_FOUND)
+    set (CMAKE_C_FLAGS "${CMAKE_C_FLAGS} ${OpenMP_C_FLAGS}")
+    set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${OpenMP_CXX_FLAGS}")
+    set (CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} ${OpenMP_EXE_LINKER_FLAGS} ${OpenMP_CXX_FLAGS}")
+   set (CMAKE_SHARED_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} ${OpenMP_SHARED_LINKER_FLAGS} ${OpenMP_CXX_FLAGS}")
+   set (CMAKE_STATIC_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} ${OpenMP_STATIC_LINKER_FLAGS} ${OpenMP_CXX_FLAGS}")
+endif()
+
+message("CMAKE_CXX_FLAGS ${CMAKE_CXX_FLAGS} -fno-omit-frame-pointer")
+message("CMAKE_C_FLAGS ${CMAKE_C_FLAGS} -fno-omit-frame-pointer")
+message("CMAKE_EXE_LINKER_FLAGS ${CMAKE_EXE_LINKER_FLAGS}")
+message("CMAKE_SHARED_LINKER_FLAGS ${CMAKE_SHARED_LINKER_FLAGS}")
+message("CMAKE_STATIC_LINKER_FLAGS ${CMAKE_STATIC_LINKER_FLAGS}")
+
+set(CMAKE_BUILD_TYPE "Release")
+
+if(WIN32)
+  set (FLAGS "/DWIN32 /EHsc /DCCPiCore_EXPORTS /openmp")
+  set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${FLAGS}")
+  set (CMAKE_C_FLAGS "${CMAKE_CXX_FLAGS} ${FLAGS}")
+  set (CMAKE_EXE_LINKER_FLAGS "${CMAKE_EXE_LINKER_FLAGS} /NODEFAULTLIB:MSVCRT.lib")
+
+  set (EXTRA_LIBRARIES)
+
+  message("library lib: ${LIBRARY_LIB}")
+
+elseif(UNIX)
+   set (FLAGS "-O2 -funsigned-char -Wall  -Wl,--no-undefined  -DCCPiReconstructionIterative_EXPORTS ")
+   set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${FLAGS}")
+   set (CMAKE_C_FLAGS "${CMAKE_CXX_FLAGS} ${FLAGS}")
+
+   set (EXTRA_LIBRARIES
+		"gomp"
+		"m"
+		)
+
+endif()
+message("CMAKE_CXX_FLAGS ${CMAKE_CXX_FLAGS}")
+
+## Build the regularisers package as a library
+message("Adding regularisers as a shared library")
+
+#set(CMAKE_C_COMPILER /opt/intel/compilers_and_libraries/linux/bin/intel64/icc)
+#set(CMAKE_C_FLAGS "-Ofast -mtune=sandybridge -xSSE4.2 -qopt-report=5 -qopt-report-file=stdout -qopt-report-phase=vec -qopenmp")
+#set(CMAKE_C_FLAGS "-Ofast -mtune=sandybridge -axAVX2 -xAVX2 -qopt-report=5 -qopt-report-file=stdout -qopt-report-phase=vec -qopenmp")
+#set(CMAKE_C_FLAGS "-Ofast -mtune=sandybridge -mavx512f -mavx512dq -mavx512bw -mavx512vbmi -mavx512vbmi2 -mavx512vl -qopt-report=5 -qopt-report-file=stdout -qopt-report-phase=vec -qopenmp")
+
+#set(CMAKE_C_COMPILER clang)
+#set(CMAKE_C_FLAGS "-march=nocona -msse -msse2 -msse3 -mssse3 -msse4 -msse4.1 -msse4.2 -ftree-vectorize -fopenmp")
+
+#set(CMAKE_C_COMPILER gcc-9)
+set(CMAKE_C_FLAGS "-march=native -ftree-vectorize -fopt-info-vec-optimized -fopt-info-vec -fopenmp")
+#set(CMAKE_C_FLAGS "-march=nocona -msse -msse2 -msse3 -mssse3 -msse4 -msse4.1 -msse4.2 -ftree-vectorize -fopt-info-vec-optimized -fopt-info-vec -mprefer-vector-width=128 -fopenmp")
+#set(CMAKE_C_FLAGS "-march=native -mavx2 -ftree-vectorize -fopt-info-vec-optimized -fopt-info-vec -mprefer-vector-width=512 -fopenmp")
+#set(CMAKE_C_FLAGS "-march=native -mavx512f -mavx512dq -mavx512bw -mavx512vbmi -mavx512vbmi2 -mavx512vl -ftree-vectorize -fopt-info-vec-optimized -fopt-info-vec -mprefer-vector-width=512 -fopenmp")
+#set(CMAKE_C_FLAGS_RELEASE "-g -gdwarf-2 -g3 -fno-omit-frame-pointer")
+
+#set(CMAKE_C_FLAGS "-acc -Minfo -ta=tesla:cc20 -openmp")
+#set(CMAKE_C_FLAGS "-acc -Minfo -ta=multicore -openmp -fPIC")
+add_library(cilreg SHARED
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/hw_sched.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/hw_thread.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/FGP_TV_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/SB_TV_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/PD_TV_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/TGV_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/Diffusion_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/Diffus4th_order_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/LLT_ROF_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/ROF_TV_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/FGP_dTV_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/TNV_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/Nonlocal_TV_core.c
+            ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/PatchSelect_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/utils.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/inpainters_CPU/Diffusion_Inpaint_core.c
+	    ${CMAKE_CURRENT_SOURCE_DIR}/inpainters_CPU/NonlocalMarching_Inpaint_core.c
+	    )
+target_link_libraries(cilreg ${EXTRA_LIBRARIES} ${GLIB2_LIBRARIES} ${GTHREAD2_LIBRARIES} )
+include_directories(cilreg PUBLIC
+                      ${GLIB2_INCLUDE_DIR}
+                      ${LIBRARY_INC}/include
+					  ${CMAKE_CURRENT_SOURCE_DIR}
+		              ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_CPU/
+		              ${CMAKE_CURRENT_SOURCE_DIR}/inpainters_CPU/  )
+
+## Install
+
+if (UNIX)
+message ("I'd install into ${CMAKE_INSTALL_PREFIX}/lib")
+install(TARGETS cilreg
+	LIBRARY DESTINATION lib
+	CONFIGURATIONS ${CMAKE_BUILD_TYPE}
+	)
+elseif(WIN32)
+message ("I'd install into ${CMAKE_INSTALL_PREFIX} lib bin")
+  install(TARGETS cilreg
+	RUNTIME DESTINATION bin
+	ARCHIVE DESTINATION lib
+	CONFIGURATIONS ${CMAKE_BUILD_TYPE}
+	)
+endif()
+
+
+
+# GPU Regularisers
+if (BUILD_CUDA)
+    find_package(CUDA)
+    if (CUDA_FOUND)
+      set(CUDA_NVCC_FLAGS "-Xcompiler -fPIC -shared -D_FORCE_INLINES -allow-unsupported-compiler")
+      message("CUDA FLAGS ${CUDA_NVCC_FLAGS}")
+      CUDA_ADD_LIBRARY(cilregcuda SHARED
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/TV_ROF_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/TV_FGP_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/TV_PD_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/TV_SB_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/LLT_ROF_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/TGV_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/dTV_FGP_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/NonlDiff_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/Diffus_4thO_GPU_core.cu
+        ${CMAKE_CURRENT_SOURCE_DIR}/regularisers_GPU/PatchSelect_GPU_core.cu
+      )
+      if (UNIX)
+        message ("I'd install into ${CMAKE_INSTALL_PREFIX}/lib")
+        install(TARGETS cilregcuda
+        LIBRARY DESTINATION lib
+        CONFIGURATIONS ${CMAKE_BUILD_TYPE}
+        )
+      elseif(WIN32)
+        message ("I'd install into ${CMAKE_INSTALL_PREFIX} lib bin")
+        install(TARGETS cilregcuda
+        RUNTIME DESTINATION bin
+        ARCHIVE DESTINATION lib
+        CONFIGURATIONS ${CMAKE_BUILD_TYPE}
+        )
+      endif()
+    else()
+      message("CUDA NOT FOUND")
+    endif()
+endif()
+
+if (${BUILD_MATLAB_WRAPPER})
+  if (WIN32)
+        install(TARGETS cilreg DESTINATION ${MATLAB_DEST})
+        if (CUDA_FOUND)
+            install(TARGETS cilregcuda DESTINATION ${MATLAB_DEST})
+        endif()
+  endif()
+endif()