Merge pull request #61 from Intel-HLS/dev

Now TileDB builds with cmake

.travis.yml

@@ -1,10 +1,17 @@
-#Adapted from http://gronlier.fr/blog/2015/01/adding-code-coverage-to-your-c-project/
+# Adapted from 
+# http://gronlier.fr/blog/2015/01/adding-code-coverage-to-your-c-project/
+
 sudo: required
 dist: trusty
 
+env:
+    - TILEDB_BUILD_DIR=$TRAVIS_BUILD_DIR/build
+
 install:
-    # Install lcov, MPICH, zlib, OpenSSL, Gtest and LZ4
-    - sudo apt-get -y install lcov mpich zlib1g-dev libssl-dev libgtest-dev liblz4-dev
+    # Install cmake, lcov, MPICH
+    - sudo apt-get -y install cmake lcov mpich 
+    # Install zlib, OpenSSL, Gtest and LZ4
+    - sudo apt-get -y install zlib1g-dev libssl-dev libgtest-dev liblz4-dev
     # Install Zstandard
     - wget https://github.com/facebook/zstd/archive/v1.0.0.tar.gz
     - tar xf v1.0.0.tar.gz
@@ -28,15 +35,20 @@ install:
     - cd $TRAVIS_BUILD_DIR
     # Install lcov to coveralls conversion + upload tool
     - gem install coveralls-lcov
+    # Build TileDB
+    - rm -rf $TILEDB_BUILD_DIR
+    - mkdir -p $TILEDB_BUILD_DIR
+    - cd $TILEDB_BUILD_DIR
+    - cmake .. -DCMAKE_BUILD_TYPE=Coverage 
+    - make -j 4
 
 before_script:
-    - lcov --directory . --zerocounters
+    - lcov --directory $TILEDB_BUILD_DIR --zerocounters
 
 script:
-    - make clean
-    - make -j 4
-    - make test -j 4 
-    - lcov --directory . --capture --output-file coverage.info
-    - lcov --list coverage.info # debug before upload
+    - make check -j 4
 
 after_success:
+    - cd $TILEDB_BUILD_DIR
+    - lcov --directory . --capture --output-file coverage.info
+    - lcov --list coverage.info # debug before upload

CMakeLists.txt

@@ -0,0 +1,192 @@
+#
+# CMakeLists.txt
+#
+#
+# The MIT License
+#
+# Copyright (c) 2016 MIT and Intel Corporation
+#
+# Permission is hereby granted, free of charge, to any person obtaining a copy
+# of this software and associated documentation files (the "Software"), to deal
+# in the Software without restriction, including without limitation the rights
+# to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+# copies of the Software, and to permit persons to whom the Software is
+# furnished to do so, subject to the following conditions:
+#
+# The above copyright notice and this permission notice shall be included in
+# all copies or substantial portions of the Software.
+#
+# THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+# IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+# FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+# AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+# LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+# OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+# THE SOFTWARE.
+#
+
+project(TileDB)
+cmake_minimum_required(VERSION 2.8)
+
+# Set the cmake Module path
+set(CMAKE_MODULE_PATH ${CMAKE_MODULE_PATH} "${CMAKE_SOURCE_DIR}/cmake/Modules/")
+
+# Set shared library suffix
+if(APPLE)
+  set(SHARED_LIB_SUFFIX ".dylib")
+else()
+  set(SHARED_LIB_SUFFIX ".so")
+endif()
+
+# Only for Mac OS X warnings
+if(APPLE)
+  set(CMAKE_MACOSX_RPATH 1)
+endif()
+
+# Default user definitions
+set(USE_MPI False CACHE BOOL "Enables MPI")
+if(APPLE)
+  set(USE_OPENMP False CACHE BOOL "Enables OpenMP")
+else()
+  set(USE_OPENMP True CACHE BOOL "Enables OpenMP")
+endif()
+set(TILEDB_VERBOSE False CACHE BOOL "Prints TileDB errors with verbosity")
+set(MAC_ADDRESS_INTERFACE "" 
+    CACHE STRING "The interface carrying the MAC address of the machine."
+)
+set(USE_PARALLEL_SORT False CACHE BOOL "Enables parallel sorting.")
+set(GTEST_FILTER "*" CACHE STRING "Filters for the Google unit tests.")
+set(COMPRESSION_LEVEL_GZIP "" CACHE STRING "Compression level for GZIP.")
+set(COMPRESSION_LEVEL_ZSTD "" CACHE STRING "Compression level for Zstandard.")
+set(COMPRESSION_LEVEL_BLOSC "" CACHE STRING "Compression level for Blosc.")
+if(NOT CMAKE_BUILD_TYPE)
+  set(CMAKE_BUILD_TYPE Release)
+endif()
+
+# Find required library dependencies
+find_package(ZLIB REQUIRED)
+include_directories(${ZLIB_INCLUDE_DIR})
+set(TILEDB_LIB_DEPENDENCIES ${ZLIB_LIBRARIES})
+find_package(LZ4 REQUIRED)
+include_directories(${LZ4_INCLUDE_DIR})
+set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} ${LZ4_LIBRARIES})
+find_package(BLOSC REQUIRED)
+include_directories(${BLOSC_INCLUDE_DIR})
+set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} ${BLOSC_LIBRARIES})
+find_package(ZSTD REQUIRED)
+include_directories(${ZSTD_INCLUDE_DIR})
+set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} ${ZSTD_LIBRARIES})
+find_package(OpenSSL REQUIRED)
+include_directories(${OPENSSL_INCLUDE_DIR})
+set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} ${OPENSSL_LIBRARIES})
+
+# Find optional library dependencies
+find_package(GTest)
+find_package(Doxygen)
+if(USE_MPI)
+  find_package(MPI REQUIRED)
+  include_directories(${MPI_CXX_INCLUDE_PATH})
+  set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} ${MPI_CXX_LIBRARIES})
+endif()
+if(USE_OPENMP AND NOT APPLE)
+  find_package(OpenMP REQUIRED)
+endif()
+
+# Add pthread library to dependencies
+set(TILEDB_LIB_DEPENDENCIES ${TILEDB_LIB_DEPENDENCIES} pthread)
+
+
+# Set C++ 2011 flag
+include(SetCXX2011Flag)
+
+# Set compiler flags
+set(CMAKE_CXX_FLAGS_DEBUG "-DDEBUG -g3 -gdwarf-3 -Wall -fvisibility=hidden")
+set(CMAKE_CXX_FLAGS_RELEASE "-DNDEBUG -O3 -fvisibility=hidden")
+set(CMAKE_CXX_FLAGS_COVERAGE "-DDEBUG -g3 -gdwarf-3 --coverage")
+if(NOT APPLE)
+  set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -Wno-literal-suffix")
+endif()
+if(USE_MPI)
+  set(CMAKE_CXX_COMPILER ${MPI_CXX_COMPILER})
+endif()
+if(USE_OPENMP AND NOT APPLE)
+  set (CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} ${OpenMP_CXX_FLAGS}")
+endif()
+
+# Add definitions
+add_definitions(-D_FILE_OFFSET_BITS=64)
+if(USE_MPI)
+  add_definitions(-DHAVE_MPI)
+endif()
+if(USE_OPENMP AND NOT APPLE)
+  add_definitions(-DHAVE_OPENMP)
+endif()
+if(TILEDB_VERBOSE)
+  add_definitions(-DTILEDB_VERBOSE)
+  message(STATUS "The TileDB library is compiled with verbosity.")
+endif()
+if(MAC_ADDRESS_INTERFACE)
+  add_definitions(-DTILEDB_MAC_ADDRESS_INTERFACE=${MAC_ADDRESS_INTERFACE})
+  message(STATUS "Set MAC address interface to ${MAC_ADDRESS_INTERFACE}.")
+endif()
+if(USE_PARALLEL_SORT)
+  add_definitions(-DUSE_PARALLEL_SORT)
+  message(STATUS "Will use parallel sort.")
+endif()
+if(COMPRESSION_LEVEL_GZIP)
+  add_definitions(-DTILEDB_COMPRESSION_LEVEL_GZIP=${COMPRESSION_LEVEL_GZIP})
+  message(STATUS "Set GZIP compression level to ${COMPRESSION_LEVEL_GZIP}.")
+endif()
+if(COMPRESSION_LEVEL_ZSTD)
+  add_definitions(-DTILEDB_COMPRESSION_LEVEL_ZSTD=${COMPRESSION_LEVEL_ZSTD})
+  message(STATUS 
+          "Set Zstandard compression level to ${COMPRESSION_LEVEL_ZSTD}."
+)
+endif()
+if(COMPRESSION_LEVEL_BLOSC)
+  add_definitions(-DTILEDB_COMPRESSION_LEVEL_BLOSC=${COMPRESSION_LEVEL_BLOSC})
+  message(STATUS "Set Blosc compression level to ${COMPRESSION_LEVEL_BLOSC}.")
+endif()
+
+# Enable testing
+enable_testing()
+
+# Build TileDB library
+add_subdirectory(core)
+
+# Build examples
+add_subdirectory(examples)
+
+# Build unit tests
+if(GTEST_FOUND)
+  add_subdirectory(test)
+endif()
+
+# Doxygen documentation
+if(DOXYGEN_FOUND)
+  file(GLOB_RECURSE TILEDB_CORE_HEADERS "core/include/*.h")
+  add_custom_command(
+     OUTPUT ${CMAKE_BINARY_DIR}/doxyfile.in
+      COMMAND mkdir -p doxygen
+      COMMAND echo INPUT = ${CMAKE_SOURCE_DIR}/doc/mainpage.dox 
+              ${TILEDB_CORE_HEADERS} > ${CMAKE_BINARY_DIR}/doxyfile.in
+      COMMAND echo FILE_PATTERNS = *.h >> ${CMAKE_BINARY_DIR}/doxyfile.in
+      COMMENT "Preparing for Doxygen documentation" VERBATIM
+  )
+  add_custom_target(
+      doc ${DOXYGEN_EXECUTABLE} ${CMAKE_SOURCE_DIR}/doc/Doxyfile.mk > 
+          ${CMAKE_BINARY_DIR}/Doxyfile.log 2>&1
+      COMMENT "Generating API documentation with Doxygen" VERBATIM
+      DEPENDS ${CMAKE_BINARY_DIR}/doxyfile.in
+  )
+endif(DOXYGEN_FOUND)
+
+# Uninstall
+set(CMD "xargs printf '-- Uninstalling: %s\\\\n' <install_manifest.txt") 
+add_custom_target(
+   uninstall 
+   COMMAND echo "Uninstalling TileDB..."
+   COMMAND eval "${CMD}"
+   COMMAND xargs rm -f < install_manifest.txt
+   COMMAND echo "TileDB uninstalled"
+)