Commit e586841c authored by Andreas Tille's avatar Andreas Tille
Browse files

New upstream version 1.31.1+dfsg1

parent b00eb8f9

CMakeLists.txt

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# CMake build is not officially supported by UGENE and

# can only be used for developement (for example to enable CLion IDE integration)

#

# For CLion developers:

#   * add Qt5_DIR variable to File->Settings->Build,Execution,Deployment->CMake pointing to valid QT dir.

#   * add UGENE_TRANSLATION_FILE environment variable to the RUN configuration and point it to *.qm file produced by qmake build



cmake_minimum_required(VERSION 3.9)

project(ugene)



#set(CMAKE_VERBOSE_MAKEFILE ON)



set(UGENE_VERSION 1.29.0-dev)

set(UGENE_VER_MAJOR 1)

set(UGENE_VER_MINOR 29)

set(UGENE_VER_PATCH 0)



set(UGENE_MIN_VERSION_SQLITE 1.25.0)

set(UGENE_MIN_VERSION_MYSQL 1.25.0)



add_definitions(

        -DUGENE_VERSION=${UGENE_VERSION}

        -DUGENE_VER_MAJOR=${UGENE_VER_MAJOR}

        -DUGENE_VER_MINOR=${UGENE_VER_MINOR}

        -DUGENE_VER_PATCH=${UGENE_VER_PATCH}



        -DUGENE_USE_BUNDLED_ZLIB



        -DQT_FATAL_ASSERT

)



set(CMAKE_CXX_FLAGS_DEBUG "${CMAKE_CXX_FLAGS_DEBUG} -D_DEBUG")

set(CMAKE_C_FLAGS_DEBUG "${CMAKE_C_FLAGS_DEBUG} -D_DEBUG")



# 3rd party libs

add_subdirectory(src/libs_3rdparty/breakpad)

add_subdirectory(src/libs_3rdparty/samtools)

add_subdirectory(src/libs_3rdparty/sqlite3)

add_subdirectory(src/libs_3rdparty/zlib)



# Core libs

add_subdirectory(src/corelibs/U2Core)

add_subdirectory(src/corelibs/U2Algorithm)

add_subdirectory(src/corelibs/U2Formats)

add_subdirectory(src/corelibs/U2Lang)

add_subdirectory(src/corelibs/U2Private)

add_subdirectory(src/corelibs/U2Gui)

add_subdirectory(src/corelibs/U2Test)

add_subdirectory(src/corelibs/U2Designer)

add_subdirectory(src/corelibs/U2View)



# launchers

add_subdirectory(src/ugeneui)

add_subdirectory(src/ugenecl)



# local plugins

add_subdirectory(src/plugins/annotator)

add_subdirectory(src/plugins/api_tests)

add_subdirectory(src/plugins/biostruct3d_view)

add_subdirectory(src/plugins/browser_support)

add_subdirectory(src/plugins/chroma_view)

add_subdirectory(src/plugins/circular_view)

add_subdirectory(src/plugins/CoreTests)

add_subdirectory(src/plugins/dbi_bam)

add_subdirectory(src/plugins/dna_export)

add_subdirectory(src/plugins/dna_flexibility)

add_subdirectory(src/plugins/dna_graphpack)

add_subdirectory(src/plugins/dna_stat)

add_subdirectory(src/plugins/dotplot)

add_subdirectory(src/plugins/enzymes)

add_subdirectory(src/plugins/external_tool_support)

add_subdirectory(src/plugins/genome_aligner)

# never tried: add_subdirectory(src/plugins/GUITestBase)

add_subdirectory(src/plugins/linkdata_support)

add_subdirectory(src/plugins/orf_marker)

add_subdirectory(src/plugins/pcr)

add_subdirectory(src/plugins/perf_monitor)

add_subdirectory(src/plugins/query_designer)

add_subdirectory(src/plugins/remote_blast)

add_subdirectory(src/plugins/repeat_finder)

add_subdirectory(src/plugins/smith_waterman)

add_subdirectory(src/plugins/test_runner)

add_subdirectory(src/plugins/weight_matrix)

add_subdirectory(src/plugins/workflow_designer)



# 3rd party plugins

add_subdirectory(src/plugins_3rdparty/ball)

add_subdirectory(src/plugins_3rdparty/gor4)

add_subdirectory(src/plugins_3rdparty/hmm2)

add_subdirectory(src/plugins_3rdparty/kalign)

add_subdirectory(src/plugins_3rdparty/phylip)

add_subdirectory(src/plugins_3rdparty/primer3)

add_subdirectory(src/plugins_3rdparty/psipred)

add_subdirectory(src/plugins_3rdparty/ptools)

add_subdirectory(src/plugins_3rdparty/sitecon)

add_subdirectory(src/plugins_3rdparty/umuscle)

add_subdirectory(src/plugins_3rdparty/variants)

src/corelibs/U2Algorithm/CMakeLists.txt

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cmake_minimum_required(VERSION 3.4)

project(U2Algorithm)



set(CMAKE_AUTORCC ON)

set(CMAKE_AUTOMOC ON)



find_package(Qt5 REQUIRED Core Gui Widgets)



add_definitions(-DBUILDING_U2ALGORITHM_DLL)



include_directories(src)

include_directories(../../include)

include_directories(../../libs_3rdparty/samtools/src)

include_directories(../../libs_3rdparty/samtools/src/samtools)



file(GLOB_RECURSE SRCS src/*.cpp)

file(GLOB_RECURSE HDRS src/*.h)

qt5_add_resources(RCC_SRCS U2Algorithm.qrc)



add_library(U2Algorithm SHARED ${HDRS} ${SRCS} ${RCC_SRCS})



target_link_libraries(U2Algorithm

        Qt5::Core Qt5::Gui Qt5::Widgets

        samtools

        U2Core)

src/corelibs/U2Core/CMakeLists.txt

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cmake_minimum_required(VERSION 3.4)

project(U2Core)



set(CMAKE_AUTOMOC ON)



find_package(Qt5 REQUIRED Core Gui Widgets Script Network Xml)



add_definitions(

        -DBUILDING_U2CORE_DLL

        -DUGENE_MIN_VERSION_SQLITE=${UGENE_MIN_VERSION_SQLITE}

        -DUGENE_MIN_VERSION_MYSQL=${UGENE_MIN_VERSION_MYSQL}

)



include_directories(src)

include_directories(../../include)



file(GLOB_RECURSE SRCS src/*.cpp)

file(GLOB_RECURSE HDRS src/*.h)



add_library(U2Core SHARED ${HDRS} ${SRCS})



target_link_libraries(U2Core

        Qt5::Core Qt5::Gui Qt5::Widgets Qt5::Network Qt5::Script Qt5::Xml

        ugenedb zlib)

src/corelibs/U2Designer/CMakeLists.txt

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cmake_minimum_required(VERSION 3.4)

project(U2Designer)



set(CMAKE_AUTOUIC ON)

set(CMAKE_AUTORCC ON)

set(CMAKE_AUTOMOC ON)

set(CMAKE_INCLUDE_CURRENT_DIR ON)





find_package(Qt5 REQUIRED Core Gui Widgets Xml Svg Script WebKit WebKitWidgets)



add_definitions(-DBUILDING_U2DESIGNER_DLL)



include_directories(src)

include_directories(../../include)



file(GLOB_RECURSE SRCS src/*.cpp)

file(GLOB_RECURSE HDRS src/*.h)



qt5_add_resources(RCC_SRCS U2Designer.qrc)



add_library(U2Designer SHARED ${HDRS} ${SRCS} ${RCC_SRCS})



target_link_libraries(U2Designer

        Qt5::Core Qt5::Gui Qt5::Widgets Qt5::Xml Qt5::Svg Qt5::Script Qt5::WebKit Qt5::WebKitWidgets

        U2Core U2Algorithm U2Gui)

src/corelibs/U2Formats/CMakeLists.txt

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cmake_minimum_required(VERSION 3.4)

project(U2Formats)



set(CMAKE_AUTORCC ON)

set(CMAKE_AUTOMOC ON)



find_package(Qt5 REQUIRED Core Gui Widgets Sql)



add_definitions(-DBUILDING_U2FORMATS_DLL)



include_directories(src)

include_directories(../../include)

include_directories(../../libs_3rdparty/samtools/src)

include_directories(../../libs_3rdparty/samtools/src/samtools)



file(GLOB_RECURSE SRCS src/*.cpp)

file(GLOB_RECURSE HDRS src/*.h)

qt5_add_resources(RCC_SRCS U2Formats.qrc)



add_library(U2Formats SHARED ${HDRS} ${SRCS} ${RCC_SRCS})



target_link_libraries(U2Formats

        Qt5::Core Qt5::Gui Qt5::Widgets Qt5::Sql

        samtools ugenedb

        U2Core U2Algorithm)