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CMakeLists.txt
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cmake_minimum_required(VERSION 3.13)
project(BandageNG VERSION 2023.02 LANGUAGES CXX)
set(CMAKE_CXX_STANDARD 17)
set(CMAKE_CXX_STANDARD_REQUIRED ON)
set(CMAKE_OSX_DEPLOYMENT_TARGET 11.0)
set(CMAKE_AUTOMOC ON)
set(CMAKE_AUTORCC ON)
set(CMAKE_AUTOUIC ON)
set(CMAKE_INCLUDE_CURRENT_DIR ON)
find_package(Qt6 REQUIRED COMPONENTS Widgets Svg Test Concurrent)
find_package(ZLIB REQUIRED)
set(LIB_SOURCES
graphsearch/hit.cpp
graphsearch/queries.cpp
graphsearch/query.cpp
graphsearch/querypath.cpp
graphsearch/blast/blastsearch.cpp
graphsearch/minimap2/minimap2search.cpp
graphsearch/hmmer/hmmersearch.cpp
graph/assemblygraphbuilder.cpp
graph/assemblygraph.cpp
graph/annotationsmanager.cpp
graph/debruijnedge.cpp
graph/debruijnnode.cpp
graph/graphicsitemnode.cpp
graph/graphlocation.cpp
graph/path.cpp
program/globals.cpp
program/memory.cpp
program/scinot.cpp
program/settings.cpp
program/colormap.cpp
ui/dialogs/aboutdialog.cpp
ui/annotationswidget.cpp
ui/bedwidget.cpp
ui/dialogs/hitfiltersdialog.cpp
ui/dialogs/graphsearchdialog.cpp
ui/dialogs/changenodedepthdialog.cpp
ui/dialogs/changenodenamedialog.cpp
ui/widgets/colourbutton.cpp
ui/dialogs/enteronequerydialog.cpp
ui/dialogs/pathlistdialog.cpp
ui/graphicsviewzoom.cpp
ui/dialogs/graphinfodialog.cpp
ui/widgets/infotextwidget.cpp
ui/mainwindow.cpp
ui/bandagegraphicsscene.cpp
ui/bandagegraphicsview.cpp
ui/dialogs/myprogressdialog.cpp
ui/nodewidthvisualaid.cpp
ui/dialogs/pathspecifydialog.cpp
ui/dialogs/querypathsdialog.cpp
ui/dialogs/settingsdialog.cpp
ui/widgets/verticallabel.cpp
ui/widgets/verticalscrollarea.cpp
graph/nodecolorer.cpp
graph/sequenceutils.cpp
graph/annotation.cpp
graph/gfawriter.cpp
graph/fastawriter.cpp
graph/io.cpp
graph/graphscope.cpp
graphsearch/graphsearch.cpp
features_forest/assemblyfeaturesforest.cpp
features_forest/blastfeaturenodesmatcher.cpp
features_forest/featurenodecolorer.cpp
features_forest/featuretreeedge.cpp
features_forest/featuretreenode.cpp
features_forest/graphicsitemfeatureedge.cpp
features_forest/graphicsitemfeaturenode.cpp
painting/commongraphicsitemnode.cpp
ui/featuresforestwidget.cpp
hic/hicmanager.cpp
hic/hicedge.cpp
graph/graphicsitemedgecommon.cpp
graph/assemblygraphlist.cpp
painting/textgraphicsitemnode.cpp
)
set(FORMS
ui/dialogs/aboutdialog.ui
ui/dialogs/hitfiltersdialog.ui
ui/dialogs/graphsearchdialog.ui
ui/dialogs/changenodedepthdialog.ui
ui/dialogs/changenodenamedialog.ui
ui/dialogs/enteronequerydialog.ui
ui/dialogs/graphinfodialog.ui
ui/mainwindow.ui
ui/dialogs/myprogressdialog.ui
ui/dialogs/pathspecifydialog.ui
ui/dialogs/querypathsdialog.ui
ui/dialogs/settingsdialog.ui)
set(CLI_SOURCES
command_line/commoncommandlinefunctions.cpp
command_line/image.cpp
command_line/info.cpp
command_line/layout.cpp
command_line/load.cpp
command_line/querypaths.cpp
command_line/reduce.cpp
command_line/settings.cpp)
set(RESOURCES images/images.qrc images/application.icns)
add_compile_definitions(APP_VERSION="${PROJECT_VERSION}-dev")
include_directories(ui)
add_subdirectory(thirdparty)
include_directories(thirdparty)
include(FetchContent)
# Lexy for GFA parser
FetchContent_Declare(lexy URL https://lexy.foonathan.net/download/lexy-src.zip)
FetchContent_MakeAvailable(lexy)
# CLI11 for cmdline parsing
FetchContent_Declare(cli11 GIT_REPOSITORY https://github.com/CLIUtils/CLI11 GIT_TAG main)
FetchContent_MakeAvailable(cli11)
add_library(BandageLayout STATIC layout/graphlayoutworker.cpp layout/io.cpp layout/graphlayout.cpp layout/customogdftreelayout.cpp layout/featureslayout.cpp layout/treelayoutworker.cpp painting/textgraphicsitemnode.cpp)
target_link_libraries(BandageLayout PRIVATE OGDF Qt6::Concurrent Qt6::Gui Qt6::Widgets)
add_library(BandageIo STATIC
io/gfa.cpp
io/bedloader.cpp
io/fileutils.cpp
io/cigar.cpp
io/gaf.cpp)
target_link_libraries(BandageIo PRIVATE Qt6::Gui Qt6::Widgets foonathan::lexy)
# FIXME: Untagle this
add_library(BandageLib STATIC ${LIB_SOURCES} ${FORMS} graphsearch/graphsearchers.cpp)
target_link_libraries(BandageLib PRIVATE BandageLayout BandageIo Qt6::Concurrent Qt6::Widgets Qt6::Svg ZLIB::ZLIB)
target_include_directories(BandageLib INTERFACE ".")
add_library(BandageCLI STATIC ${CLI_SOURCES})
target_link_libraries(BandageCLI PRIVATE BandageLib CLI11::CLI11 Qt6::Core Qt6::Gui Qt6::Widgets Qt6::Svg)
add_executable(BandageNG program/main.cpp ${RESOURCES})
target_link_libraries(BandageNG BandageCLI BandageLib CLI11::CLI11 Qt6::Core Qt6::Widgets Qt6::Concurrent ZLIB::ZLIB)
if (APPLE)
set_target_properties(BandageNG PROPERTIES
MACOSX_BUNDLE ON
MACOSX_BUNDLE_BUNDLE_NAME "BandageNG"
MACOSX_BUNDLE_BUNDLE_IDENTIFIER "org.bandage-ng.app"
MACOSX_BUNDLE_ICON_FILE "application.icns")
set_source_files_properties(images/application.icns PROPERTIES
MACOSX_PACKAGE_LOCATION "Resources")
endif()
add_subdirectory(resources)
install(TARGETS BandageNG
DESTINATION bin
COMPONENT main)
enable_testing(true)
add_subdirectory(tests)