1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
|
Author: Andreas Tille <tille@debian.org>
Last-Update: Fri, 05 Jun 2020 17:53:54 +0200
Description: Use Debian packaged libraries also in tests
--- a/test/CMakeLists.txt
+++ b/test/CMakeLists.txt
@@ -11,6 +11,7 @@ project(iitii)
INCLUDE(ExternalProject)
include_directories(${PROJECT_SOURCE_DIR}/..)
+if(!DEBIAN_BUILD)
# After build, double-check external/src/htslib-stamp/htslib-build-out.log
# to make sure CFLAGS were set as expected
ExternalProject_Add(htslib
@@ -44,6 +45,9 @@ ExternalProject_Add(CTPL
ExternalProject_Get_Property(CTPL source_dir)
set(CTPL_INCLUDE_DIR ${source_dir})
include_directories(${CTPL_INCLUDE_DIR})
+else()
+include_directories(/usr/include/htslib)
+endif()
ExternalProject_Add(catch
URL https://github.com/philsquared/Catch/archive/v2.9.1.zip
@@ -59,15 +63,20 @@ include_directories(${source_dir}/single
set(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -pthread -std=c++17 -Wall -Werror=return-type -Wno-reorder -fdiagnostics-color=auto")
add_executable(test_iitii util.h test_iitii.cc)
-add_dependencies(test_iitii catch libhts)
+find_package(PkgConfig REQUIRED)
+pkg_search_module(GLIB REQUIRED glib-2.0)
+include_directories(${GLIB_INCLUDE_DIRS})
+include_directories("../src") ## FIXME: for autopkgtest this line has to be removed
+## target_link_libraries(test_iitii ${GLIB_LDFLAGS})
+#add_dependencies(test_iitii catch libhts)
target_link_libraries(test_iitii libhts libz.a libbz2.a liblzma.a)
add_executable(dumb_benchmark util.h dumb_benchmark.cc)
-add_dependencies(dumb_benchmark libhts)
+#add_dependencies(dumb_benchmark libhts)
target_link_libraries(dumb_benchmark libhts libz.a libbz2.a liblzma.a)
add_executable(gnomad_benchmark util.h gnomad_benchmark.cc)
-add_dependencies(gnomad_benchmark libhts)
+# add_dependencies(gnomad_benchmark libhts)
target_link_libraries(gnomad_benchmark libhts libz.a libbz2.a liblzma.a)
include(CTest)
|
