diff options
Diffstat (limited to 'sci-biology/kat/files/kat-2.4.2-ignore-bundled-deps.patch')
| -rw-r--r-- | sci-biology/kat/files/kat-2.4.2-ignore-bundled-deps.patch | 79 |
1 files changed, 79 insertions, 0 deletions
diff --git a/sci-biology/kat/files/kat-2.4.2-ignore-bundled-deps.patch b/sci-biology/kat/files/kat-2.4.2-ignore-bundled-deps.patch new file mode 100644 index 000000000..46d343294 --- /dev/null +++ b/sci-biology/kat/files/kat-2.4.2-ignore-bundled-deps.patch @@ -0,0 +1,79 @@ +diff --git a/lib/Makefile.am b/lib/Makefile.am +index ac23917..0ca4be9 100644 +--- a/lib/Makefile.am ++++ b/lib/Makefile.am +@@ -6,7 +6,6 @@ pkgconfig_DATA = kat.pc + lib_LTLIBRARIES = libkat.la + + libkat_la_LDFLAGS = \ +- -L$(top_builddir)/deps/boost/build/lib/ \ + -version-info 2:4:2 + + LIBS = \ +@@ -41,7 +40,6 @@ library_include_HEADERS = $(KI)/distance_metrics.hpp \ + + libkat_la_CPPFLAGS = \ + -I$(top_srcdir)/deps/jellyfish-2.2.0/include \ +- -I$(top_srcdir)/deps/boost/build/include \ + -I$(top_srcdir)/lib/include \ + -DKAT_SITE_PKGS='"$(prefix)/lib/python$(PYTHON_VERSION)/site-packages"' \ + @AM_CPPFLAGS@ +diff --git a/src/Makefile.am b/src/Makefile.am +index 1cdf7e0..dfa878b 100644 +--- a/src/Makefile.am ++++ b/src/Makefile.am +@@ -14,7 +14,6 @@ kat_CXXFLAGS = \ + kat_CPPFLAGS = \ + -I$(top_srcdir)/deps/seqan-library-2.0.0/include \ + -I$(top_srcdir)/deps/jellyfish-2.2.0/include \ +- -I$(top_srcdir)/deps/boost/build/include \ + -I$(top_srcdir)/lib/include \ + -DKAT_SCRIPTS='"$(datarootdir)/scripts"' \ + -DKAT_SITE_PKGS='"$(prefix)/lib/python$(PYTHON_VERSION)/site-packages"' \ +@@ -25,13 +24,13 @@ kat_LDFLAGS = \ + @AM_LDFLAGS@ + + kat_LDADD = \ +- $(top_builddir)/deps/boost/build/lib/libboost_timer.a \ +- $(top_builddir)/deps/boost/build/lib/libboost_chrono.a \ +- $(top_builddir)/deps/boost/build/lib/libboost_filesystem.a \ +- $(top_builddir)/deps/boost/build/lib/libboost_program_options.a \ +- $(top_builddir)/deps/boost/build/lib/libboost_system.a \ +- $(top_builddir)/deps/jellyfish-2.2.0/.libs/libkat_jellyfish.la \ + $(top_builddir)/lib/libkat.la \ ++ $(top_builddir)/deps/jellyfish-2.2.0/.libs/libkat_jellyfish.la \ ++ -lboost_timer \ ++ -lboost_chrono \ ++ -lboost_filesystem \ ++ -lboost_program_options \ ++ -lboost_system \ + @AM_LIBS@ + + noinst_HEADERS = \ +diff --git a/tests/Makefile.am b/tests/Makefile.am +index eee4e8b..dec2a5f 100644 +--- a/tests/Makefile.am ++++ b/tests/Makefile.am +@@ -31,7 +31,6 @@ AM_CPPFLAGS = \ + -I$(top_srcdir)/lib/include \ + -I$(top_srcdir)/deps/seqan-library-2.0.0/include \ + -I$(top_srcdir)/deps/jellyfish-2.2.0/include \ +- -I$(top_srcdir)/deps/boost/build/include \ + -DDATADIR=\"$(srcdir)/data\" \ + -DKAT_SITE_PKGS='"$(prefix)/lib/python$(PYTHON_VERSION)/site-packages"' \ + @AM_CPPFLAGS@ +@@ -58,13 +57,11 @@ check_unit_tests_SOURCES = \ + + check_unit_tests_LDFLAGS = \ + -static \ +- -L$(top_builddir)/deps/boost/build/lib \ +- -Wl,-rpath $(top_builddir)/deps/boost/build/lib \ + @AM_LDFLAGS@ + + check_unit_tests_LDADD = \ + libgtest.la \ +- $(top_builddir)/lib/libkat.la \ ++ $(top_builddir)/lib/libkat.la \ + -lboost_timer \ + -lboost_chrono \ + -lboost_filesystem \ |