Path: blob/main/biology/freebayes/files/patch-SeqLib_htslib_Makefile
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--- SeqLib/htslib/Makefile.orig 2017-06-20 12:40:28 UTC +++ SeqLib/htslib/Makefile @@ -22,20 +22,20 @@ # FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER # DEALINGS IN THE SOFTWARE. -CC = gcc -AR = ar -RANLIB = ranlib +CC ?= gcc +AR ?= ar +RANLIB ?= ranlib # Default libraries to link if configure is not used htslib_default_libs = -lz -lm -lbz2 -llzma -CPPFLAGS = +CPPFLAGS ?= # TODO: probably update cram code to make it compile cleanly with -Wc++-compat # For testing strict C99 support add -std=c99 -D_XOPEN_SOURCE=600 #CFLAGS = -g -Wall -O2 -pedantic -std=c99 -D_XOPEN_SOURCE=600 -D__FUNCTION__=__func__ -CFLAGS = -g -Wall -O2 +CFLAGS ?= -g -Wall -O2 EXTRA_CFLAGS_PIC = -fpic -LDFLAGS = +LDFLAGS ?= LIBS = $(htslib_default_libs) prefix = /usr/local @@ -86,7 +86,7 @@ BUILT_THRASH_PROGRAMS = \ test/thrash_threads5 \ test/thrash_threads6 -all: lib-static lib-shared $(BUILT_PROGRAMS) plugins $(BUILT_TEST_PROGRAMS) +all: lib-static $(BUILT_PROGRAMS) plugins $(BUILT_TEST_PROGRAMS) HTSPREFIX = include htslib_vars.mk