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authorDavid Seifert <soap@gentoo.org>2016-05-08 01:20:43 +0200
committerDavid Seifert <soap@gentoo.org>2016-05-08 01:20:43 +0200
commit1af3cb1d79a54e814b222cb56e4de3630136b828 (patch)
tree245e32ad67080031bd909dc246ee4327fd56d155 /sci-biology/bwa/files/bwa-0.7.13-Makefile.patch
parentDrop invalid deps (diff)
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sci-biology/bwa: move to main tree
Diffstat (limited to 'sci-biology/bwa/files/bwa-0.7.13-Makefile.patch')
-rw-r--r--sci-biology/bwa/files/bwa-0.7.13-Makefile.patch27
1 files changed, 0 insertions, 27 deletions
diff --git a/sci-biology/bwa/files/bwa-0.7.13-Makefile.patch b/sci-biology/bwa/files/bwa-0.7.13-Makefile.patch
deleted file mode 100644
index 406e9b052..000000000
--- a/sci-biology/bwa/files/bwa-0.7.13-Makefile.patch
+++ /dev/null
@@ -1,27 +0,0 @@
---- Makefile
-+++ Makefile
-@@ -1,8 +1,8 @@
--CC= gcc
-+CC?= gcc
- #CC= clang --analyze
--CFLAGS= -g -Wall -Wno-unused-function -O2
-+CFLAGS?= -g -Wall -Wno-unused-function -O2
- WRAP_MALLOC=-DUSE_MALLOC_WRAPPERS
--AR= ar
-+AR?= ar
- DFLAGS= -DHAVE_PTHREAD $(WRAP_MALLOC)
- LOBJS= utils.o kthread.o kstring.o ksw.o bwt.o bntseq.o bwa.o bwamem.o bwamem_pair.o bwamem_extra.o malloc_wrap.o
- AOBJS= QSufSort.o bwt_gen.o bwashm.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o \
-@@ -26,10 +26,10 @@
- all:$(PROG)
-
- bwa:libbwa.a $(AOBJS) main.o
-- $(CC) $(CFLAGS) $(DFLAGS) $(AOBJS) main.o -o $@ -L. -lbwa $(LIBS)
-+ $(CC) $(CFLAGS) $(LDFLAGS) $(DFLAGS) $(AOBJS) main.o -o $@ -L. -lbwa $(LIBS)
-
- bwamem-lite:libbwa.a example.o
-- $(CC) $(CFLAGS) $(DFLAGS) example.o -o $@ -L. -lbwa $(LIBS)
-+ $(CC) $(CFLAGS) $(LDFLAGS) $(DFLAGS) example.o -o $@ -L. -lbwa $(LIBS)
-
- libbwa.a:$(LOBJS)
- $(AR) -csru $@ $(LOBJS)