[WIP] Add makefile patch, bump BWA. (#13594)

* Add makefile patch * Try bigger patch
bioconda · Feb 13, 2019 · 30beda1 · 30beda1
1 parent 814f7b3
commit 30beda1
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diff --git a/recipes/bwa/Makefile.patch b/recipes/bwa/Makefile.patch
@@ -0,0 +1,16 @@
+diff --git a/Makefile b/Makefile
+index 7151435..2f0a4fe 100644
+--- a/Makefile
++++ b/Makefile
+@@ -1,9 +1,9 @@
+-CC=			gcc
++#CC=			gcc
+ #CC=			clang --analyze
+ CFLAGS=		-g -Wall -Wno-unused-function -O2
+ WRAP_MALLOC=-DUSE_MALLOC_WRAPPERS
+ AR=			ar
+-DFLAGS=		-DHAVE_PTHREAD $(WRAP_MALLOC)
++DFLAGS=		-DHAVE_PTHREAD $(WRAP_MALLOC) $(LDFLAGS)
+ 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 \
+ 			QSufSort.o bwt_gen.o rope.o rle.o is.o bwtindex.o
+ AOBJS=		bwashm.o bwase.o bwaseqio.o bwtgap.o bwtaln.o bamlite.o \
diff --git a/recipes/bwa/meta.yaml b/recipes/bwa/meta.yaml
@@ -8,9 +8,11 @@ package:
 source:
   url: https://github.com/lh3/bwa/archive/v{{ version }}.tar.gz
   sha256: {{ sha256 }}
+  patches:
+    - Makefile.patch
 
 build:
-  number: 4
+  number: 5
 
 requirements:
   build: