stacks: Add patch

[root <root%centosdev.ceas.uwm.edu@localhost>]

Module Name:	pkgsrc-wip
Committed By:	root <root%centosdev.ceas.uwm.edu@localhost>
Pushed By:	outpaddling
Date:		Thu Mar 22 16:47:29 2018 -0500
Changeset:	524c7536948b326cb981239b7165ddcd1a07af58

Added Files:
	stacks/patches/patch-htslib_Makefile

Log Message:
stacks: Add patch

To see a diff of this commit:
https://wip.pkgsrc.org/cgi-bin/gitweb.cgi?p=pkgsrc-wip.git;a=commitdiff;h=524c7536948b326cb981239b7165ddcd1a07af58

Please note that diffs are not public domain; they are subject to the
copyright notices on the relevant files.

diffstat:
 stacks/patches/patch-htslib_Makefile | 23 +++++++++++++++++++++++
 1 file changed, 23 insertions(+)

diffs:
diff --git a/stacks/patches/patch-htslib_Makefile b/stacks/patches/patch-htslib_Makefile
new file mode 100644
index 0000000000..60c36be78c
--- /dev/null
+++ b/stacks/patches/patch-htslib_Makefile
@@ -0,0 +1,23 @@
+$NetBSD$
+
+#use pkgsrc defined compiler
+--- htslib/Makefile.orig	2016-09-16 15:40:03 UTC
++++ htslib/Makefile
+@@ -22,13 +22,13 @@
+ # 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
+ 
+ CPPFLAGS =
+ # TODO: probably update cram code to make it compile cleanly with -Wc++-compat
+-CFLAGS   = -g -Wall -O2
++CFLAGS   ?= -g -Wall -O2
+ EXTRA_CFLAGS_PIC = -fpic
+ LDFLAGS  =
+ LIBS     =