Index: head/biology/hyphy/Makefile
===================================================================
--- head/biology/hyphy/Makefile	(revision 547369)
+++ head/biology/hyphy/Makefile	(revision 547370)
@@ -1,23 +1,26 @@
 # $FreeBSD$
 
 PORTNAME=	hyphy
-DISTVERSION=	2.5.17
+DISTVERSION=	2.5.18
 CATEGORIES=	biology
 
 MAINTAINER=	jrm@FreeBSD.org
 COMMENT=	Hypothesis testing using Phylogenies
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 ONLY_FOR_ARCHS=	amd64 i386
 
 LIB_DEPENDS=	libcurl.so:ftp/curl
 
-USES=		compiler:openmp cmake localbase:ldflags ssl
+USES=		cmake compiler:openmp localbase:ldflags ssl
 USE_GITHUB=	yes
 GH_ACCOUNT=	veg
 
-CMAKE_ON=	NOAVX
+OPTIONS_DEFINE=	AVX
+AVX_DESC=	Advanced vector extensions support
+
+AVX_CMAKE_OFF=	-DNOAVX:BOOL=ON
 
 .include <bsd.port.mk>
Index: head/biology/hyphy/distinfo
===================================================================
--- head/biology/hyphy/distinfo	(revision 547369)
+++ head/biology/hyphy/distinfo	(revision 547370)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1597935241
-SHA256 (veg-hyphy-2.5.17_GH0.tar.gz) = 8511a7beff1dfb5d274d1335c3fa20071f2f8262ada88ad30fae562d8b0f3e12
-SIZE (veg-hyphy-2.5.17_GH0.tar.gz) = 5244231
+TIMESTAMP = 1599060037
+SHA256 (veg-hyphy-2.5.18_GH0.tar.gz) = 8eb978eb55d659fccb7e6a29b5ff8a87425f3317d5237c3b706ea918d4d5cf82
+SIZE (veg-hyphy-2.5.18_GH0.tar.gz) = 5250528
Index: head/biology/hyphy/files/patch-src_core_matrix.cpp
===================================================================
--- head/biology/hyphy/files/patch-src_core_matrix.cpp	(nonexistent)
+++ head/biology/hyphy/files/patch-src_core_matrix.cpp	(revision 547370)
@@ -0,0 +1,20 @@
+--- src/core/matrix.cpp.orig	2020-09-02 16:12:43 UTC
++++ src/core/matrix.cpp
+@@ -3128,8 +3128,6 @@ void    _Matrix::AddMatrix  (_Matrix& storage, _Matrix
+                      CELL_OP (idx+8);
+                      CELL_OP (idx+12);
+                  }
+-            }
+-
+  #else
+                 for (long idx = 0; idx < upto; idx+=4) {
+                     stData[idx]+=argData[idx];
+@@ -3138,7 +3136,7 @@ void    _Matrix::AddMatrix  (_Matrix& storage, _Matrix
+                     stData[idx+3]+=argData[idx+3];
+                 }
+ #endif
+-                
++            }
+             if (subtract)
+                 for (long idx = upto; idx < secondArg.lDim; idx++) {
+                     stData[idx]-=argData[idx];

Property changes on: head/biology/hyphy/files/patch-src_core_matrix.cpp
___________________________________________________________________
Added: fbsd:nokeywords
## -0,0 +1 ##
+yes
\ No newline at end of property
Added: svn:eol-style
## -0,0 +1 ##
+native
\ No newline at end of property
Added: svn:mime-type
## -0,0 +1 ##
+text/plain
\ No newline at end of property