Index: head/biology/phyml/Makefile
===================================================================
--- head/biology/phyml/Makefile	(revision 460568)
+++ head/biology/phyml/Makefile	(revision 460569)
@@ -1,68 +1,67 @@
 # Created by: ballen
 # $FreeBSD$
 
 PORTNAME=	phyml
-DISTVERSIONPREFIX=	v
-DISTVERSION=	3.3.20170530
+DISTVERSION=	3.3.20180129
 PORTEPOCH=	1
 CATEGORIES=	biology
 
 MAINTAINER=	ports@FreeBSD.org
 COMMENT=	Simple, fast, and accurate algorithm to estimate large phylogenies
 
 LICENSE=	GPLv2
 LICENSE_FILE=	${WRKSRC}/COPYING
 
 #BROKEN_aarch64=		fails to compile: c++: the clang compiler does not support '-march=native'
 #BROKEN_armv6=		fails to compile: c++: the clang compiler does not support '-march=native'
 #BROKEN_armv7=		fails to compile: c++: the clang compiler does not support '-march=native'
 
 USE_GITHUB=	yes
 GH_ACCOUNT=	stephaneguindon
 
 USES=		autoreconf libtool pkgconfig
 GNU_CONFIGURE=	yes
 CONFIGURE_ARGS=	--disable-beagle
 
 PORTDOCS=	*
 PORTEXAMPLES=	*
 PLIST_FILES=	bin/phyml${BIN_SUFFIX}
 
 OPTIONS_DEFINE=		DOCS EXAMPLES
 OPTIONS_RADIO=		MPI
 OPTIONS_RADIO_MPI=	MPICH2 OPENMPI
 
 MPICH2_LIB_DEPENDS=	libmpich.so:net/mpich2
 MPICH2_MAKE_ARGS=	CC="${LOCALBASE}/bin/mpicc"
 OPENMPI_LIB_DEPENDS=	libmpi.so:net/openmpi
 OPENMPI_MAKE_ARGS=	CC="${LOCALBASE}/mpi/openmpi/bin/mpicc"
 
 .include <bsd.port.options.mk>
 
 .if ${PORT_OPTIONS:MMPICH2} || ${PORT_OPTIONS:MOPENMPI}
 CONFIGURE_ARGS+=	--enable-mpi
 BIN_SUFFIX=		-mpi
 .else
 CONFIGURE_ARGS+=	--disable-mpi
 BIN_SUFFIX=		# none
 .endif
 
 post-patch:
 	@${REINPLACE_CMD} -e \
 		's|-O2 .* $${ARCH_flag}|$${CFLAGS}|' ${WRKSRC}/configure.ac
 .if ${ARCH} != amd64 && ${ARCH} != i386
 	@${REINPLACE_CMD} -e 's|VECTOR_FLAG=-march=native|dnl &|' ${WRKSRC}/configure.ac
 .endif
 	@${REINPLACE_CMD} -e 's|malloc.h|stdlib.h|' ${WRKSRC}/src/utilities.h
 
 post-install-DOCS-on:
 	@${MKDIR} ${STAGEDIR}${DOCSDIR}
 	(cd ${WRKSRC}/doc && ${INSTALL_DATA} *.pdf \
 		${STAGEDIR}${DOCSDIR})
 
 post-install-EXAMPLES-on:
 	@${MKDIR} ${STAGEDIR}${EXAMPLESDIR}
 	@(cd ${WRKSRC}/examples && ${COPYTREE_SHARE} . \
 		${STAGEDIR}${EXAMPLESDIR})
 
 .include <bsd.port.mk>
Index: head/biology/phyml/distinfo
===================================================================
--- head/biology/phyml/distinfo	(revision 460568)
+++ head/biology/phyml/distinfo	(revision 460569)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1504443436
-SHA256 (stephaneguindon-phyml-v3.3.20170530_GH0.tar.gz) = f826726cd56b755be75f923abdf29aca8a9951d6af948cddbab40739a8f99f74
-SIZE (stephaneguindon-phyml-v3.3.20170530_GH0.tar.gz) = 2121298
+TIMESTAMP = 1517469692
+SHA256 (stephaneguindon-phyml-3.3.20180129_GH0.tar.gz) = 9fe2158ca6dfdd08269b3890d6f5e35d4cbaef2f7c9be9ed3bd3af8209f4862b
+SIZE (stephaneguindon-phyml-3.3.20180129_GH0.tar.gz) = 2459684