diff --git a/biology/hyphy/Makefile b/biology/hyphy/Makefile
index c56703283a9e..7ee7c7bacef0 100644
--- a/biology/hyphy/Makefile
+++ b/biology/hyphy/Makefile
@@ -1,24 +1,24 @@
 PORTNAME=	hyphy
-DISTVERSION=	2.5.39
+DISTVERSION=	2.5.40
 CATEGORIES=	biology
 
 MAINTAINER=	jrm@FreeBSD.org
 COMMENT=	Hypothesis testing using Phylogenies
 
 LICENSE=	MIT
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 ONLY_FOR_ARCHS=	aarch64 amd64 armv7 i386 powerpc64le powerpc64 powerpc
 
 LIB_DEPENDS=	libcurl.so:ftp/curl
 
 USES=		cmake localbase:ldflags
 USE_GITHUB=	yes
 GH_ACCOUNT=	veg
 
 OPTIONS_DEFINE=	AVX
 AVX_DESC=	Advanced vector extensions support
 
 AVX_CMAKE_OFF=	-DNOAVX:BOOL=ON
 
 .include <bsd.port.mk>
diff --git a/biology/hyphy/distinfo b/biology/hyphy/distinfo
index fb5a444fb4a3..3dd32bc4d4fb 100644
--- a/biology/hyphy/distinfo
+++ b/biology/hyphy/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1653616548
-SHA256 (veg-hyphy-2.5.39_GH0.tar.gz) = b2382dc95924ddea09fc1a795568d5727c4b0bdee916f1f41afc6401363f0cf5
-SIZE (veg-hyphy-2.5.39_GH0.tar.gz) = 5374983
+TIMESTAMP = 1658155609
+SHA256 (veg-hyphy-2.5.40_GH0.tar.gz) = 4d588fa761ce2c81ac8ad68457802f6c9fe648c7c46c7ed9c57e1323c0462a82
+SIZE (veg-hyphy-2.5.40_GH0.tar.gz) = 5634810