diff --git a/biology/picard-tools/Makefile b/biology/picard-tools/Makefile
index 245a0a5c3d00..bf250a7fe878 100644
--- a/biology/picard-tools/Makefile
+++ b/biology/picard-tools/Makefile
@@ -1,36 +1,35 @@
 PORTNAME=	picard
-DISTVERSION=	2.22.9
-PORTREVISION=	2
+DISTVERSION=	3.5.0
 CATEGORIES=	biology java
 MASTER_SITES=	http://github.com/broadinstitute/picard/releases/download/${PORTVERSION}/
 PKGNAMESUFFIX=	-tools
 DISTNAME=	${PORTNAME}
 EXTRACT_SUFX=	.jar
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	CLI tools for manipulating high-throughput sequencing (HTS) data
-WWW=		https://broadinstitute.github.io/picard/
+WWW=		https://github.com/broadinstitute/picard
 
 LICENSE=	MIT
 
 RUN_DEPENDS=	samtools:biology/samtools
 
-USES=		java
+USES=		java:run
 
 CONFLICTS_INSTALL=	picard # bin/picard
 
 SUB_FILES=	picard
 NO_BUILD=	yes
 NO_ARCH=	yes
 
 PLIST_FILES=	bin/picard ${JAVAJARDIR}/picard.jar
 
 do-extract:
 	# No extract
 
 do-install:
 	${INSTALL_DATA} ${DISTDIR}/${DISTNAME}${EXTRACT_SUFX} \
 		${STAGEDIR}${JAVAJARDIR}
 	${INSTALL_SCRIPT} ${WRKDIR}/picard ${STAGEDIR}${PREFIX}/bin
 
 .include <bsd.port.mk>
diff --git a/biology/picard-tools/distinfo b/biology/picard-tools/distinfo
index a4e72523df98..0d8391e18d6f 100644
--- a/biology/picard-tools/distinfo
+++ b/biology/picard-tools/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1591387929
-SHA256 (picard.jar) = a3d8830f68443a745cca9e1bab9adbc1c435fe3639709b118f5a89858a12a362
-SIZE (picard.jar) = 17520128
+TIMESTAMP = 1788997123
+SHA256 (picard.jar) = b7d97861c3a54ba5a421f5a317f38382f955803862d30ef4aca2bcdc54943631
+SIZE (picard.jar) = 64763062
diff --git a/biology/picard-tools/files/picard.in b/biology/picard-tools/files/picard.in
old mode 100644
new mode 100755