diff --git a/biology/gatk/Makefile b/biology/gatk/Makefile
index 11e3971e5dab..4c3a2bc0147f 100644
--- a/biology/gatk/Makefile
+++ b/biology/gatk/Makefile
@@ -1,93 +1,93 @@
 PORTNAME=	gatk
-DISTVERSION=	4.2.0.0
+DISTVERSION=	4.2.6.0
 CATEGORIES=	biology java
 EXTRACT_ONLY=	${DISTNAME}${EXTRACT_SUFX}
 
 MAINTAINER=	yuri@FreeBSD.org
 COMMENT=	Variant discovery in high-throughput sequencing data
 
 LICENSE=	BSD3CLAUSE
 LICENSE_FILE=	${WRKSRC}/LICENSE.TXT
 
 BROKEN_FreeBSD_12_powerpc64=	fails to build: String index out of range: -1
 
-BUILD_DEPENDS=	gradle62:devel/gradle62
+BUILD_DEPENDS=	gradle:devel/gradle
 
 USES=		gettext-runtime
 USE_GITHUB=	yes
 GH_ACCOUNT=	broadinstitute
 USE_JAVA=	yes
 
 SUB_FILES=	${PORTNAME}.sh
 SUB_LIST=	PORTVERSION=${PORTVERSION} JAVA=${JAVA}
 
 NO_ARCH=	yes
 
 DEPS_CACHE_DIR=	${WRKDIR}
 
 PLIST_FILES=	bin/${PORTNAME} \
 		${JAVAJARDIR}/GenomeAnalysisTK-${PORTVERSION}.jar
 
 # TODO additionally fetch git-lfs files: https://github.com/broadinstitute/gatk/issues/6395
 
 # to rebuild the deps archive:
 #   1. set DEV_UPDATE_MODE=yes
 #   2. make makesum build
 #   3. upload the *-deps archive
 #   4. set DEV_UPDATE_MODE=no
 #   5. make clean makesum
 
 DEV_UPDATE_MODE=	no
 
 OPTIONS_DEFINE=			WITH_LARGE_FILES # probably should be default for tests, but the build doesn't seem to be affected contrary to what README says
 
 WITH_LARGE_FILES_DESC=		Download large LFS files needed for build and tests
 WITH_LARGE_FILES_FETCH_DEPENDS=	git:devel/git \
 				git-lfs:devel/git-lfs
 
 .include <bsd.port.options.mk>
 
 .if ${PORT_OPTIONS:MWITH_LARGE_FILES}
 do-fetch:
 	@if [ "${FORCE_FETCH_ALL}" = "true" ] || ! [ -f "${DISTDIR}/${DIST_SUBDIR}/${DISTNAME}${EXTRACT_SUFX}" ]; then \
 		${MKDIR} ${DISTDIR}/${DIST_SUBDIR} && \
 		cd ${DISTDIR}/${DIST_SUBDIR} && \
 		${ECHO} "==> Fetching ${PORTNAME} including large LFS files" && \
 		( \
 			${MKDIR} ${WRKDIR}; \
 			HOME=${WRKDIR}; \
 			git config --global filter.lfs.smudge "git-lfs smudge -- %f" && \
 			git clone -q https://github.com/broadinstitute/gatk.git ${PORTNAME}-${DISTVERSION} && \
 			(cd ${PORTNAME}-${DISTVERSION} && git reset -q --hard ${DISTVERSION} && ${RM} -r .git) && \
 			${RM} -r ${WRKDIR} \
 		) && \
 		${FIND} ${PORTNAME}-${DISTVERSION} -and -exec ${TOUCH} -h -d 1970-01-01T00:00:00Z {} \; && \
 		${FIND} ${PORTNAME}-${DISTVERSION} -print0 | LC_ALL=C ${SORT} -z | \
 		${TAR} czf ${DISTNAME}${EXTRACT_SUFX} --format=bsdtar --gid 0 --uid 0 --options gzip:!timestamp --no-recursion --null -T - && \
 		${RM} -r ${PORTNAME}-${DISTVERSION}; \
 	fi
 .endif
 
 .if (${DEV_UPDATE_MODE} == "yes")
 post-build:
 	@cd ${DEPS_CACHE_DIR} && ${TAR} czf ${DISTDIR}/${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX} gradle-${PORTNAME}
 	@${ECHO} "(!!!) Please upload the gradle deps archive: ${DISTDIR}/${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX}"
 .else
 MASTER_SITES=	LOCAL/yuri/:deps
 DISTFILES=	${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX}:deps
 GRADLE_ARGS=	--offline
 
 post-extract: # need a separate extract step because the cache is in /tmp, and not under work/ like with maven
 	@cd ${DEPS_CACHE_DIR} && ${TAR} xzf ${DISTDIR}/${PORTNAME}-${DISTVERSION}-deps${EXTRACT_SUFX}
 .endif
 
 do-build:
-	@cd ${WRKSRC} && ${SETENV} ${MAKE_ENV} gradle62 \
+	@cd ${WRKSRC} && ${SETENV} ${MAKE_ENV} gradle \
 		--gradle-user-home ${DEPS_CACHE_DIR}/gradle-${PORTNAME} --project-cache-dir ${DEPS_CACHE_DIR}/gradle-${PORTNAME} \
 		${GRADLE_ARGS} --build-cache localJar
 
 do-install:
 	${INSTALL_SCRIPT} ${WRKDIR}/${PORTNAME}.sh ${STAGEDIR}${PREFIX}/bin/${PORTNAME}
 	${INSTALL_DATA} ${WRKSRC}/build/libs/gatk-package-1.0-SNAPSHOT-local.jar ${STAGEDIR}${JAVAJARDIR}/GenomeAnalysisTK-${PORTVERSION}.jar
 
 .include <bsd.port.mk>
diff --git a/biology/gatk/distinfo b/biology/gatk/distinfo
index 017c83417aa0..1aba6894ba0a 100644
--- a/biology/gatk/distinfo
+++ b/biology/gatk/distinfo
@@ -1,5 +1,5 @@
-TIMESTAMP = 1615661028
-SHA256 (gatk-4.2.0.0-deps.tar.gz) = 12d2415904bae017169a3177ecd86d48f4faa7d862c0b24ccd224f0f6a95b221
-SIZE (gatk-4.2.0.0-deps.tar.gz) = 281152285
-SHA256 (broadinstitute-gatk-4.2.0.0_GH0.tar.gz) = 5766f135e372e122ce92c87e604342229228c8ceb98be1e74d52a7039e208e01
-SIZE (broadinstitute-gatk-4.2.0.0_GH0.tar.gz) = 75705393
+TIMESTAMP = 1649626976
+SHA256 (gatk-4.2.6.0-deps.tar.gz) = 8463fb40b969ef29b59663e222b00478aec5704be29ac166706457aa05cf5514
+SIZE (gatk-4.2.6.0-deps.tar.gz) = 545437623
+SHA256 (broadinstitute-gatk-4.2.6.0_GH0.tar.gz) = 6474111fd7686d06d9b6cb358c189739f15f8d720b5ce079fc0e3356e3e76bc2
+SIZE (broadinstitute-gatk-4.2.6.0_GH0.tar.gz) = 92541777