diff --git a/biology/py-biom-format/Makefile b/biology/py-biom-format/Makefile
--- a/biology/py-biom-format/Makefile
+++ b/biology/py-biom-format/Makefile
@@ -1,8 +1,6 @@
 PORTNAME=	biom-format
-PORTVERSION=	2.1.16
-PORTREVISION=	1
+DISTVERSION=	2.1.17
 CATEGORIES=	biology python
-MASTER_SITES=	PYPI
 PKGNAMEPREFIX=	${PYTHON_PKGNAMEPREFIX}
 
 MAINTAINER=	jrm@FreeBSD.org
@@ -11,22 +9,26 @@
 
 LICENSE=	BSD3CLAUSE
 
-BUILD_DEPENDS=	${PYNUMPY}
-RUN_DEPENDS=	${PYTHON_PKGNAMEPREFIX}click>0:devel/py-click@${PY_FLAVOR} \
-		${PYNUMPY} \
-		${PYTHON_PKGNAMEPREFIX}scipy>=1.3.1:science/py-scipy@${PY_FLAVOR} \
+BUILD_DEPENDS=	${PYNUMPY} \
+		${PYTHON_PKGNAMEPREFIX}setuptools>=0:devel/py-setuptools@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}wheel>=0:devel/py-wheel@${PY_FLAVOR}
+RUN_DEPENDS=	${PYNUMPY} \
+		${PYTHON_PKGNAMEPREFIX}click>0:devel/py-click@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}h5py>=2.2.0:science/py-h5py@${PY_FLAVOR} \
 		${PYTHON_PKGNAMEPREFIX}pandas>=0.20.0:math/py-pandas@${PY_FLAVOR} \
-		${PYTHON_PKGNAMEPREFIX}h5py>=2.2.0:science/py-h5py@${PY_FLAVOR}
+		${PYTHON_PKGNAMEPREFIX}scipy>=1.3.1:science/py-scipy@${PY_FLAVOR}
+TEST_DEPENDS=	${PYTHON_PKGNAMEPREFIX}flake8>=4.0.1:devel/py-flake8@${PY_FLAVOR} \
+		${PYTHON_PKGNAMEPREFIX}pytest-cov>=0:devel/py-pytest-cov@${PY_FLAVOR}
 
 USES=		python
-USE_PYTHON=	autoplist concurrent cython distutils pytest
-
-.include <bsd.port.pre.mk>
-
-post-extract:
-	${RM} -r ${WRKSRC}/tests
+USE_GITHUB=	yes
+GH_ACCOUNT=	biocore
+USE_PYTHON=	autoplist concurrent cython3 pep517 pytest
 
 post-install:
-	${STRIP_CMD} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR}/biom/*.so
+	@${FIND} ${STAGEDIR}${PYTHONPREFIX_SITELIBDIR} -name '*.so' -exec ${STRIP_CMD} {} +
+
+do-test:
+	cd ${WRKSRC} && ${PYTHON_CMD} setup.py build_ext --inplace && ${PYTHON_CMD} -m pytest biom
 
-.include <bsd.port.post.mk>
+.include <bsd.port.mk>
diff --git a/biology/py-biom-format/distinfo b/biology/py-biom-format/distinfo
--- a/biology/py-biom-format/distinfo
+++ b/biology/py-biom-format/distinfo
@@ -1,3 +1,3 @@
-TIMESTAMP = 1718787972
-SHA256 (biom-format-2.1.16.tar.gz) = 47f88d57a94ecaa4d06f3578ca394e78db6d12e46ab0886634743181e67dcfc9
-SIZE (biom-format-2.1.16.tar.gz) = 11720476
+TIMESTAMP = 1766032026
+SHA256 (biocore-biom-format-2.1.17_GH0.tar.gz) = 70dc179472330e6cfb1b1e3483bcf3e17a9dedd91e7ee7c38b2906f1852cb042
+SIZE (biocore-biom-format-2.1.17_GH0.tar.gz) = 11893179