diff --git a/biology/htslib/Makefile b/biology/htslib/Makefile
index 38ef7358c154..5b3c5908f428 100644
--- a/biology/htslib/Makefile
+++ b/biology/htslib/Makefile
@@ -1,42 +1,42 @@
 PORTNAME=	htslib
 DISTVERSION=	1.22
 CATEGORIES=	biology devel
 # Github generated distfiles are incomplete, so use custom tarball
 MASTER_SITES=	https://github.com/samtools/htslib/releases/download/${DISTVERSION}/
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	C library for high-throughput sequencing data formats
 WWW=		https://www.htslib.org/
 
 LICENSE=	BSD3CLAUSE MIT
 LICENSE_COMB=	multi
 LICENSE_FILE=	${WRKSRC}/LICENSE
 
 LIB_DEPENDS=	libdeflate.so:archivers/libdeflate
 TEST_DEPENDS=	bash:shells/bash
 
-USES=		autoreconf cpe gmake localbase:ldflags pathfix perl5 shebangfix tar:bzip2
+USES=		autoreconf cpe gmake localbase:ldflags perl5 shebangfix tar:bzip2
 USE_PERL5=	test
 USE_LDCONFIG=	yes
 
 GNU_CONFIGURE=		yes
 GNU_CONFIGURE_MANPREFIX=${PREFIX}/share
 MAKE_ARGS_armv6=	HTS_HAVE_NEON=
 MAKE_ARGS_armv7=	HTS_HAVE_NEON=
 MAKE_ARGS=		${MAKE_ARGS_${ARCH}}
 PATHFIX_MAKEFILEIN=	Makefile
 SHEBANG_FILES=		test/*.pl
 
 OPTIONS_DEFINE=		CURL
 OPTIONS_DEFAULT=	CURL
 
 CURL_DESC=		Use libcurl for network file access (HTTPS and S3 support).
 CURL_USES=		ssl
 CURL_LIB_DEPENDS=	libcurl.so:ftp/curl
 CURL_CONFIGURE_ENABLE=	libcurl
 
 PLIST_SUB=	PORTVERSION="${PORTVERSION}"
 
 TEST_TARGET=	test
 
 .include <bsd.port.mk>
diff --git a/biology/libgtextutils/Makefile b/biology/libgtextutils/Makefile
index 2911dd8858a0..42de16d77368 100644
--- a/biology/libgtextutils/Makefile
+++ b/biology/libgtextutils/Makefile
@@ -1,20 +1,20 @@
 PORTNAME=	libgtextutils
 DISTVERSION=	0.7
 CATEGORIES=	biology
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	Gordon's text utilities
 WWW=		https://github.com/agordon/libgtextutils
 
 LICENSE=	AGPLv3
 
-USES=		autoreconf libtool pathfix pkgconfig
+USES=		autoreconf libtool pkgconfig
 GNU_CONFIGURE=	yes
 USE_LDCONFIG=	yes
 
 USE_GITHUB=	yes
 GH_ACCOUNT=	agordon
 
 INSTALL_TARGET=	install-strip
 
 .include <bsd.port.mk>
diff --git a/biology/libsbml/Makefile b/biology/libsbml/Makefile
index 6e771892526e..390ddab2f5f5 100644
--- a/biology/libsbml/Makefile
+++ b/biology/libsbml/Makefile
@@ -1,79 +1,79 @@
 PORTNAME=	libsbml
 PORTVERSION=	5.20.5
 PORTREVISION=	1
 DISTVERSIONPREFIX=	v
 CATEGORIES=	biology devel
 
 MAINTAINER=	sunpoet@FreeBSD.org
 COMMENT=	API Library for Working with SBML File
 WWW=		https://sbml.org/software/libsbml/ \
 		https://synonym.caltech.edu/ \
 		https://github.com/sbmlteam/libsbml
 
 LICENSE=	LGPL21
 LICENSE_FILE=	${WRKSRC}/COPYING.txt
 
-USES=		cmake:testing iconv:build pathfix
+USES=		cmake:testing iconv:build
 
 CMAKE_OFF=	EXIT_ON_ERROR \
 		LIBSBML_SKIP_SHARED_LIBRARY \
 		LIBSBML_SKIP_STATIC_LIBRARY \
 		LIBSBML_USE_STRICT_INCLUDES \
 		PYTHON_USE_API2_WARNINGS \
 		WITH_ALL_PACKAGES \
 		WITH_CHECK \
 		WITH_CPP_NAMESPACE \
 		WITH_CSHARP \
 		WITH_DOXYGEN \
 		WITH_JAVA \
 		WITH_JAVASCRIPT \
 		WITH_MATLAB \
 		WITH_OCTAVE \
 		WITH_PERL \
 		WITH_PHP \
 		WITH_R \
 		WITH_STABLE_PACKAGES \
 		WITH_WALL
 CMAKE_ON=	LIBSBML_SHARED_VERSION \
 		WITH_BZIP2 \
 		WITH_SWIG \
 		WITH_THREADSAFE_PARSER \
 		WITH_ZLIB
 CMAKE_TESTING_ON=	WITH_CHECK
 USE_CXXSTD=	c++98
 USE_LDCONFIG=	yes
 
 PLIST_SUB=	PORTVERSION=${PORTVERSION}
 
 USE_GITHUB=	yes
 GH_ACCOUNT=	sbmlteam
 
 OPTIONS_DEFINE=	EXAMPLES PYTHON RUBY
 OPTIONS_SINGLE=	XML
 OPTIONS_SINGLE_XML=	EXPAT LIBXML2 XERCES
 OPTIONS_DEFAULT=LIBXML2 PYTHON
 OPTIONS_SUB=	yes
 
 EXAMPLES_CMAKE_BOOL=	WITH_EXAMPLES
 EXPAT_CMAKE_BOOL=	WITH_EXPAT
 EXPAT_LIB_DEPENDS=	libexpat.so:textproc/expat2
 LIBXML2_CMAKE_BOOL=	WITH_LIBXML
 LIBXML2_USE=		GNOME=libxml2
 LIBXML2_USES=		gnome
 PYTHON_BUILD_DEPENDS=	swig:devel/swig
 PYTHON_CMAKE_BOOL=	WITH_PYTHON
 PYTHON_USES=		python
 PYTHON_CMAKE_ON=	WITH_SWIG
 RUBY_BUILD_DEPENDS=	swig:devel/swig
 RUBY_CMAKE_BOOL=	WITH_RUBY
 RUBY_USES=		ruby
 XERCES_CMAKE_BOOL=	WITH_XERCES
 XERCES_LIB_DEPENDS=	libxerces-c.so:textproc/xerces-c3
 
 post-patch:
 	@${REINPLACE_CMD} -e 's|/usr/local|${LOCALBASE}|g' ${WRKSRC}/CMakeLists.txt
 
 post-install-EXAMPLES-on:
 	${MV} ${STAGEDIR}${DATADIR}examples ${STAGEDIR}${EXAMPLESDIR}
 
 .include <bsd.port.mk>