Index: head/biology/pbbam/Makefile
===================================================================
--- head/biology/pbbam/Makefile	(revision 493398)
+++ head/biology/pbbam/Makefile	(revision 493399)
@@ -1,36 +1,33 @@
 # $FreeBSD$
 
 PORTNAME=	pbbam
-DISTVERSION=	g20180416
-PORTREVISION=	3
+DISTVERSION=	0.18.0 # Test with biology/unanimity before upgrading!
 CATEGORIES=	biology
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	PacBio BAM C++ library, with SWIG bindings
 
 LICENSE=	BSD3CLAUSE
 LICENSE_FILE=	${WRKSRC}/LICENSE.txt
 
-BUILD_DEPENDS=	boost-libs>=1.60.0:devel/boost-libs
 LIB_DEPENDS=	libhts.so:biology/htslib \
 		libboost_regex.so:devel/boost-libs
 
-USES=		cmake compiler:c++14-lang pkgconfig
+# Meson needs BOOST_ROOT=${LOCALBASE}
+# https://github.com/mesonbuild/meson/issues/2239
+USES=		compiler:c++14-lang localbase meson pkgconfig python
+USE_LDCONFIG=	yes
 USE_GITHUB=	yes
 GH_ACCOUNT=	PacificBiosciences
-GH_TAGNAME=	c6b8113adb5104948879e9ff69f739121f12a09f
 
-# Disable tests for now.  Bound to bundled googletest.
-CMAKE_ARGS+=	-DHTSLIB_INCLUDE_DIRS:STRING=${LOCALBASE}/include/htslib \
-		-DHTSLIB_LIBRARIES:STRING="-L${LOCALBASE}/lib -lhts" \
-		-DPacBioBAM_build_tests:BOOL=OFF \
-		-DPacBioBAM_build_docs:BOOL=OFF
+pre-configure:
+	@${REINPLACE_CMD} -e "s|'python'|'${PYTHON_VERSION}'|g" \
+		${WRKSRC}/meson.build
 
-do-install:
-	${INSTALL_PROGRAM} ${BUILD_WRKSRC}/bin/* ${STAGEDIR}${PREFIX}/bin
-	${INSTALL_DATA} ${BUILD_WRKSRC}/lib/* ${STAGEDIR}${PREFIX}/lib
-	cd ${WRKSRC}/include && ${COPYTREE_SHARE} . ${STAGEDIR}${PREFIX}/include
-	${MV} ${STAGEDIR}${PREFIX}/include/meson.build \
-		${STAGEDIR}${PREFIX}/include/pbbam
+post-install:
+	${RLN} ${STAGEDIR}${PREFIX}/lib/libpbbam.so.${PORTVERSION} \
+		${STAGEDIR}${PREFIX}/lib/libpbbam.so.0.18
+	${RLN} ${STAGEDIR}${PREFIX}/lib/libpbbam.so.${PORTVERSION} \
+		${STAGEDIR}${PREFIX}/lib/libpbbam.so.0
 
 .include <bsd.port.mk>
Index: head/biology/pbbam/distinfo
===================================================================
--- head/biology/pbbam/distinfo	(revision 493398)
+++ head/biology/pbbam/distinfo	(revision 493399)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1524331626
-SHA256 (PacificBiosciences-pbbam-g20180416-c6b8113adb5104948879e9ff69f739121f12a09f_GH0.tar.gz) = f7ede42417110db4fcc3fbc4b837911a0e2242e541a88c8ac34b4c26b4e5aad4
-SIZE (PacificBiosciences-pbbam-g20180416-c6b8113adb5104948879e9ff69f739121f12a09f_GH0.tar.gz) = 8105156
+TIMESTAMP = 1550453627
+SHA256 (PacificBiosciences-pbbam-0.18.0_GH0.tar.gz) = 45286e5f7deb7ff629e0643c8a416155915aec7b85d54c60b5cdc07f4d7b234a
+SIZE (PacificBiosciences-pbbam-0.18.0_GH0.tar.gz) = 8136503
Index: head/biology/pbbam/files/patch-meson__options.txt
===================================================================
--- head/biology/pbbam/files/patch-meson__options.txt	(nonexistent)
+++ head/biology/pbbam/files/patch-meson__options.txt	(revision 493399)
@@ -0,0 +1,11 @@
+--- meson_options.txt.orig	2019-02-17 01:55:33 UTC
++++ meson_options.txt
+@@ -15,7 +15,7 @@ option('auto-validate',
+ 
+ option('tests',
+     type : 'boolean',
+-    value : true,
++    value : false,
+     description : 'Enable dependencies required for testing')
+ 
+ option('permissive-cigar',

Property changes on: head/biology/pbbam/files/patch-meson__options.txt
___________________________________________________________________
Added: fbsd:nokeywords
## -0,0 +1 ##
+yes
\ No newline at end of property
Added: svn:eol-style
## -0,0 +1 ##
+native
\ No newline at end of property
Added: svn:mime-type
## -0,0 +1 ##
+text/plain
\ No newline at end of property
Index: head/biology/pbbam/pkg-plist
===================================================================
--- head/biology/pbbam/pkg-plist	(revision 493398)
+++ head/biology/pbbam/pkg-plist	(revision 493399)
@@ -1,132 +1,148 @@
 bin/bam2sam
 bin/pbbamify
 bin/pbindex
 bin/pbindexdump
 bin/pbmerge
 include/pbbam/Accuracy.h
 include/pbbam/AlignmentPrinter.h
 include/pbbam/BaiIndexedBamReader.h
 include/pbbam/BamFile.h
 include/pbbam/BamHeader.h
 include/pbbam/BamReader.h
 include/pbbam/BamRecord.h
 include/pbbam/BamRecordBuilder.h
 include/pbbam/BamRecordImpl.h
 include/pbbam/BamRecordTag.h
 include/pbbam/BamRecordView.h
 include/pbbam/BamTagCodec.h
 include/pbbam/BamWriter.h
 include/pbbam/BarcodeQuery.h
 include/pbbam/Cigar.h
 include/pbbam/CigarOperation.h
 include/pbbam/ClipType.h
 include/pbbam/Compare.h
 include/pbbam/CompositeBamReader.h
 include/pbbam/CompositeFastaReader.h
 include/pbbam/Config.h
 include/pbbam/DataSet.h
 include/pbbam/DataSetTypes.h
 include/pbbam/DataSetXsd.h
 include/pbbam/EntireFileQuery.h
 include/pbbam/FastaReader.h
 include/pbbam/FastaSequence.h
 include/pbbam/FastaSequenceQuery.h
 include/pbbam/FastqReader.h
 include/pbbam/FastqSequence.h
 include/pbbam/FrameEncodingType.h
 include/pbbam/Frames.h
 include/pbbam/GenomicInterval.h
 include/pbbam/GenomicIntervalQuery.h
 include/pbbam/IRecordWriter.h
 include/pbbam/IndexedBamWriter.h
 include/pbbam/IndexedFastaReader.h
 include/pbbam/Interval.h
 include/pbbam/LocalContextFlags.h
 include/pbbam/MD5.h
 include/pbbam/MakeUnique.h
 include/pbbam/MoveAppend.h
 include/pbbam/Orientation.h
 include/pbbam/PbiBasicTypes.h
 include/pbbam/PbiBuilder.h
 include/pbbam/PbiFile.h
 include/pbbam/PbiFilter.h
 include/pbbam/PbiFilterQuery.h
 include/pbbam/PbiFilterTypes.h
 include/pbbam/PbiIndexedBamReader.h
 include/pbbam/PbiRawData.h
 include/pbbam/Position.h
 include/pbbam/ProgramInfo.h
 include/pbbam/PulseBehavior.h
 include/pbbam/PulseExclusionReason.h
 include/pbbam/QNameQuery.h
 include/pbbam/QualityValue.h
 include/pbbam/QualityValues.h
 include/pbbam/ReadAccuracyQuery.h
 include/pbbam/ReadGroupInfo.h
 include/pbbam/RecordType.h
 include/pbbam/SamTagCodec.h
 include/pbbam/SamWriter.h
 include/pbbam/SequenceInfo.h
 include/pbbam/Strand.h
 include/pbbam/StringUtilities.h
 include/pbbam/SubreadLengthQuery.h
 include/pbbam/Tag.h
 include/pbbam/TagCollection.h
 include/pbbam/Unused.h
 include/pbbam/Validator.h
 include/pbbam/ZmwGroupQuery.h
 include/pbbam/ZmwQuery.h
 include/pbbam/ZmwType.h
 include/pbbam/ZmwTypeMap.h
 include/pbbam/exception/BundleChemistryMappingException.h
 include/pbbam/exception/InvalidSequencingChemistryException.h
 include/pbbam/exception/ValidationException.h
 include/pbbam/internal/Accuracy.inl
 include/pbbam/internal/BamHeader.inl
 include/pbbam/internal/BamRecord.inl
 include/pbbam/internal/BamRecordBuilder.inl
 include/pbbam/internal/BamRecordImpl.inl
 include/pbbam/internal/BamRecordView.inl
 include/pbbam/internal/Cigar.inl
 include/pbbam/internal/CigarOperation.inl
 include/pbbam/internal/Compare.inl
 include/pbbam/internal/CompositeBamReader.inl
 include/pbbam/internal/CompositeFastaReader.inl
 include/pbbam/internal/DataSet.inl
 include/pbbam/internal/DataSetBaseTypes.h
 include/pbbam/internal/DataSetBaseTypes.inl
 include/pbbam/internal/DataSetElement.h
 include/pbbam/internal/DataSetElement.inl
 include/pbbam/internal/DataSetListElement.h
 include/pbbam/internal/DataSetListElement.inl
 include/pbbam/internal/DataSetTypes.inl
 include/pbbam/internal/FastaSequence.inl
 include/pbbam/internal/FastqSequence.inl
 include/pbbam/internal/Frames.inl
 include/pbbam/internal/GenomicInterval.inl
 include/pbbam/internal/Interval.inl
 include/pbbam/internal/PbiBasicTypes.inl
 include/pbbam/internal/PbiFilter.inl
 include/pbbam/internal/PbiFilterTypes.inl
 include/pbbam/internal/PbiRawData.inl
 include/pbbam/internal/ProgramInfo.inl
 include/pbbam/internal/QualityValue.inl
 include/pbbam/internal/QualityValues.inl
 include/pbbam/internal/QueryBase.h
 include/pbbam/internal/QueryBase.inl
 include/pbbam/internal/ReadGroupInfo.inl
 include/pbbam/internal/SequenceInfo.inl
 include/pbbam/internal/Tag.inl
 include/pbbam/internal/Validator.inl
-include/pbbam/meson.build
+include/pbbam/vcf/VcfFile.h
+include/pbbam/vcf/VcfFormat.h
+include/pbbam/vcf/VcfHeader.h
+include/pbbam/vcf/VcfHeaderTypes.h
+include/pbbam/vcf/VcfQuery.h
+include/pbbam/vcf/VcfReader.h
+include/pbbam/vcf/VcfSort.h
+include/pbbam/vcf/VcfVariant.h
+include/pbbam/vcf/VcfWriter.h
+include/pbbam/vcf/internal/VcfFile.inl
+include/pbbam/vcf/internal/VcfHeader.inl
+include/pbbam/vcf/internal/VcfHeaderTypes.inl
+include/pbbam/vcf/internal/VcfVariant.inl
 include/pbbam/virtual/VirtualPolymeraseBamRecord.h
 include/pbbam/virtual/VirtualPolymeraseCompositeReader.h
 include/pbbam/virtual/VirtualPolymeraseReader.h
 include/pbbam/virtual/VirtualRegion.h
 include/pbbam/virtual/VirtualRegionType.h
 include/pbbam/virtual/VirtualRegionTypeMap.h
 include/pbbam/virtual/VirtualZmwBamRecord.h
 include/pbbam/virtual/WhitelistedZmwReadStitcher.h
 include/pbbam/virtual/ZmwReadStitcher.h
 include/pbbam/virtual/ZmwWhitelistVirtualReader.h
-lib/libpbbam.a
+lib/libpbbam.so
+lib/libpbbam.so.0
+lib/libpbbam.so.0.18
+lib/libpbbam.so.0.18.0
+libdata/pkgconfig/pbbam.pc