Index: head/biology/pbcopper/Makefile
===================================================================
--- head/biology/pbcopper/Makefile	(revision 493396)
+++ head/biology/pbcopper/Makefile	(revision 493397)
@@ -1,29 +1,28 @@
 # $FreeBSD$
 
 PORTNAME=	pbcopper
-DISTVERSION=	g20180413
-PORTREVISION=	3
+DISTVERSION=	0.4.1 # Test with biology/unanimity before upgrading!
 CATEGORIES=	biology
 
 MAINTAINER=	jwb@FreeBSD.org
 COMMENT=	Core C++ library for Pacific Biosciences tools
 
 LICENSE=	BSD3CLAUSE
 LICENSE_FILE=	${WRKSRC}/LICENSE.txt
 
 LIB_DEPENDS=	libboost_regex.so:devel/boost-libs
 
-USES=		cmake compiler:c++14-lang
-# Although there are a couple releases, git describe --tags does not work
-# so we cannot use the usual USE_GITHUB tools here.
+# Meson needs BOOST_ROOT=${LOCALBASE}
+# https://github.com/mesonbuild/meson/issues/2239
+USES=		compiler:c++14-lang localbase meson
+USE_LDCONFIG=	yes
 USE_GITHUB=	yes
 GH_ACCOUNT=	PacificBiosciences
-GH_TAGNAME=	17ef457a0dbe1894a8d17af7ddba01a6261bf117
 
-do-install:
-	${INSTALL_DATA} ${BUILD_WRKSRC}/lib/*.a ${STAGEDIR}${PREFIX}/lib
-	cd ${WRKSRC}/include && ${COPYTREE_SHARE} . ${STAGEDIR}${PREFIX}/include
-	${MV} ${STAGEDIR}${PREFIX}/include/meson.build \
-		${STAGEDIR}${PREFIX}/include/pbcopper
+post-install:
+	${RLN} ${STAGEDIR}${PREFIX}/lib/libpbcopper.so.${PORTVERSION} \
+		${STAGEDIR}${PREFIX}/lib/libpbcopper.so.0.4
+	${RLN} ${STAGEDIR}${PREFIX}/lib/libpbcopper.so.${PORTVERSION} \
+		${STAGEDIR}${PREFIX}/lib/libpbcopper.so.0
 
 .include <bsd.port.mk>
Index: head/biology/pbcopper/distinfo
===================================================================
--- head/biology/pbcopper/distinfo	(revision 493396)
+++ head/biology/pbcopper/distinfo	(revision 493397)
@@ -1,3 +1,3 @@
-TIMESTAMP = 1524500014
-SHA256 (PacificBiosciences-pbcopper-g20180413-17ef457a0dbe1894a8d17af7ddba01a6261bf117_GH0.tar.gz) = 13f006d53334a0538657e0ba5c6e02f811f1901cd25fce220fc9011726ffe23f
-SIZE (PacificBiosciences-pbcopper-g20180413-17ef457a0dbe1894a8d17af7ddba01a6261bf117_GH0.tar.gz) = 3033636
+TIMESTAMP = 1550453144
+SHA256 (PacificBiosciences-pbcopper-0.4.1_GH0.tar.gz) = 4c8daf6c1a6efe3860a16fb5b6111ebe65221423254819f3a68a400d0a984fcd
+SIZE (PacificBiosciences-pbcopper-0.4.1_GH0.tar.gz) = 3095846
Index: head/biology/pbcopper/files/patch-cmake_pbcopper-gitsha1.cmake
===================================================================
--- head/biology/pbcopper/files/patch-cmake_pbcopper-gitsha1.cmake	(revision 493396)
+++ head/biology/pbcopper/files/patch-cmake_pbcopper-gitsha1.cmake	(nonexistent)
@@ -1,21 +0,0 @@
---- cmake/pbcopper-gitsha1.cmake.orig	2018-03-16 16:16:38 UTC
-+++ cmake/pbcopper-gitsha1.cmake
-@@ -5,16 +5,15 @@ endif()
- set(__find_git_sha1 YES)
- 
- function(find_git_sha1 _GIT_SHA1)
--    find_package(Git QUIET REQUIRED)
-     execute_process(COMMAND
--        "${GIT_EXECUTABLE}" "describe" "--always" "--dirty=*"
-+        echo ce9a4b6
-         WORKING_DIRECTORY "${CMAKE_CURRENT_SOURCE_DIR}"
-         RESULT_VARIABLE res
-         OUTPUT_VARIABLE out
-         ERROR_QUIET
-         OUTPUT_STRIP_TRAILING_WHITESPACE)
-     if (NOT res EQUAL 0)
--        message(FATAL_ERROR "Could not determine git sha1 via `git describe --always --dirty=*`")
-+        message(FATAL_ERROR "Could not determine git sha1")
-     endif()
-     set(${_GIT_SHA1} "${out}" PARENT_SCOPE)
- endfunction()

Property changes on: head/biology/pbcopper/files/patch-cmake_pbcopper-gitsha1.cmake
___________________________________________________________________
Deleted: fbsd:nokeywords
## -1 +0,0 ##
-yes
\ No newline at end of property
Deleted: svn:eol-style
## -1 +0,0 ##
-native
\ No newline at end of property
Deleted: svn:mime-type
## -1 +0,0 ##
-text/plain
\ No newline at end of property
Index: head/biology/pbcopper/files/patch-meson__options.txt
===================================================================
--- head/biology/pbcopper/files/patch-meson__options.txt	(nonexistent)
+++ head/biology/pbcopper/files/patch-meson__options.txt	(revision 493397)
@@ -0,0 +1,7 @@
+--- meson_options.txt.orig	2019-02-17 22:34:29 UTC
++++ meson_options.txt
+@@ -1,3 +1,3 @@
+ option('build-examples', type : 'boolean', value : true,  description : 'Build pbcopper examples')
+ option('build-docs',     type : 'boolean', value : false, description : 'Build pbcopper docs')
+-option('tests',          type : 'boolean', value : true,  description : 'Enable dependencies required for testing')
++option('tests',          type : 'boolean', value : false,  description : 'Enable dependencies required for testing')

Property changes on: head/biology/pbcopper/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/pbcopper/pkg-plist
===================================================================
--- head/biology/pbcopper/pkg-plist	(revision 493396)
+++ head/biology/pbcopper/pkg-plist	(revision 493397)
@@ -1,75 +1,78 @@
 include/pbcopper/PbcopperConfig.h
+include/pbcopper/PbcopperMakeUnique.h
 include/pbcopper/align/Seed.h
 include/pbcopper/align/Seeds.h
 include/pbcopper/align/internal/Seed-inl.h
 include/pbcopper/align/internal/Seeds-inl.h
 include/pbcopper/cli/CLI.h
 include/pbcopper/cli/HelpPrinter.h
 include/pbcopper/cli/Interface.h
 include/pbcopper/cli/Option.h
 include/pbcopper/cli/OptionFlags.h
 include/pbcopper/cli/Parser.h
 include/pbcopper/cli/PositionalArg.h
 include/pbcopper/cli/Results.h
 include/pbcopper/cli/SingleDashMode.h
 include/pbcopper/cli/VersionPrinter.h
 include/pbcopper/cli/internal/Option-inl.h
 include/pbcopper/cli/toolcontract/Config.h
 include/pbcopper/cli/toolcontract/Driver.h
 include/pbcopper/cli/toolcontract/InputFileType.h
 include/pbcopper/cli/toolcontract/JsonPrinter.h
 include/pbcopper/cli/toolcontract/OutputFileType.h
 include/pbcopper/cli/toolcontract/ResolvedToolContract.h
 include/pbcopper/cli/toolcontract/ResourceType.h
 include/pbcopper/cli/toolcontract/Task.h
 include/pbcopper/cli/toolcontract/TaskType.h
-include/pbcopper/cli/toolcontract/internal/Config-inl.h
 include/pbcopper/cli/toolcontract/internal/Driver-inl.h
 include/pbcopper/cli/toolcontract/internal/InputFileType-inl.h
 include/pbcopper/cli/toolcontract/internal/OutputFileType-inl.h
 include/pbcopper/cli/toolcontract/internal/Task-inl.h
 include/pbcopper/data/CCSTag.h
 include/pbcopper/data/Cigar.h
 include/pbcopper/data/CigarOperation.h
 include/pbcopper/data/Interval.h
 include/pbcopper/data/MovieName.h
 include/pbcopper/data/Position.h
 include/pbcopper/data/RSMovieName.h
 include/pbcopper/data/RSReadName.h
 include/pbcopper/data/ReadName.h
 include/pbcopper/data/Zmw.h
 include/pbcopper/data/internal/CigarOperation-inl.h
 include/pbcopper/data/internal/Interval-inl.h
 include/pbcopper/data/internal/MovieName-inl.h
 include/pbcopper/data/internal/RSMovieName-inl.h
 include/pbcopper/data/internal/ReadNameBase-inl.h
 include/pbcopper/data/internal/ReadNameBase.h
 include/pbcopper/json/JSON.h
 include/pbcopper/json/internal/json.hpp
 include/pbcopper/logging/Logging.h
 include/pbcopper/logging/internal/Logging-inl.h
-include/pbcopper/meson.build
 include/pbcopper/parallel/FireAndForget.h
 include/pbcopper/parallel/WorkQueue.h
 include/pbcopper/qgram/Index.h
 include/pbcopper/qgram/IndexHit.h
 include/pbcopper/qgram/IndexHits.h
 include/pbcopper/qgram/internal/Hashing-inl.h
 include/pbcopper/qgram/internal/Index-inl.h
 include/pbcopper/stream/Stream.h
 include/pbcopper/utility/CallbackTimer.h
 include/pbcopper/utility/EnumClassHash.h
 include/pbcopper/utility/FileUtils.h
 include/pbcopper/utility/MoveAppend.h
 include/pbcopper/utility/PbcopperVersion.h
 include/pbcopper/utility/SafeSubtract.h
 include/pbcopper/utility/Stopwatch.h
 include/pbcopper/utility/StringUtils.h
 include/pbcopper/utility/SystemInfo.h
 include/pbcopper/utility/Unused.h
 include/pbcopper/utility/internal/CallbackTimer-inl.h
 include/pbcopper/utility/internal/FileUtils-inl.h
 include/pbcopper/utility/internal/Stopwatch-inl.h
 include/pbcopper/utility/internal/StringUtils-inl.h
 include/pbcopper/utility/internal/SystemInfo-inl.h
-lib/libpbcopper.a
+lib/libpbcopper.so
+lib/libpbcopper.so.0
+lib/libpbcopper.so.0.4
+lib/libpbcopper.so.0.4.1
+libdata/pkgconfig/pbcopper.pc