From owner-svn-ports-head@freebsd.org Sun Jan 3 18:13:46 2016 Return-Path: Delivered-To: svn-ports-head@mailman.ysv.freebsd.org Received: from mx1.freebsd.org (mx1.freebsd.org [IPv6:2001:1900:2254:206a::19:1]) by mailman.ysv.freebsd.org (Postfix) with ESMTP id 67741A6086B; Sun, 3 Jan 2016 18:13:46 +0000 (UTC) (envelope-from pi@FreeBSD.org) Received: from repo.freebsd.org (repo.freebsd.org [IPv6:2610:1c1:1:6068::e6a:0]) (using TLSv1.2 with cipher ECDHE-RSA-AES256-GCM-SHA384 (256/256 bits)) (Client did not present a certificate) by mx1.freebsd.org (Postfix) with ESMTPS id 3EC281CE0; Sun, 3 Jan 2016 18:13:46 +0000 (UTC) (envelope-from pi@FreeBSD.org) Received: from repo.freebsd.org ([127.0.1.37]) by repo.freebsd.org (8.15.2/8.15.2) with ESMTP id u03IDj8u094269; Sun, 3 Jan 2016 18:13:45 GMT (envelope-from pi@FreeBSD.org) Received: (from pi@localhost) by repo.freebsd.org (8.15.2/8.15.2/Submit) id u03IDjgR094266; Sun, 3 Jan 2016 18:13:45 GMT (envelope-from pi@FreeBSD.org) Message-Id: <201601031813.u03IDjgR094266@repo.freebsd.org> X-Authentication-Warning: repo.freebsd.org: pi set sender to pi@FreeBSD.org using -f From: Kurt Jaeger Date: Sun, 3 Jan 2016 18:13:45 +0000 (UTC) To: ports-committers@freebsd.org, svn-ports-all@freebsd.org, svn-ports-head@freebsd.org Subject: svn commit: r405180 - head/math/jags X-SVN-Group: ports-head MIME-Version: 1.0 Content-Type: text/plain; charset=UTF-8 Content-Transfer-Encoding: 8bit X-BeenThere: svn-ports-head@freebsd.org X-Mailman-Version: 2.1.20 Precedence: list List-Id: SVN commit messages for the ports tree for head List-Unsubscribe: , List-Archive: List-Post: List-Help: List-Subscribe: , X-List-Received-Date: Sun, 03 Jan 2016 18:13:46 -0000 Author: pi Date: Sun Jan 3 18:13:44 2016 New Revision: 405180 URL: https://svnweb.freebsd.org/changeset/ports/405180 Log: math/jags: 3.4.0 -> 4.0.0 - New WWW - Changes: https://martynplummer.wordpress.com/2015/08/02/whats-new-in-jags-4-0-0-part-14-reproducibility-and-testing/ https://martynplummer.wordpress.com/2015/08/09/whats-new-in-jags-4-0-0-part-24-dealing-with-undefined-nodes/ https://martynplummer.wordpress.com/2015/08/16/whats-new-in-jags-4-0-0-part-34-r-style-features/#more-353 PR: 204525 Submitted by: Rainer Hurling Approved by: bf Modified: head/math/jags/Makefile head/math/jags/distinfo head/math/jags/pkg-plist Modified: head/math/jags/Makefile ============================================================================== --- head/math/jags/Makefile Sun Jan 3 18:11:08 2016 (r405179) +++ head/math/jags/Makefile Sun Jan 3 18:13:44 2016 (r405180) @@ -2,14 +2,14 @@ # $FreeBSD$ PORTNAME= mcmc-jags -PORTVERSION= 3.4.0 -PORTREVISION= 4 +PORTVERSION= 4.0.0 CATEGORIES= math MASTER_SITES= SF/mcmc-jags/JAGS/${S}.x/Source/:1 \ SF/mcmc-jags/Examples/${S}.x/:2 \ SF/mcmc-jags/Manuals/2.x/:3 \ SF/mcmc-jags/Manuals/${S}.x/:4 DISTFILES= JAGS-${PORTVERSION}${EXTRACT_SUFX}:1 +DIST_SUBDIR= ${PORTNAME} EXTRACT_ONLY= ${DISTFILES:M*[12]:C|:.*||} MAINTAINER= bf@FreeBSD.org @@ -18,14 +18,12 @@ COMMENT= Just Another Gibbs Sampler LICENSE= GPLv2 GNU_CONFIGURE= yes -USES= bison fortran gmake libtool +USES= bison compiler:features fortran gmake libtool localbase +USE_GCC= yes USE_LDCONFIG= yes -DIST_SUBDIR= ${PORTNAME} WRKSRC= ${WRKDIR}/JAGS-${PORTVERSION} -CPPFLAGS+= -I${LOCALBASE}/include -LDFLAGS+= -L${LOCALBASE}/lib PLIST_SUB= MODULEVERSION=${S} S= ${PORTVERSION:C|\..*||} @@ -57,7 +55,7 @@ LIB_DEPENDS+= libblas.so:${PORTSDIR}/mat LIB_DEPENDS+= liblapack.so:${PORTSDIR}/math/lapack CONFIGURE_ARGS= --with-lapack="-llapack" --with-blas="-lblas" .else -IGNORE= : invalid value for WITH_BLAS: ${WITH_BLAS} +IGNORE= invalid value for WITH_BLAS: ${WITH_BLAS} .endif post-patch: Modified: head/math/jags/distinfo ============================================================================== --- head/math/jags/distinfo Sun Jan 3 18:11:08 2016 (r405179) +++ head/math/jags/distinfo Sun Jan 3 18:13:44 2016 (r405180) @@ -1,10 +1,10 @@ -SHA256 (mcmc-jags/JAGS-3.4.0.tar.gz) = 2beaa9a2672c2c95efc55ffa4c8b597a872f20232373daebd17ad539d3d7d82b -SIZE (mcmc-jags/JAGS-3.4.0.tar.gz) = 1677450 +SHA256 (mcmc-jags/JAGS-4.0.0.tar.gz) = a1d572269029d90d4e8b25757fd7ae9678994bd682937ec505ddcf06185d2c4c +SIZE (mcmc-jags/JAGS-4.0.0.tar.gz) = 1880476 SHA256 (mcmc-jags/jags_developer_manual.pdf) = 6e7c707b94ffc931807198cc162e8b254859bb774695ae39ef1c1c175560259b SIZE (mcmc-jags/jags_developer_manual.pdf) = 71319 -SHA256 (mcmc-jags/jags_installation_manual.pdf) = 4b339af679186783f1bcfc1c31483238cbd46eb9f1f31eb853da51dae61cb3e5 -SIZE (mcmc-jags/jags_installation_manual.pdf) = 167002 -SHA256 (mcmc-jags/jags_user_manual.pdf) = febaf9b22cee57c2fc688a16969d3ddeaa83c1dee7915b872a6cf6772b1f9958 -SIZE (mcmc-jags/jags_user_manual.pdf) = 325886 -SHA256 (mcmc-jags/classic-bugs.tar.gz) = eee97e64f06189a13f6fdee738ea65db088eafa63a5eddedeef66c685f920bae -SIZE (mcmc-jags/classic-bugs.tar.gz) = 83112 +SHA256 (mcmc-jags/jags_installation_manual.pdf) = 022fcedcf85b259cfe52b13b8a1c3b02a4f0af3ab8370a160c9d5bc739699848 +SIZE (mcmc-jags/jags_installation_manual.pdf) = 208573 +SHA256 (mcmc-jags/jags_user_manual.pdf) = d4151d383868b700531fc54b1b4849085cb313e4e360d72acf031675331383bb +SIZE (mcmc-jags/jags_user_manual.pdf) = 349318 +SHA256 (mcmc-jags/classic-bugs.tar.gz) = 6428cc0a971010633a349addafcb1c87621557c9497e9fd29cb94bd4e6e04d52 +SIZE (mcmc-jags/classic-bugs.tar.gz) = 83784 Modified: head/math/jags/pkg-plist ============================================================================== --- head/math/jags/pkg-plist Sun Jan 3 18:11:08 2016 (r405179) +++ head/math/jags/pkg-plist Sun Jan 3 18:13:44 2016 (r405180) @@ -1,9 +1,7 @@ bin/mcmc-jags include/JAGS/Console.h include/JAGS/JRmath.h -include/JAGS/Module.h include/JAGS/compiler/Compiler.h -include/JAGS/compiler/ConstantFactory.h include/JAGS/compiler/Counter.h include/JAGS/compiler/CounterTab.h include/JAGS/compiler/LogicalFactory.h @@ -16,16 +14,25 @@ include/JAGS/distribution/DistError.h include/JAGS/distribution/DistPtr.h include/JAGS/distribution/DistTab.h include/JAGS/distribution/Distribution.h +include/JAGS/distribution/RScalarDist.h include/JAGS/distribution/ScalarDist.h include/JAGS/distribution/VectorDist.h include/JAGS/function/ArrayFunction.h +include/JAGS/function/ArrayLogDensity.h +include/JAGS/function/DFunction.h +include/JAGS/function/DPQFunction.h include/JAGS/function/FuncError.h include/JAGS/function/FuncTab.h include/JAGS/function/Function.h include/JAGS/function/FunctionPtr.h include/JAGS/function/LinkFunction.h +include/JAGS/function/PFunction.h +include/JAGS/function/QFunction.h include/JAGS/function/ScalarFunction.h +include/JAGS/function/ScalarLogDensity.h +include/JAGS/function/ScalarVectorFunction.h include/JAGS/function/VectorFunction.h +include/JAGS/function/VectorLogDensity.h include/JAGS/graph/AggNode.h include/JAGS/graph/ArrayLogicalNode.h include/JAGS/graph/ArrayStochasticNode.h @@ -35,9 +42,11 @@ include/JAGS/graph/Graph.h include/JAGS/graph/GraphMarks.h include/JAGS/graph/LinkNode.h include/JAGS/graph/LogicalNode.h +include/JAGS/graph/MixTab.h include/JAGS/graph/MixtureNode.h include/JAGS/graph/Node.h include/JAGS/graph/NodeError.h +include/JAGS/graph/ParentError.h include/JAGS/graph/ScalarLogicalNode.h include/JAGS/graph/ScalarStochasticNode.h include/JAGS/graph/StochasticNode.h @@ -51,27 +60,34 @@ include/JAGS/model/MonitorControl.h include/JAGS/model/MonitorFactory.h include/JAGS/model/MonitorInfo.h include/JAGS/model/NodeArray.h +include/JAGS/model/NodeArraySubset.h include/JAGS/model/SymTab.h +include/JAGS/module/Module.h include/JAGS/module/ModuleError.h include/JAGS/rng/RNG.h -include/JAGS/rng/RmathRNG.h include/JAGS/rng/RNGFactory.h +include/JAGS/rng/RmathRNG.h include/JAGS/rng/TruncatedNormal.h include/JAGS/sampler/GraphView.h +include/JAGS/sampler/ImmutableSampleMethod.h +include/JAGS/sampler/ImmutableSampler.h include/JAGS/sampler/Linear.h include/JAGS/sampler/Metropolis.h -include/JAGS/sampler/ParallelSampler.h +include/JAGS/sampler/MutableSampleMethod.h +include/JAGS/sampler/MutableSampler.h include/JAGS/sampler/RWMetropolis.h -include/JAGS/sampler/SampleMethod.h +include/JAGS/sampler/SampleMethodNoAdapt.h include/JAGS/sampler/Sampler.h include/JAGS/sampler/SamplerFactory.h include/JAGS/sampler/SingletonFactory.h +include/JAGS/sampler/SingletonGraphView.h include/JAGS/sampler/Slicer.h include/JAGS/sampler/StepAdapter.h include/JAGS/sampler/TemperedMetropolis.h include/JAGS/sarray/Range.h include/JAGS/sarray/RangeIterator.h include/JAGS/sarray/SArray.h +include/JAGS/sarray/SimpleRange.h include/JAGS/util/dim.h include/JAGS/util/integer.h include/JAGS/util/logical.h @@ -85,8 +101,8 @@ lib/JAGS/modules-%%MODULEVERSION%%/lecuy lib/JAGS/modules-%%MODULEVERSION%%/mix.so lib/JAGS/modules-%%MODULEVERSION%%/msm.so lib/libjags.so -lib/libjags.so.3 -lib/libjags.so.3.0.4 +lib/libjags.so.4 +lib/libjags.so.4.0.0 lib/libjrmath.so lib/libjrmath.so.0 lib/libjrmath.so.0.0.0