Changes 2.10.0:

* Package help is now converted from Rd by the R-based converters
  that were first introduced in 2.9.0.
* HTML help is now generated dynamically using an HTTP server
  running in the R process and listening on the loopback interface.
* polygon(), pdf() and postscript() now have a parameter
  'fillOddEven' (default FALSE), which controls the mode used for
  polygon fills of self-intersecting shapes.
* New debugonce() function; further,
  getOption("deparse.max.lines") is now observed when debugging.
* plot() methods for "stepfun" and hence "ecdf" no longer plot
  points by default for n >= 1000.
* [g]sub(*, perl=TRUE) now also supports '\E' in order to *end*
  \U and \L case changes, thanks to a patch from Bill Dunlap.
* factor(), `levels<-`(), etc, now ensure that the resulting factor
  levels are unique (as was always the implied intention).  Factors
  with duplicated levels are still constructible by low-level means,
  but are now declared illegal.
* New print() (S3) method for class "function", also used for
  auto-printing.  Further, .Primitive functions now print and
  auto-print identically.
* The print() and toLatex() methods for class "sessionInfo" now
  show the locale in a nicer format and have arguments to
  suppress locale information.
* In addition to previously only round(), there are other 'Math'
  group (S3) methods for 'difftime', such as floor(), signif(), abs(), etc.
* For completeness, old.packages() and available.packages() allow
  'type' to be specified (you could always specify 'available'
  or 'contriburl').
* More...

6 files changed, 290 insertions, 7898 deletions

diff --git a/math/R/Makefile b/math/R/Makefile
index b6bfb716fa4..9b96388856a 100644
--- a/math/R/Makefile
+++ b/math/R/Makefile
@@ -1,7 +1,6 @@
-# $NetBSD: Makefile,v 1.103 2009/12/03 13:06:53 asau Exp $
+# $NetBSD: Makefile,v 1.104 2009/12/11 18:53:40 adam Exp $
 
-DISTNAME=		R-2.7.2
-PKGREVISION=		3
+DISTNAME=		R-2.10.0
 CATEGORIES=		math
 MASTER_SITES=		${MASTER_SITE_R_CRAN:=base/R-2/}
 
@@ -20,7 +19,7 @@ TEST_TARGET=		check
 USE_TOOLS+=		gmake gzip:run makeinfo perl:run sed unzip:run xmkmf
 USE_GNU_READLINE=	yes		# uses callback interface
 USE_GNU_ICONV=		yes		# latin1 support, iconvlist
-USE_LANGUAGES=		c fortran
+USE_LANGUAGES=		c c++ fortran
 USE_LIBTOOL=		yes
 TEXINFO_REQD=		4.7
 
@@ -35,14 +34,15 @@ CONFIGURE_ARGS+=	--without-gnome		# not yet stable
 CONFIGURE_ARGS+=	--with-system-zlib
 CONFIGURE_ARGS+=	--with-system-bzlib
 CONFIGURE_ARGS+=	--with-system-pcre
+CONFIGURE_ARGS+=	--with-system-xz
 
 # Disable Mac OS specific support used by R.app
 CONFIGURE_ARGS+=	--disable-R-framework
 CONFIGURE_ARGS+=	--without-aqua
 
 # Use BLAS (math/blas)
-#
 CONFIGURE_ARGS+=	--without-atlas
+CONFIGURE_ARGS+=	--disable-BLAS-shlib
 CONFIGURE_ARGS+=	--with-blas
 CONFIGURE_ARGS+=	--without-blas_risc
 CONFIGURE_ARGS+=	--without-dxml
@@ -57,10 +57,10 @@ CONFIGURE_ENV+=		r_cv_complete_blas=yes
 # Broken test for bzlib >= 1.0.5 in R 2.7.0
 CONFIGURE_ENV+=		r_cv_have_bzlib=yes
 
-CONFIGURE_ENV+=		GETWD=${TOOLS_PWD_CMD:Q}
+CONFIGURE_ENV+=		GETWD=${TOOLS_PWD_CMD}
 CONFIGURE_ENV+=		lt_cv_path_LD=${LD:Q}
-CONFIGURE_ENV+=		lt_cv_path_SED=${TOOLS_SED:Q}
-CONFIGURE_ENV+=		ac_cv_path_R_GZIPCMD=${TOOLS_GZIP_CMD:Q}
+CONFIGURE_ENV+=		lt_cv_path_SED=${TOOLS_SED}
+CONFIGURE_ENV+=		ac_cv_path_R_GZIPCMD=${TOOLS_GZIP_CMD}
 CONFIGURE_ENV+=		ac_cv_path_R_UNZIPCMD=${TOOLS_PATH.unzip}
 
 # Package assumes it can append to files (specifically DESCRIPTION) that have
@@ -70,7 +70,6 @@ SHAREMODE=		644
 .include "../../mk/bsd.prefs.mk"
 
 # R_PAPERSIZE can be: A4, Letter, Legal, Executive
-#
 .if defined(PAPERSIZE)
 R_PAPERSIZE?=		${PAPERSIZE}
 .else
@@ -82,7 +81,6 @@ R_PAPERSIZE=		Letter
 CONFIGURE_ENV+=		R_PAPERSIZE=${R_PAPERSIZE:Q}
 
 # These macros are used during the build, so strip off the -o,-g flags.
-#
 INSTALL_DATA=		${INSTALL} ${COPY} -m ${SHAREMODE}
 INSTALL_SCRIPT=		${INSTALL} ${COPY} -m ${BINMODE}
 
@@ -94,11 +92,13 @@ CONFIGURE_ARGS+=	--enable-mbcs=no
 .endif
 
 .include "../../archivers/bzip2/buildlink3.mk"
+.include "../../archivers/xz/buildlink3.mk"
 .include "../../converters/libiconv/buildlink3.mk"
 .include "../../devel/gettext-lib/buildlink3.mk"
 .include "../../devel/pcre/buildlink3.mk"
 .include "../../devel/readline/buildlink3.mk"
 .include "../../devel/zlib/buildlink3.mk"
+.include "../../graphics/cairo/buildlink3.mk"
 .include "../../graphics/jpeg/buildlink3.mk"
 .include "../../graphics/png/buildlink3.mk"
 .include "../../graphics/tiff/buildlink3.mk"
diff --git a/math/R/PLIST b/math/R/PLIST
index dcccee7adfa..ba2cfa627fe 100644
--- a/math/R/PLIST
+++ b/math/R/PLIST
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.9 2009/06/14 18:05:41 joerg Exp $
+@comment $NetBSD: PLIST,v 1.10 2009/12/11 18:53:40 adam Exp $
 bin/R
 bin/Rscript
 lib/R/COPYING
@@ -12,7 +12,6 @@ lib/R/bin/R
 lib/R/bin/REMOVE
 lib/R/bin/Rcmd
 lib/R/bin/Rd2dvi
-lib/R/bin/Rd2txt
 lib/R/bin/Rdconv
 lib/R/bin/Rdiff
 lib/R/bin/Rprof
@@ -30,6 +29,7 @@ lib/R/bin/javareconf
 lib/R/bin/libtool
 lib/R/bin/mkinstalldirs
 lib/R/bin/pager
+lib/R/bin/rtags
 lib/R/doc/AUTHORS
 lib/R/doc/COPYING
 lib/R/doc/COPYING.LIB
@@ -42,26 +42,17 @@ lib/R/doc/NEWS
 lib/R/doc/RESOURCES
 lib/R/doc/THANKS
 lib/R/doc/html/R.css
+lib/R/doc/html/Search.html
+lib/R/doc/html/SearchOn.html
 lib/R/doc/html/about.html
+lib/R/doc/html/favicon.ico
 lib/R/doc/html/index.html
 lib/R/doc/html/left.jpg
 lib/R/doc/html/logo.jpg
 lib/R/doc/html/logosm.jpg
 lib/R/doc/html/packages-head-utf8.html
-lib/R/doc/html/packages-head.html
 lib/R/doc/html/resources.html
 lib/R/doc/html/right.jpg
-lib/R/doc/html/search/IndexEntry.class
-lib/R/doc/html/search/IndexStream.class
-lib/R/doc/html/search/IndexTable.class
-lib/R/doc/html/search/SearchEngine-foot.html
-lib/R/doc/html/search/SearchEngine-head.html
-lib/R/doc/html/search/SearchEngine.class
-lib/R/doc/html/search/SearchEngine.html
-lib/R/doc/html/search/SearchObject.html
-lib/R/doc/html/search/Tracer.class
-lib/R/doc/html/search/Value.class
-lib/R/doc/html/thanks.html
 lib/R/doc/html/up.jpg
 lib/R/doc/manual/R-FAQ.html
 lib/R/doc/manual/R-admin.html
@@ -109,9 +100,7 @@ lib/R/include/R_ext/stats_package.h
 lib/R/include/R_ext/stats_stubs.h
 lib/R/include/Rconfig.h
 lib/R/include/Rdefines.h
-lib/R/include/Rdevices.h
 lib/R/include/Rembedded.h
-lib/R/include/Rgraphics.h
 lib/R/include/Rinterface.h
 lib/R/include/Rinternals.h
 lib/R/include/Rmath.h
@@ -119,623 +108,53 @@ lib/R/include/Rversion.h
 lib/R/include/S.h
 lib/R/lib/libR.so
 lib/R/lib/libRlapack.so
-lib/R/library/KernSmooth/CONTENTS
 lib/R/library/KernSmooth/DESCRIPTION
 lib/R/library/KernSmooth/INDEX
 lib/R/library/KernSmooth/LICENCE
 lib/R/library/KernSmooth/Meta/Rd.rds
 lib/R/library/KernSmooth/Meta/hsearch.rds
+lib/R/library/KernSmooth/Meta/links.rds
 lib/R/library/KernSmooth/Meta/nsInfo.rds
 lib/R/library/KernSmooth/Meta/package.rds
 lib/R/library/KernSmooth/NAMESPACE
-lib/R/library/KernSmooth/R-ex/bkde.R
-lib/R/library/KernSmooth/R-ex/bkde2D.R
-lib/R/library/KernSmooth/R-ex/bkfe.R
-lib/R/library/KernSmooth/R-ex/dpih.R
-lib/R/library/KernSmooth/R-ex/dpik.R
-lib/R/library/KernSmooth/R-ex/dpill.R
-lib/R/library/KernSmooth/R-ex/locpoly.R
 lib/R/library/KernSmooth/R/KernSmooth
 lib/R/library/KernSmooth/R/KernSmooth.rdb
 lib/R/library/KernSmooth/R/KernSmooth.rdx
 lib/R/library/KernSmooth/help/AnIndex
-lib/R/library/KernSmooth/help/bkde
-lib/R/library/KernSmooth/help/bkde2D
-lib/R/library/KernSmooth/help/bkfe
-lib/R/library/KernSmooth/help/dpih
-lib/R/library/KernSmooth/help/dpik
-lib/R/library/KernSmooth/help/dpill
-lib/R/library/KernSmooth/help/locpoly
+lib/R/library/KernSmooth/help/KernSmooth.rdb
+lib/R/library/KernSmooth/help/KernSmooth.rdx
+lib/R/library/KernSmooth/help/aliases.rds
+lib/R/library/KernSmooth/help/paths.rds
 lib/R/library/KernSmooth/html/00Index.html
-lib/R/library/KernSmooth/html/bkde.html
-lib/R/library/KernSmooth/html/bkde2D.html
-lib/R/library/KernSmooth/html/bkfe.html
-lib/R/library/KernSmooth/html/dpih.html
-lib/R/library/KernSmooth/html/dpik.html
-lib/R/library/KernSmooth/html/dpill.html
-lib/R/library/KernSmooth/html/locpoly.html
-lib/R/library/KernSmooth/latex/bkde.tex
-lib/R/library/KernSmooth/latex/bkde2D.tex
-lib/R/library/KernSmooth/latex/bkfe.tex
-lib/R/library/KernSmooth/latex/dpih.tex
-lib/R/library/KernSmooth/latex/dpik.tex
-lib/R/library/KernSmooth/latex/dpill.tex
-lib/R/library/KernSmooth/latex/locpoly.tex
 lib/R/library/KernSmooth/libs/KernSmooth.so
-lib/R/library/KernSmooth/man/KernSmooth.Rd.gz
+lib/R/library/KernSmooth/po/de/LC_MESSAGES/R-KernSmooth.mo
+lib/R/library/KernSmooth/po/en@quot/LC_MESSAGES/R-KernSmooth.mo
 lib/R/library/MASS/CITATION
-lib/R/library/MASS/CONTENTS
 lib/R/library/MASS/DESCRIPTION
 lib/R/library/MASS/INDEX
 lib/R/library/MASS/LICENCE
 lib/R/library/MASS/Meta/Rd.rds
 lib/R/library/MASS/Meta/data.rds
 lib/R/library/MASS/Meta/hsearch.rds
+lib/R/library/MASS/Meta/links.rds
 lib/R/library/MASS/Meta/nsInfo.rds
 lib/R/library/MASS/Meta/package.rds
 lib/R/library/MASS/NAMESPACE
 lib/R/library/MASS/NEWS
-lib/R/library/MASS/R-ex/Insurance.R
-lib/R/library/MASS/R-ex/Null.R
-lib/R/library/MASS/R-ex/OME.R
-lib/R/library/MASS/R-ex/Skye.R
-lib/R/library/MASS/R-ex/addterm.R
-lib/R/library/MASS/R-ex/anova.negbin.R
-lib/R/library/MASS/R-ex/area.R
-lib/R/library/MASS/R-ex/bacteria.R
-lib/R/library/MASS/R-ex/bandwidth.nrd.R
-lib/R/library/MASS/R-ex/bcv.R
-lib/R/library/MASS/R-ex/beav1.R
-lib/R/library/MASS/R-ex/beav2.R
-lib/R/library/MASS/R-ex/birthwt.R
-lib/R/library/MASS/R-ex/boxcox.R
-lib/R/library/MASS/R-ex/caith.R
-lib/R/library/MASS/R-ex/cement.R
-lib/R/library/MASS/R-ex/confint.R
-lib/R/library/MASS/R-ex/contr.sdif.R
-lib/R/library/MASS/R-ex/corresp.R
-lib/R/library/MASS/R-ex/cov.rob.R
-lib/R/library/MASS/R-ex/cov.trob.R
-lib/R/library/MASS/R-ex/denumerate.R
-lib/R/library/MASS/R-ex/dose.p.R
-lib/R/library/MASS/R-ex/dropterm.R
-lib/R/library/MASS/R-ex/eagles.R
-lib/R/library/MASS/R-ex/epil.R
-lib/R/library/MASS/R-ex/farms.R
-lib/R/library/MASS/R-ex/fitdistr.R
-lib/R/library/MASS/R-ex/fractions.R
-lib/R/library/MASS/R-ex/galaxies.R
-lib/R/library/MASS/R-ex/gamma.shape.glm.R
-lib/R/library/MASS/R-ex/gehan.R
-lib/R/library/MASS/R-ex/ginv.R
-lib/R/library/MASS/R-ex/glm.convert.R
-lib/R/library/MASS/R-ex/glm.nb.R
-lib/R/library/MASS/R-ex/glmmPQL.R
-lib/R/library/MASS/R-ex/housing.R
-lib/R/library/MASS/R-ex/huber.R
-lib/R/library/MASS/R-ex/hubers.R
-lib/R/library/MASS/R-ex/immer.R
-lib/R/library/MASS/R-ex/isoMDS.R
-lib/R/library/MASS/R-ex/kde2d.R
-lib/R/library/MASS/R-ex/lda.R
-lib/R/library/MASS/R-ex/leuk.R
-lib/R/library/MASS/R-ex/lm.ridge.R
-lib/R/library/MASS/R-ex/loglm.R
-lib/R/library/MASS/R-ex/logtrans.R
-lib/R/library/MASS/R-ex/lqs.R
-lib/R/library/MASS/R-ex/mca.R
-lib/R/library/MASS/R-ex/menarche.R
-lib/R/library/MASS/R-ex/motors.R
-lib/R/library/MASS/R-ex/muscle.R
-lib/R/library/MASS/R-ex/mvrnorm.R
-lib/R/library/MASS/R-ex/negative.binomial.R
-lib/R/library/MASS/R-ex/nlschools.R
-lib/R/library/MASS/R-ex/npk.R
-lib/R/library/MASS/R-ex/oats.R
-lib/R/library/MASS/R-ex/parcoord.R
-lib/R/library/MASS/R-ex/petrol.R
-lib/R/library/MASS/R-ex/plot.mca.R
-lib/R/library/MASS/R-ex/plot.profile.R
-lib/R/library/MASS/R-ex/polr.R
-lib/R/library/MASS/R-ex/predict.glmmPQL.R
-lib/R/library/MASS/R-ex/predict.lda.R
-lib/R/library/MASS/R-ex/predict.lqs.R
-lib/R/library/MASS/R-ex/predict.qda.R
-lib/R/library/MASS/R-ex/profile.glm.R
-lib/R/library/MASS/R-ex/qda.R
-lib/R/library/MASS/R-ex/rational.R
-lib/R/library/MASS/R-ex/renumerate.R
-lib/R/library/MASS/R-ex/rlm.R
-lib/R/library/MASS/R-ex/rms.curv.R
-lib/R/library/MASS/R-ex/rnegbin.R
-lib/R/library/MASS/R-ex/sammon.R
-lib/R/library/MASS/R-ex/stepAIC.R
-lib/R/library/MASS/R-ex/summary.negbin.R
-lib/R/library/MASS/R-ex/summary.rlm.R
-lib/R/library/MASS/R-ex/theta.md.R
-lib/R/library/MASS/R-ex/ucv.R
-lib/R/library/MASS/R-ex/waders.R
-lib/R/library/MASS/R-ex/whiteside.R
-lib/R/library/MASS/R-ex/width.SJ.R
-lib/R/library/MASS/R-ex/wtloss.R
 lib/R/library/MASS/R/MASS
 lib/R/library/MASS/R/MASS.rdb
 lib/R/library/MASS/R/MASS.rdx
 lib/R/library/MASS/data/Rdata.rdb
 lib/R/library/MASS/data/Rdata.rds
 lib/R/library/MASS/data/Rdata.rdx
-lib/R/library/MASS/help/Aids2
 lib/R/library/MASS/help/AnIndex
-lib/R/library/MASS/help/Animals
-lib/R/library/MASS/help/Boston
-lib/R/library/MASS/help/Cars93
-lib/R/library/MASS/help/Cushings
-lib/R/library/MASS/help/DDT
-lib/R/library/MASS/help/GAGurine
-lib/R/library/MASS/help/Insurance
-lib/R/library/MASS/help/MASS-internal
-lib/R/library/MASS/help/Melanoma
-lib/R/library/MASS/help/Null
-lib/R/library/MASS/help/OME
-lib/R/library/MASS/help/Pima.tr
-lib/R/library/MASS/help/Rabbit
-lib/R/library/MASS/help/Rubber
-lib/R/library/MASS/help/SP500
-lib/R/library/MASS/help/Sitka
-lib/R/library/MASS/help/Sitka89
-lib/R/library/MASS/help/Skye
-lib/R/library/MASS/help/Traffic
-lib/R/library/MASS/help/UScereal
-lib/R/library/MASS/help/UScrime
-lib/R/library/MASS/help/VA
-lib/R/library/MASS/help/abbey
-lib/R/library/MASS/help/accdeaths
-lib/R/library/MASS/help/addterm
-lib/R/library/MASS/help/anorexia
-lib/R/library/MASS/help/anova.negbin
-lib/R/library/MASS/help/area
-lib/R/library/MASS/help/bacteria
-lib/R/library/MASS/help/bandwidth.nrd
-lib/R/library/MASS/help/bcv
-lib/R/library/MASS/help/beav1
-lib/R/library/MASS/help/beav2
-lib/R/library/MASS/help/biopsy
-lib/R/library/MASS/help/birthwt
-lib/R/library/MASS/help/boxcox
-lib/R/library/MASS/help/cabbages
-lib/R/library/MASS/help/caith
-lib/R/library/MASS/help/cats
-lib/R/library/MASS/help/cement
-lib/R/library/MASS/help/chem
-lib/R/library/MASS/help/con2tr
-lib/R/library/MASS/help/confint
-lib/R/library/MASS/help/contr.sdif
-lib/R/library/MASS/help/coop
-lib/R/library/MASS/help/corresp
-lib/R/library/MASS/help/cov.rob
-lib/R/library/MASS/help/cov.trob
-lib/R/library/MASS/help/cpus
-lib/R/library/MASS/help/crabs
-lib/R/library/MASS/help/deaths
-lib/R/library/MASS/help/denumerate
-lib/R/library/MASS/help/dose.p
-lib/R/library/MASS/help/drivers
-lib/R/library/MASS/help/dropterm
-lib/R/library/MASS/help/eagles
-lib/R/library/MASS/help/epil
-lib/R/library/MASS/help/eqscplot
-lib/R/library/MASS/help/farms
-lib/R/library/MASS/help/fgl
-lib/R/library/MASS/help/fitdistr
-lib/R/library/MASS/help/forbes
-lib/R/library/MASS/help/fractions
-lib/R/library/MASS/help/galaxies
-lib/R/library/MASS/help/gamma.dispersion
-lib/R/library/MASS/help/gamma.shape.glm
-lib/R/library/MASS/help/gehan
-lib/R/library/MASS/help/genotype
-lib/R/library/MASS/help/geyser
-lib/R/library/MASS/help/gilgais
-lib/R/library/MASS/help/ginv
-lib/R/library/MASS/help/glm.convert
-lib/R/library/MASS/help/glm.nb
-lib/R/library/MASS/help/glmmPQL
-lib/R/library/MASS/help/hills
-lib/R/library/MASS/help/hist.scott
-lib/R/library/MASS/help/housing
-lib/R/library/MASS/help/huber
-lib/R/library/MASS/help/hubers
-lib/R/library/MASS/help/immer
-lib/R/library/MASS/help/isoMDS
-lib/R/library/MASS/help/kde2d
-lib/R/library/MASS/help/lda
-lib/R/library/MASS/help/ldahist
-lib/R/library/MASS/help/leuk
-lib/R/library/MASS/help/lm.gls
-lib/R/library/MASS/help/lm.ridge
-lib/R/library/MASS/help/loglm
-lib/R/library/MASS/help/loglm1
-lib/R/library/MASS/help/logtrans
-lib/R/library/MASS/help/lqs
-lib/R/library/MASS/help/mammals
-lib/R/library/MASS/help/mca
-lib/R/library/MASS/help/mcycle
-lib/R/library/MASS/help/menarche
-lib/R/library/MASS/help/michelson
-lib/R/library/MASS/help/minn38
-lib/R/library/MASS/help/motors
-lib/R/library/MASS/help/muscle
-lib/R/library/MASS/help/mvrnorm
-lib/R/library/MASS/help/negative.binomial
-lib/R/library/MASS/help/newcomb
-lib/R/library/MASS/help/nlschools
-lib/R/library/MASS/help/npk
-lib/R/library/MASS/help/npr1
-lib/R/library/MASS/help/oats
-lib/R/library/MASS/help/painters
-lib/R/library/MASS/help/pairs.lda
-lib/R/library/MASS/help/parcoord
-lib/R/library/MASS/help/petrol
-lib/R/library/MASS/help/phones
-lib/R/library/MASS/help/plot.lda
-lib/R/library/MASS/help/plot.mca
-lib/R/library/MASS/help/plot.profile
-lib/R/library/MASS/help/polr
-lib/R/library/MASS/help/predict.glmmPQL
-lib/R/library/MASS/help/predict.lda
-lib/R/library/MASS/help/predict.lqs
-lib/R/library/MASS/help/predict.mca
-lib/R/library/MASS/help/predict.qda
-lib/R/library/MASS/help/profile.glm
-lib/R/library/MASS/help/qda
-lib/R/library/MASS/help/quine
-lib/R/library/MASS/help/rational
-lib/R/library/MASS/help/renumerate
-lib/R/library/MASS/help/rlm
-lib/R/library/MASS/help/rms.curv
-lib/R/library/MASS/help/rnegbin
-lib/R/library/MASS/help/road
-lib/R/library/MASS/help/rotifer
-lib/R/library/MASS/help/sammon
-lib/R/library/MASS/help/ships
-lib/R/library/MASS/help/shoes
-lib/R/library/MASS/help/shrimp
-lib/R/library/MASS/help/shuttle
-lib/R/library/MASS/help/snails
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-lib/R/library/grDevices/latex/dev.size.tex
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-lib/R/library/grDevices/latex/make.rgb.tex
-lib/R/library/grDevices/latex/n2mfrow.tex
-lib/R/library/grDevices/latex/nclass.tex
-lib/R/library/grDevices/latex/palette.tex
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-lib/R/library/grDevices/latex/pdf.tex
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-lib/R/library/grDevices/latex/plotmath.tex
-lib/R/library/grDevices/latex/png.tex
-lib/R/library/grDevices/latex/postscript.tex
-lib/R/library/grDevices/latex/postscriptFonts.tex
-lib/R/library/grDevices/latex/ps.options.tex
-lib/R/library/grDevices/latex/quartz.tex
-lib/R/library/grDevices/latex/quartzFonts.tex
-lib/R/library/grDevices/latex/recordGraphics.tex
-lib/R/library/grDevices/latex/recordplot.tex
-lib/R/library/grDevices/latex/rgb.tex
-lib/R/library/grDevices/latex/rgb2hsv.tex
-lib/R/library/grDevices/latex/savePlot.tex
-lib/R/library/grDevices/latex/trans3d.tex
-lib/R/library/grDevices/latex/x11.tex
-lib/R/library/grDevices/latex/x11Fonts.tex
-lib/R/library/grDevices/latex/xfig.tex
-lib/R/library/grDevices/latex/xy.coords.tex
-lib/R/library/grDevices/latex/xyTable.tex
-lib/R/library/grDevices/latex/xyz.coords.tex
 lib/R/library/grDevices/libs/grDevices.so
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 lib/R/library/grDevices/po/de/LC_MESSAGES/R-grDevices.mo
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 lib/R/library/grDevices/po/en@quot/LC_MESSAGES/R-grDevices.mo
 lib/R/library/grDevices/po/en@quot/LC_MESSAGES/grDevices.mo
 lib/R/library/grDevices/po/en_GB/LC_MESSAGES/R-grDevices.mo
@@ -3697,77 +555,15 @@ lib/R/library/grDevices/po/ru/LC_MESSAGES/R-grDevices.mo
 lib/R/library/grDevices/po/ru/LC_MESSAGES/grDevices.mo
 lib/R/library/grDevices/po/zh_CN/LC_MESSAGES/R-grDevices.mo
 lib/R/library/grDevices/po/zh_CN/LC_MESSAGES/grDevices.mo
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 lib/R/library/graphics/DESCRIPTION
 lib/R/library/graphics/INDEX
 lib/R/library/graphics/Meta/Rd.rds
 lib/R/library/graphics/Meta/demo.rds
 lib/R/library/graphics/Meta/hsearch.rds
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 lib/R/library/graphics/Meta/nsInfo.rds
 lib/R/library/graphics/Meta/package.rds
 lib/R/library/graphics/NAMESPACE
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-lib/R/library/graphics/R-ex/curve.R
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 lib/R/library/graphics/R/graphics
 lib/R/library/graphics/R/graphics.rdb
 lib/R/library/graphics/R/graphics.rdx
@@ -3778,209 +574,11 @@ lib/R/library/graphics/demo/image.R
 lib/R/library/graphics/demo/persp.R
 lib/R/library/graphics/demo/plotmath.R
 lib/R/library/graphics/help/AnIndex
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-lib/R/library/graphics/help/units
-lib/R/library/graphics/help/xspline
-lib/R/library/graphics/help/zAxis
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-lib/R/library/graphics/latex/clip.tex
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-lib/R/library/graphics/latex/curve.tex
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-lib/R/library/graphics/latex/matplot.tex
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-lib/R/library/graphics/latex/pie.tex
-lib/R/library/graphics/latex/plot.dataframe.tex
-lib/R/library/graphics/latex/plot.design.tex
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-lib/R/library/graphics/latex/plot.tex
-lib/R/library/graphics/latex/plot.window.tex
-lib/R/library/graphics/latex/plot.xy.tex
-lib/R/library/graphics/latex/plotdefault.tex
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-lib/R/library/graphics/latex/plotformula.tex
-lib/R/library/graphics/latex/plothistogram.tex
-lib/R/library/graphics/latex/points.tex
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-lib/R/library/graphics/latex/strwidth.tex
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 lib/R/library/graphics/po/de/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/en@quot/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/fr/LC_MESSAGES/R-graphics.mo
@@ -3989,51 +587,15 @@ lib/R/library/graphics/po/ja/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/ko/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/ru/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/zh_CN/LC_MESSAGES/R-graphics.mo
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 lib/R/library/grid/DESCRIPTION
 lib/R/library/grid/INDEX
 lib/R/library/grid/Meta/Rd.rds
 lib/R/library/grid/Meta/hsearch.rds
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 lib/R/library/grid/Meta/nsInfo.rds
 lib/R/library/grid/Meta/package.rds
 lib/R/library/grid/Meta/vignette.rds
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-lib/R/library/grid/R-ex/vpPath.R
 lib/R/library/grid/R/grid
 lib/R/library/grid/R/grid.rdb
 lib/R/library/grid/R/grid.rdx
@@ -4080,229 +642,14 @@ lib/R/library/grid/doc/viewports.R
 lib/R/library/grid/doc/viewports.Snw
 lib/R/library/grid/doc/viewports.pdf
 lib/R/library/grid/help/AnIndex
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-lib/R/library/grid/help/absolute.size
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-lib/R/library/grid/help/convertNative
-lib/R/library/grid/help/current.viewport
-lib/R/library/grid/help/dataViewport
-lib/R/library/grid/help/drawDetails
-lib/R/library/grid/help/editDetails
-lib/R/library/grid/help/gEdit
-lib/R/library/grid/help/gPath
-lib/R/library/grid/help/getNames
-lib/R/library/grid/help/gpar
-lib/R/library/grid/help/grid-internal
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-lib/R/library/grid/help/grid.add
-lib/R/library/grid/help/grid.arrows
-lib/R/library/grid/help/grid.circle
-lib/R/library/grid/help/grid.clip
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-lib/R/library/grid/help/grid.convert
-lib/R/library/grid/help/grid.copy
-lib/R/library/grid/help/grid.curve
-lib/R/library/grid/help/grid.display.list
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-lib/R/library/grid/help/grid.edit
-lib/R/library/grid/help/grid.frame
-lib/R/library/grid/help/grid.get
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-lib/R/library/grid/help/grid.grill
-lib/R/library/grid/help/grid.grob
-lib/R/library/grid/help/grid.layout
-lib/R/library/grid/help/grid.lines
-lib/R/library/grid/help/grid.locator
-lib/R/library/grid/help/grid.ls
-lib/R/library/grid/help/grid.move.to
-lib/R/library/grid/help/grid.newpage
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-lib/R/library/grid/help/grid.plot.and.legend
-lib/R/library/grid/help/grid.points
-lib/R/library/grid/help/grid.polygon
-lib/R/library/grid/help/grid.pretty
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-lib/R/library/grid/help/grid.remove
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-lib/R/library/grid/help/grid.show.layout
-lib/R/library/grid/help/grid.show.viewport
-lib/R/library/grid/help/grid.text
-lib/R/library/grid/help/grid.xaxis
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-lib/R/library/grid/help/push.viewport
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-lib/R/library/grid/help/unit.length
-lib/R/library/grid/help/unit.pmin
-lib/R/library/grid/help/unit.rep
-lib/R/library/grid/help/validDetails
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-lib/R/library/grid/help/viewports
-lib/R/library/grid/help/vpPath
-lib/R/library/grid/help/widthDetails
-lib/R/library/grid/help/xDetails
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+lib/R/library/grid/help/grid.rdb
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 lib/R/library/grid/html/00Index.html
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 lib/R/library/grid/libs/grid.so
-lib/R/library/grid/man/grid.Rd.gz
 lib/R/library/grid/po/de/LC_MESSAGES/R-grid.mo
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 lib/R/library/grid/po/en@quot/LC_MESSAGES/R-grid.mo
 lib/R/library/grid/po/en@quot/LC_MESSAGES/grid.mo
 lib/R/library/grid/po/fr/LC_MESSAGES/R-grid.mo
@@ -4317,7 +664,6 @@ lib/R/library/grid/po/ru/LC_MESSAGES/R-grid.mo
 lib/R/library/grid/po/ru/LC_MESSAGES/grid.mo
 lib/R/library/grid/po/zh_CN/LC_MESSAGES/R-grid.mo
 lib/R/library/grid/po/zh_CN/LC_MESSAGES/grid.mo
-lib/R/library/lattice/CONTENTS
 lib/R/library/lattice/COPYING
 lib/R/library/lattice/DESCRIPTION
 lib/R/library/lattice/INDEX
@@ -4325,42 +671,11 @@ lib/R/library/lattice/Meta/Rd.rds
 lib/R/library/lattice/Meta/data.rds
 lib/R/library/lattice/Meta/demo.rds
 lib/R/library/lattice/Meta/hsearch.rds
+lib/R/library/lattice/Meta/links.rds
 lib/R/library/lattice/Meta/nsInfo.rds
 lib/R/library/lattice/Meta/package.rds
 lib/R/library/lattice/NAMESPACE
 lib/R/library/lattice/NEWS
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-lib/R/library/lattice/R-ex/axis.default.R
-lib/R/library/lattice/R-ex/banking.R
-lib/R/library/lattice/R-ex/barchart.table.R
-lib/R/library/lattice/R-ex/barley.R
-lib/R/library/lattice/R-ex/cloud.R
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-lib/R/library/lattice/R-ex/ethanol.R
-lib/R/library/lattice/R-ex/histogram.R
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-lib/R/library/lattice/R-ex/strip.default.R
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-lib/R/library/lattice/R-ex/xyplot.R
 lib/R/library/lattice/R/lattice
 lib/R/library/lattice/R/lattice.rdb
 lib/R/library/lattice/R/lattice.rdx
@@ -4372,421 +687,33 @@ lib/R/library/lattice/demo/labels.R
 lib/R/library/lattice/demo/lattice.R
 lib/R/library/lattice/demo/panel.R
 lib/R/library/lattice/help/AnIndex
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-lib/R/library/utils/latex/withVisible.tex
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+lib/R/library/utils/misc/exDIF.csv
+lib/R/library/utils/misc/exDIF.dif
 lib/R/library/utils/po/de/LC_MESSAGES/R-utils.mo
 lib/R/library/utils/po/en@quot/LC_MESSAGES/R-utils.mo
 lib/R/library/utils/po/fr/LC_MESSAGES/R-utils.mo
@@ -8756,8 +1154,13 @@ lib/R/modules/R_X11.so
 lib/R/modules/internet.so
 lib/R/modules/lapack.so
 lib/R/modules/vfonts.so
+lib/R/share/R/REMOVE.R
+lib/R/share/R/Rdiff.R
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+lib/R/share/R/examples-header.R
 lib/R/share/R/nspackloader.R
 lib/R/share/R/packloader.R
+lib/R/share/R/tests-startup.R
 lib/R/share/encodings/Adobe-glyphlist
 lib/R/share/encodings/character-sets
 lib/R/share/java/getsp.class
@@ -8779,32 +1182,24 @@ lib/R/share/locale/fr/LC_MESSAGES/R.mo
 lib/R/share/locale/it/LC_MESSAGES/R.mo
 lib/R/share/locale/ja/LC_MESSAGES/R.mo
 lib/R/share/locale/ko/LC_MESSAGES/R.mo
+lib/R/share/locale/nn/LC_MESSAGES/R.mo
 lib/R/share/locale/pt_BR/LC_MESSAGES/R.mo
 lib/R/share/locale/ru/LC_MESSAGES/R.mo
 lib/R/share/locale/zh_CN/LC_MESSAGES/R.mo
 lib/R/share/locale/zh_TW/LC_MESSAGES/R.mo
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 lib/R/share/make/check.mk
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 lib/R/share/make/config.mk
 lib/R/share/make/shlib.mk
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 lib/R/share/make/vars.mk
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 lib/R/share/perl/File/Copy/Recursive.pm
 lib/R/share/perl/R/Dcf.pm
 lib/R/share/perl/R/Logfile.pm
-lib/R/share/perl/R/Rd.pm
-lib/R/share/perl/R/Rdconv.pm
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-lib/R/share/perl/R/Rdtools.pm
 lib/R/share/perl/R/Utils.pm
 lib/R/share/perl/R/Vars.pm
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 lib/R/share/sh/echo.sh
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 lib/R/share/texmf/Rd.sty
 lib/R/share/texmf/Sweave.sty
 lib/R/share/texmf/omsaer.fd
diff --git a/math/R/distinfo b/math/R/distinfo
index c63e79f1263..06c83cbc53d 100644
--- a/math/R/distinfo
+++ b/math/R/distinfo
@@ -1,9 +1,8 @@
-$NetBSD: distinfo,v 1.40 2008/08/31 12:37:27 markd Exp $
+$NetBSD: distinfo,v 1.41 2009/12/11 18:53:40 adam Exp $
 
-SHA1 (R-2.7.2.tar.gz) = 0de9f00ae58e67840fc2daab8973d37d97d78535
-RMD160 (R-2.7.2.tar.gz) = 948e379f07cbfeda13c46947791f755e1faabbf7
-Size (R-2.7.2.tar.gz) = 16466658 bytes
-SHA1 (patch-ab) = b724b549cd9920865c4d4ae60c71dff48c4c0c06
-SHA1 (patch-ac) = 64c47fc44c437ad79de53fc313f280700590704f
-SHA1 (patch-ad) = e8f6b6989957a6872806716263eabb9feb636638
-SHA1 (patch-ae) = ce2a7e26cd7c44776075affd4c999bc1b74fe9cf
+SHA1 (R-2.10.0.tar.gz) = 72249c2fd4dc88d76f775c06b0336c8f934fb358
+RMD160 (R-2.10.0.tar.gz) = a0d335f99d744eba4f03b2082f6e71f1e9269399
+Size (R-2.10.0.tar.gz) = 19089286 bytes
+SHA1 (patch-ab) = c70f9f94bace4129b81f19d8802ae1de50c9f24e
+SHA1 (patch-ac) = eda258c5be9630fac013ea1f5a6785de299c1509
+SHA1 (patch-ad) = 5c6fd9f68d8fe4a12147d94c07590025427878fc
diff --git a/math/R/patches/patch-ab b/math/R/patches/patch-ab
index 16d34ff93b5..46312c6cbc6 100644
--- a/math/R/patches/patch-ab
+++ b/math/R/patches/patch-ab
@@ -1,8 +1,8 @@
-$NetBSD: patch-ab,v 1.18 2005/12/11 14:37:12 markd Exp $
+$NetBSD: patch-ab,v 1.19 2009/12/11 18:53:40 adam Exp $
 
---- src/include/Defn.h.orig	2005-09-23 14:05:03.000000000 +1200
+--- src/include/Defn.h.orig	2009-09-30 04:05:04.000000000 +0200
 +++ src/include/Defn.h
-@@ -982,7 +982,7 @@ extern AccuracyInfo R_AccuracyInfo;
+@@ -1232,7 +1232,7 @@ extern char *locale2charset(const char *
  # ifdef HAVE_ALLOCA_H
  #  include <alloca.h>
  # endif
diff --git a/math/R/patches/patch-ac b/math/R/patches/patch-ac
index 51bc6abc4e6..ae37314ba55 100644
--- a/math/R/patches/patch-ac
+++ b/math/R/patches/patch-ac
@@ -1,8 +1,8 @@
-$NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
+$NetBSD: patch-ac,v 1.24 2009/12/11 18:53:40 adam Exp $
 
---- configure.orig	2008-04-15 14:06:13.000000000 +1200
+--- configure.orig	2009-10-15 04:06:36.000000000 +0200
 +++ configure
-@@ -2712,7 +2712,7 @@ fi
+@@ -2719,7 +2719,7 @@ fi
  
  
  if test "${want_R_shlib}" = yes; then
@@ -11,7 +11,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
  else
    LIBR=
  fi
-@@ -28129,6 +28129,7 @@ cat > conftest.c <<EOF
+@@ -28544,6 +28544,7 @@ cat > conftest.c <<EOF
  #else
  # define F77_SYMBOL(x)   x
  #endif
@@ -19,7 +19,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
  int main () {
    exit(0);
  }
-@@ -28206,6 +28207,9 @@ cat > conftest.c <<EOF
+@@ -28621,6 +28622,9 @@ cat > conftest.c <<EOF
  
  extern void F77_SYMBOL(cftest)(int *a, int *b, double *x, double *y);
  
@@ -29,7 +29,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
  int main () {
    int a[3] = {17, 237, 2000000000}, b[2], res = 0;
    double x[3] = {3.14159265, 123.456789, 2.3e34}, z[3];
-@@ -28303,6 +28307,9 @@ typedef struct {
+@@ -28718,6 +28722,9 @@ typedef struct {
  
  extern void F77_SYMBOL(cftest)(Rcomplex *x);
  
@@ -39,7 +39,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
  int main () {
      Rcomplex z[3];
  
-@@ -29385,151 +29392,6 @@ echo "${ECHO_T}no" >&6; }
+@@ -29802,151 +29809,6 @@ echo "${ECHO_T}no" >&6; }
  fi
  
      fi
@@ -191,7 +191,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
      if test "${GXX}" = yes; then
        ac_safe=_mieee
  { echo "$as_me:$LINENO: checking whether ${CXX-c++} accepts -mieee" >&5
-@@ -31027,7 +30889,7 @@ echo "$as_me: WARNING: Use of flat names
+@@ -31453,7 +31315,7 @@ echo "$as_me: WARNING: Use of flat names
        SHLIB_LIBADD="-lcc_dynamic"
      fi
      ;;
@@ -200,7 +200,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
      ## Only sure for FreeBSD 3 and above.
      main_ldflags="-export-dynamic"
      shlib_ldflags="-shared"
-@@ -31116,6 +30978,12 @@ echo "$as_me: WARNING: Use of flat names
+@@ -31542,6 +31404,12 @@ echo "$as_me: WARNING: Use of flat names
      fcpicflags=
      ;;
    netbsd*)
@@ -213,7 +213,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
      if ${CPP} - -dM < /dev/null | grep __ELF__ >/dev/null ; then
        main_ldflags="-export-dynamic"
        shlib_ldflags="-shared"
-@@ -31215,7 +31083,7 @@ fi
+@@ -31641,7 +31509,7 @@ fi
  : ${FPICFLAGS="${fpicflags}"}
  if test -z "${FPICFLAGS}"; then
    case "${host_os}" in
@@ -222,7 +222,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
        ;;
      *)
        { echo "$as_me:$LINENO: WARNING: I could not determine FPICFLAGS." >&5
-@@ -37567,6 +37435,15 @@ cat > conftest.c <<EOF
+@@ -38017,6 +37885,15 @@ cat > conftest.c <<EOF
  #endif
  extern void F77_SYMBOL(test1)(int *iflag);
  
@@ -238,7 +238,7 @@ $NetBSD: patch-ac,v 1.23 2008/04/26 02:39:27 markd Exp $
  int main () {
    int iflag;
    F77_SYMBOL(test1)(&iflag);
-@@ -37631,6 +37508,14 @@ else
+@@ -38084,6 +37961,14 @@ else
  #else
  # define F77_SYMBOL(x)   x
  #endif
diff --git a/math/R/patches/patch-ad b/math/R/patches/patch-ad
index 7a57f4c1aa9..3352006c663 100644
--- a/math/R/patches/patch-ad
+++ b/math/R/patches/patch-ad
@@ -1,12 +1,9 @@
-$NetBSD: patch-ad,v 1.12 2008/04/26 02:39:27 markd Exp $
+$NetBSD: patch-ad,v 1.13 2009/12/11 18:53:40 adam Exp $
 
-Add LIBMULTITHREAD to EXTRA_LIBS to pick up -lpthread on NetBSD, otherwise
-R segfaults on loading tcltk extension.
-
---- src/main/Makefile.in.orig	2008-04-10 14:05:02.000000000 +1200
+--- src/main/Makefile.in.orig	2009-10-14 04:05:03.000000000 +0200
 +++ src/main/Makefile.in
-@@ -91,12 +91,12 @@ MAIN_LIBS = ../unix/libunix.a ../appl/li
- EXTRA_STATIC_LIBS = $(R_ZLIBS) $(R_BZLIBS) $(R_PCRE) $(R_XDR)$(R_LIBINTL)
+@@ -97,13 +97,13 @@ EXTRA_STATIC_LIBS = \
+   $(R_ZLIBS) $(R_BZLIBS) $(R_PCRE) $(R_TRE) $(R_XDR) $(R_XZ) $(R_LIBINTL)
  STATIC_LIBS = $(MAIN_LIBS) $(EXTRA_STATIC_LIBS)
  
 -EXTRA_LIBS = $(BLAS_LIBS) $(FLIBS) $(R_XTRA_LIBS) @LIBINTL@ $(READLINE_LIBS) $(LIBS)
@@ -15,8 +12,9 @@ R segfaults on loading tcltk extension.
  R_binary = R.bin
  R_bin_OBJECTS = Rmain.o
  @WANT_R_SHLIB_FALSE@R_bin_LDADD = libR.a $(EXTRA_LIBS)
+ ## Linked against -lRblas becasue -lR is and otherwise ld complains.
 -@WANT_R_SHLIB_TRUE@R_bin_LDADD = -L../../lib@R_ARCH@ -lR @BLAS_SHLIB_TRUE@-lRblas
 +@WANT_R_SHLIB_TRUE@R_bin_LDADD = -L../../lib@R_ARCH@ ${COMPILER_RPATH_FLAG}$(Rexeclibdir) -lR @BLAS_SHLIB_TRUE@-lRblas
- R_bin_DEPENDENCIES =@WANT_R_SHLIB_FALSE@ libR.a
+ R_bin_DEPENDENCIES =@WANT_R_SHLIB_FALSE@ libR.a @USE_EXPORTFILES_TRUE@ $(top_builddir)/etc/R.exp
  
  libR_la = libR$(DYLIB_EXT)