- Update to 1.9.0

PR:		ports/65519
Submitted by:	Rong-En Fan <rafan@infor.org>
This patch by:	Eric van Gyzen <vangyzen@stat.duke.edu> (maintainer)

3 files changed, 2250 insertions, 2117 deletions

diff --git a/math/R/Makefile b/math/R/Makefile
index 84503ef49bc4..d6354d088c45 100644
--- a/math/R/Makefile
+++ b/math/R/Makefile
@@ -1,5 +1,5 @@
 # ex: ts=8 sts=0 noet
-# New ports collection makefile for:	R (letter)
+# New ports collection makefile for:	R
 # Date created:			Fri Feb  9 10:50:25 EST 2001
 # Whom:				Maurice Castro <maurice@serc.rmit.edu.au>
 #
@@ -7,7 +7,7 @@
 #
 
 PORTNAME=	R
-PORTVERSION=	1.8.1
+PORTVERSION=	1.9.0
 CATEGORIES=	math
 MASTER_SITES=	http://cran.r-project.org/src/base/ \
 		ftp://cran.r-project.org/pub/R/src/base/ \
@@ -27,14 +27,11 @@ MASTER_SITES=	http://cran.r-project.org/src/base/ \
 		http://probability.ca/cran/src/base/ \
 		http://www.ibiblio.org/pub/languages/R/CRAN/src/base/ \
 		http://www.bioconductor.org/CRAN/src/base/
-PKGNAMESUFFIX=	-${PAPERSIZE}
 EXTRACT_SUFX=	.tgz
 
 MAINTAINER=	vangyzen@stat.duke.edu
 COMMENT=	A language for statistical computing and graphics
 
-CONFLICTS?=	R-a4-*
-
 LIB_DEPENDS=	tcl84:${PORTSDIR}/lang/tcl84 \
 		tk84:${PORTSDIR}/x11-toolkits/tk84 \
 		jpeg.9:${PORTSDIR}/graphics/jpeg \
@@ -49,29 +46,39 @@ LIB_DEPENDS+=	lapack.3:${PORTSDIR}/math/lapack
 CONFIGURE_ARGS=	--with-lapack="-llapack" --with-blas="-lblas"
 .endif
 
+MAN1=		R.1
+
 GNU_CONFIGURE=	yes
 USE_XLIB=	yes
 USE_PERL5=	yes
-CONFIGURE_ENV=	R_PAPERSIZE=${PAPERSIZE} FFLAGS="${FFLAGS}" \
+CONFIGURE_ENV=	FFLAGS="${FFLAGS}" \
 		INSTALL_DATA="${INSTALL} ${COPY} ${_SHROWNGRP} -m 644"
-CONFIGURE_ARGS+=--enable-R-shlib
-
-PAPERSIZE?=	letter
-.if ${PAPERSIZE} != letter && ${PAPERSIZE} != a4
-.BEGIN:
-	@${ECHO} "Invalid value for PAPERSIZE: \"${PAPERSIZE}\""
-	@${ECHO} "Possible values are: a4 letter"
-	@${FALSE}
-.endif
+CONFIGURE_ARGS+=--enable-R-shlib --with-bzlib --with-pcre --with-zlib
 
-MAN1=	R.1
+# NB: R 1.9.0 requires zlib 1.2.1, but the system zlib is currently
+# only 1.1.4.  Thus, R compiles its own bundled version of zlib
+# despite configuring with --with-zlib.
 
 .include <bsd.port.pre.mk>
 
+pre-fetch:
+.if !defined(PAPERSIZE)
+	@${ECHO}
+	@${ECHO} "    The default paper size for printing from R is A4."
+	@${ECHO} "    You can change it by setting the PAPERSIZE"
+	@${ECHO} "    make variable to one of:"
+	@${ECHO} "        a4 letter legal executive"
+	@${ECHO} "    For example:"
+	@${ECHO} "        # make PAPERSIZE=letter install clean"
+	@${ECHO}
+.else
+CONFIGURE_ENV+=	R_PAPERSIZE=${PAPERSIZE} 
+.endif
+
 # Build the four documentation formats sequentially (instead of simultaneously)
 # to prevent perl 5.8 from using too much memory (> 512 MB) and being killed.
 .if ${PERL_LEVEL} >= 500800
-ALL_TARGET=	Makefile Makeconf R help html latex examples stamp-recommended
+ALL_TARGET=	Makefile Makeconf R help html latex examples docs stamp-recommended
 .endif
 
 test check: build
diff --git a/math/R/distinfo b/math/R/distinfo
index b23f198df043..fda50e0b4072 100644
--- a/math/R/distinfo
+++ b/math/R/distinfo
@@ -1,2 +1,2 @@
-MD5 (R-1.8.1.tgz) = cd81fdeaf22f93dfc28979e8132722ec
-SIZE (R-1.8.1.tgz) = 9407628
+MD5 (R-1.9.0.tgz) = 79ae9d20a7bed94d7c92504c8c130310
+SIZE (R-1.9.0.tgz) = 9505598
diff --git a/math/R/pkg-plist b/math/R/pkg-plist
index 763fa0845b9e..0a5d91ac51b7 100644
--- a/math/R/pkg-plist
+++ b/math/R/pkg-plist
@@ -40,6 +40,8 @@ lib/R/afm/c059013l.afm
 lib/R/afm/c059016l.afm
 lib/R/afm/c059033l.afm
 lib/R/afm/c059036l.afm
+lib/R/afm/cmbxti10.afm
+lib/R/afm/cmti10.afm
 lib/R/afm/cob_____.afm
 lib/R/afm/cobo____.afm
 lib/R/afm/com_____.afm
@@ -186,6 +188,7 @@ lib/R/library/KernSmooth/DESCRIPTION
 lib/R/library/KernSmooth/INDEX
 lib/R/library/KernSmooth/Meta/Rd.rds
 lib/R/library/KernSmooth/Meta/hsearch.rds
+lib/R/library/KernSmooth/Meta/nsInfo.rds
 lib/R/library/KernSmooth/NAMESPACE
 lib/R/library/KernSmooth/R-ex/bkde.R
 lib/R/library/KernSmooth/R-ex/bkde2D.R
@@ -227,6 +230,7 @@ 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/nsInfo.rds
 lib/R/library/MASS/NAMESPACE
 lib/R/library/MASS/R-ex/Insurance.R
 lib/R/library/MASS/R-ex/Null.R
@@ -247,6 +251,7 @@ 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
@@ -274,6 +279,7 @@ 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
@@ -288,6 +294,7 @@ lib/R/library/MASS/R-ex/petrol.R
 lib/R/library/MASS/R-ex/plot.mca.R
 lib/R/library/MASS/R-ex/polr.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/qda.R
 lib/R/library/MASS/R-ex/rational.R
@@ -451,6 +458,7 @@ 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
@@ -495,6 +503,7 @@ 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
@@ -520,6 +529,7 @@ lib/R/library/MASS/help/plot.lda
 lib/R/library/MASS/help/plot.mca
 lib/R/library/MASS/help/polr
 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/qda
@@ -608,6 +618,7 @@ lib/R/library/MASS/html/confint.html
 lib/R/library/MASS/html/contr.sdif.html
 lib/R/library/MASS/html/coop.html
 lib/R/library/MASS/html/corresp.html
+lib/R/library/MASS/html/cov.rob.html
 lib/R/library/MASS/html/cov.trob.html
 lib/R/library/MASS/html/cpus.html
 lib/R/library/MASS/html/crabs.html
@@ -652,6 +663,7 @@ lib/R/library/MASS/html/lm.ridge.html
 lib/R/library/MASS/html/loglm.html
 lib/R/library/MASS/html/loglm1.html
 lib/R/library/MASS/html/logtrans.html
+lib/R/library/MASS/html/lqs.html
 lib/R/library/MASS/html/mammals.html
 lib/R/library/MASS/html/mca.html
 lib/R/library/MASS/html/mcycle.html
@@ -677,6 +689,7 @@ lib/R/library/MASS/html/plot.lda.html
 lib/R/library/MASS/html/plot.mca.html
 lib/R/library/MASS/html/polr.html
 lib/R/library/MASS/html/predict.lda.html
+lib/R/library/MASS/html/predict.lqs.html
 lib/R/library/MASS/html/predict.mca.html
 lib/R/library/MASS/html/predict.qda.html
 lib/R/library/MASS/html/qda.html
@@ -764,6 +777,7 @@ lib/R/library/MASS/latex/confint.tex
 lib/R/library/MASS/latex/contr.sdif.tex
 lib/R/library/MASS/latex/coop.tex
 lib/R/library/MASS/latex/corresp.tex
+lib/R/library/MASS/latex/cov.rob.tex
 lib/R/library/MASS/latex/cov.trob.tex
 lib/R/library/MASS/latex/cpus.tex
 lib/R/library/MASS/latex/crabs.tex
@@ -808,6 +822,7 @@ lib/R/library/MASS/latex/lm.ridge.tex
 lib/R/library/MASS/latex/loglm.tex
 lib/R/library/MASS/latex/loglm1.tex
 lib/R/library/MASS/latex/logtrans.tex
+lib/R/library/MASS/latex/lqs.tex
 lib/R/library/MASS/latex/mammals.tex
 lib/R/library/MASS/latex/mca.tex
 lib/R/library/MASS/latex/mcycle.tex
@@ -833,6 +848,7 @@ lib/R/library/MASS/latex/plot.lda.tex
 lib/R/library/MASS/latex/plot.mca.tex
 lib/R/library/MASS/latex/polr.tex
 lib/R/library/MASS/latex/predict.lda.tex
+lib/R/library/MASS/latex/predict.lqs.tex
 lib/R/library/MASS/latex/predict.mca.tex
 lib/R/library/MASS/latex/predict.qda.tex
 lib/R/library/MASS/latex/qda.tex
@@ -913,288 +929,177 @@ lib/R/library/base/Meta/Rd.rds
 lib/R/library/base/Meta/data.rds
 lib/R/library/base/Meta/demo.rds
 lib/R/library/base/Meta/hsearch.rds
-lib/R/library/base/R-ex/AIC.R
 lib/R/library/base/R-ex/Arithmetic.R
 lib/R/library/base/R-ex/Bessel.R
-lib/R/library/base/R-ex/Beta.R
-lib/R/library/base/R-ex/Binomial.R
-lib/R/library/base/R-ex/Cauchy.R
-lib/R/library/base/R-ex/Chisquare.R
 lib/R/library/base/R-ex/Comparison.R
 lib/R/library/base/R-ex/Constants.R
 lib/R/library/base/R-ex/Control.R
 lib/R/library/base/R-ex/DateTimeClasses.R
-lib/R/library/base/R-ex/Devices.R
-lib/R/library/base/R-ex/Exponential.R
+lib/R/library/base/R-ex/Dates.R
 lib/R/library/base/R-ex/Extract.R
 lib/R/library/base/R-ex/Extract.data.frame.R
 lib/R/library/base/R-ex/Extract.factor.R
 lib/R/library/base/R-ex/Extremes.R
-lib/R/library/base/R-ex/FDist.R
 lib/R/library/base/R-ex/Formaldehyde.R
-lib/R/library/base/R-ex/GammaDist.R
-lib/R/library/base/R-ex/Geometric.R
 lib/R/library/base/R-ex/HairEyeColor.R
-lib/R/library/base/R-ex/Hershey.R
-lib/R/library/base/R-ex/Hypergeometric.R
-lib/R/library/base/R-ex/IQR.R
 lib/R/library/base/R-ex/InsectSprays.R
-lib/R/library/base/R-ex/Japanese.R
 lib/R/library/base/R-ex/Last.value.R
 lib/R/library/base/R-ex/LifeCycleSavings.R
 lib/R/library/base/R-ex/Log.R
 lib/R/library/base/R-ex/Logic.R
-lib/R/library/base/R-ex/Logistic.R
-lib/R/library/base/R-ex/Lognormal.R
 lib/R/library/base/R-ex/Math.R
 lib/R/library/base/R-ex/Memory.R
-lib/R/library/base/R-ex/Multinom.R
 lib/R/library/base/R-ex/NA.R
 lib/R/library/base/R-ex/NULL.R
-lib/R/library/base/R-ex/NegBinomial.R
-lib/R/library/base/R-ex/Normal.R
 lib/R/library/base/R-ex/OrchardSprays.R
 lib/R/library/base/R-ex/Paren.R
 lib/R/library/base/R-ex/PlantGrowth.R
 lib/R/library/base/R-ex/Platform.R
-lib/R/library/base/R-ex/Poisson.R
 lib/R/library/base/R-ex/Primitive.R
 lib/R/library/base/R-ex/Random-user.R
 lib/R/library/base/R-ex/Random.R
 lib/R/library/base/R-ex/Recall.R
 lib/R/library/base/R-ex/Round.R
-lib/R/library/base/R-ex/Rprof.R
-lib/R/library/base/R-ex/SignRank.R
 lib/R/library/base/R-ex/Special.R
 lib/R/library/base/R-ex/Startup.R
 lib/R/library/base/R-ex/Sys.info.R
 lib/R/library/base/R-ex/Sys.sleep.R
 lib/R/library/base/R-ex/Sys.time.R
-lib/R/library/base/R-ex/TDist.R
 lib/R/library/base/R-ex/Titanic.R
 lib/R/library/base/R-ex/ToothGrowth.R
-lib/R/library/base/R-ex/Tukey.R
-lib/R/library/base/R-ex/TukeyHSD.R
 lib/R/library/base/R-ex/UCBAdmissions.R
 lib/R/library/base/R-ex/USArrests.R
 lib/R/library/base/R-ex/USJudgeRatings.R
 lib/R/library/base/R-ex/USPersonalExpenditure.R
-lib/R/library/base/R-ex/Uniform.R
 lib/R/library/base/R-ex/VADeaths.R
 lib/R/library/base/R-ex/Version.R
-lib/R/library/base/R-ex/Weibull.R
-lib/R/library/base/R-ex/Wilcoxon.R
 lib/R/library/base/R-ex/abbreviate.R
-lib/R/library/base/R-ex/abline.R
-lib/R/library/base/R-ex/add1.R
-lib/R/library/base/R-ex/aggregate.R
 lib/R/library/base/R-ex/agrep.R
-lib/R/library/base/R-ex/airmiles.R
 lib/R/library/base/R-ex/airquality.R
-lib/R/library/base/R-ex/alias.R
 lib/R/library/base/R-ex/all.R
 lib/R/library/base/R-ex/all.equal.R
 lib/R/library/base/R-ex/allnames.R
-lib/R/library/base/R-ex/anova.glm.R
-lib/R/library/base/R-ex/anova.lm.R
 lib/R/library/base/R-ex/anscombe.R
 lib/R/library/base/R-ex/any.R
-lib/R/library/base/R-ex/aov.R
 lib/R/library/base/R-ex/aperm.R
 lib/R/library/base/R-ex/append.R
 lib/R/library/base/R-ex/apply.R
 lib/R/library/base/R-ex/approxfun.R
-lib/R/library/base/R-ex/apropos.R
 lib/R/library/base/R-ex/args.R
 lib/R/library/base/R-ex/array.R
-lib/R/library/base/R-ex/arrows.R
 lib/R/library/base/R-ex/as.POSIXlt.R
 lib/R/library/base/R-ex/as.environment.R
 lib/R/library/base/R-ex/as.function.R
 lib/R/library/base/R-ex/assign.R
-lib/R/library/base/R-ex/assocplot.R
 lib/R/library/base/R-ex/attach.R
 lib/R/library/base/R-ex/attenu.R
 lib/R/library/base/R-ex/attitude.R
 lib/R/library/base/R-ex/attr.R
 lib/R/library/base/R-ex/attributes.R
 lib/R/library/base/R-ex/autoload.R
-lib/R/library/base/R-ex/ave.R
-lib/R/library/base/R-ex/axTicks.R
-lib/R/library/base/R-ex/axis.POSIXct.R
-lib/R/library/base/R-ex/axis.R
 lib/R/library/base/R-ex/backsolve.R
-lib/R/library/base/R-ex/bandwidth.R
-lib/R/library/base/R-ex/barplot.R
 lib/R/library/base/R-ex/basename.R
 lib/R/library/base/R-ex/bindenv.R
-lib/R/library/base/R-ex/birthday.R
 lib/R/library/base/R-ex/body.R
-lib/R/library/base/R-ex/box.R
-lib/R/library/base/R-ex/boxplot.R
-lib/R/library/base/R-ex/boxplot.stats.R
 lib/R/library/base/R-ex/bquote.R
-lib/R/library/base/R-ex/browseEnv.R
-lib/R/library/base/R-ex/bxp.R
 lib/R/library/base/R-ex/by.R
 lib/R/library/base/R-ex/c.R
 lib/R/library/base/R-ex/call.R
 lib/R/library/base/R-ex/capabilities.R
-lib/R/library/base/R-ex/capture.output.R
 lib/R/library/base/R-ex/cars.R
-lib/R/library/base/R-ex/case.names.R
 lib/R/library/base/R-ex/cat.R
 lib/R/library/base/R-ex/cbind.R
 lib/R/library/base/R-ex/char.expand.R
 lib/R/library/base/R-ex/character.R
 lib/R/library/base/R-ex/charmatch.R
 lib/R/library/base/R-ex/chartr.R
-lib/R/library/base/R-ex/check.options.R
 lib/R/library/base/R-ex/chickwts.R
 lib/R/library/base/R-ex/chol.R
 lib/R/library/base/R-ex/chol2inv.R
 lib/R/library/base/R-ex/chull.R
 lib/R/library/base/R-ex/class.R
-lib/R/library/base/R-ex/co2.R
 lib/R/library/base/R-ex/codes.R
-lib/R/library/base/R-ex/coefficients.R
 lib/R/library/base/R-ex/col.R
-lib/R/library/base/R-ex/col2rgb.R
 lib/R/library/base/R-ex/colSums.R
 lib/R/library/base/R-ex/colnames.R
-lib/R/library/base/R-ex/colors.R
 lib/R/library/base/R-ex/commandArgs.R
 lib/R/library/base/R-ex/comment.R
-lib/R/library/base/R-ex/complete.cases.R
+lib/R/library/base/R-ex/compareVersion.R
 lib/R/library/base/R-ex/complex.R
 lib/R/library/base/R-ex/conditions.R
-lib/R/library/base/R-ex/confint.R
 lib/R/library/base/R-ex/conflicts.R
 lib/R/library/base/R-ex/connections.R
-lib/R/library/base/R-ex/constrOptim.R
-lib/R/library/base/R-ex/contour.R
-lib/R/library/base/R-ex/contrast.R
-lib/R/library/base/R-ex/contrasts.R
 lib/R/library/base/R-ex/converters.R
 lib/R/library/base/R-ex/convolve.R
-lib/R/library/base/R-ex/coplot.R
-lib/R/library/base/R-ex/cor.R
 lib/R/library/base/R-ex/count.fields.R
 lib/R/library/base/R-ex/crossprod.R
 lib/R/library/base/R-ex/cumsum.R
-lib/R/library/base/R-ex/curve.R
 lib/R/library/base/R-ex/cut.POSIXt.R
 lib/R/library/base/R-ex/cut.R
 lib/R/library/base/R-ex/data.R
 lib/R/library/base/R-ex/data.class.R
 lib/R/library/base/R-ex/data.frame.R
-lib/R/library/base/R-ex/dataentry.R
 lib/R/library/base/R-ex/date.R
 lib/R/library/base/R-ex/dcf.R
-lib/R/library/base/R-ex/debugger.R
 lib/R/library/base/R-ex/delay.R
-lib/R/library/base/R-ex/delete.response.R
-lib/R/library/base/R-ex/demo.R
-lib/R/library/base/R-ex/density.R
 lib/R/library/base/R-ex/deparse.R
-lib/R/library/base/R-ex/deriv.R
 lib/R/library/base/R-ex/det.R
 lib/R/library/base/R-ex/detach.R
-lib/R/library/base/R-ex/dev.R
-lib/R/library/base/R-ex/dev2.R
 lib/R/library/base/R-ex/diag.R
 lib/R/library/base/R-ex/diff.R
 lib/R/library/base/R-ex/difftime.R
 lib/R/library/base/R-ex/dim.R
 lib/R/library/base/R-ex/dimnames.R
-lib/R/library/base/R-ex/discoveries.R
 lib/R/library/base/R-ex/do.call.R
-lib/R/library/base/R-ex/dotchart.R
 lib/R/library/base/R-ex/double.R
 lib/R/library/base/R-ex/dput.R
 lib/R/library/base/R-ex/drop.R
-lib/R/library/base/R-ex/dummy.coef.R
 lib/R/library/base/R-ex/dump.R
 lib/R/library/base/R-ex/duplicated.R
 lib/R/library/base/R-ex/dynload.R
-lib/R/library/base/R-ex/edit.R
-lib/R/library/base/R-ex/edit.data.frame.R
-lib/R/library/base/R-ex/eff.aovlist.R
-lib/R/library/base/R-ex/effects.R
 lib/R/library/base/R-ex/eigen.R
 lib/R/library/base/R-ex/environment.R
 lib/R/library/base/R-ex/esoph.R
 lib/R/library/base/R-ex/euro.R
 lib/R/library/base/R-ex/eval.R
-lib/R/library/base/R-ex/example.R
 lib/R/library/base/R-ex/exists.R
 lib/R/library/base/R-ex/expand.grid.R
-lib/R/library/base/R-ex/expand.model.frame.R
 lib/R/library/base/R-ex/expression.R
-lib/R/library/base/R-ex/extractAIC.R
 lib/R/library/base/R-ex/factor.R
-lib/R/library/base/R-ex/factor.scope.R
 lib/R/library/base/R-ex/faithful.R
-lib/R/library/base/R-ex/family.R
 lib/R/library/base/R-ex/fft.R
 lib/R/library/base/R-ex/file.access.R
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 lib/R/library/base/R-ex/format.R
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 lib/R/library/base/R-ex/get.R
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 lib/R/library/base/R-ex/getNativeSymbolInfo.R
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 lib/R/library/base/R-ex/getenv.R
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 lib/R/library/base/R-ex/getwd.R
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 lib/R/library/base/R-ex/grep.R
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 lib/R/library/base/R-ex/gzcon.R
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 lib/R/library/base/R-ex/infert.R
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 lib/R/library/base/R-ex/integer.R
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 lib/R/library/base/R-ex/interaction.R
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 lib/R/library/base/R-ex/interactive.R
 lib/R/library/base/R-ex/invisible.R
 lib/R/library/base/R-ex/iris.R
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 lib/R/library/base/R-ex/is.finite.R
 lib/R/library/base/R-ex/is.language.R
 lib/R/library/base/R-ex/is.object.R
@@ -1205,38 +1110,20 @@ lib/R/library/base/R-ex/jitter.R
 lib/R/library/base/R-ex/kappa.R
 lib/R/library/base/R-ex/kronecker.R
 lib/R/library/base/R-ex/lapply.R
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 lib/R/library/base/R-ex/length.R
 lib/R/library/base/R-ex/levels.R
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 lib/R/library/base/R-ex/load.R
 lib/R/library/base/R-ex/localeconv.R
 lib/R/library/base/R-ex/locales.R
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 lib/R/library/base/R-ex/longley.R
 lib/R/library/base/R-ex/lower.tri.R
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 lib/R/library/base/R-ex/ls.R
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 lib/R/library/base/R-ex/make.names.R
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 lib/R/library/base/R-ex/make.unique.R
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 lib/R/library/base/R-ex/manglePackageName.R
 lib/R/library/base/R-ex/mapply.R
 lib/R/library/base/R-ex/margin.table.R
@@ -1246,153 +1133,77 @@ lib/R/library/base/R-ex/match.arg.R
 lib/R/library/base/R-ex/match.call.R
 lib/R/library/base/R-ex/match.fun.R
 lib/R/library/base/R-ex/matmult.R
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 lib/R/library/base/R-ex/matrix.R
 lib/R/library/base/R-ex/maxCol.R
 lib/R/library/base/R-ex/mean.R
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 lib/R/library/base/R-ex/memory.profile.R
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 lib/R/library/base/R-ex/merge.R
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 lib/R/library/base/R-ex/missing.R
 lib/R/library/base/R-ex/mode.R
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-lib/R/library/base/R-ex/model.tables.R
 lib/R/library/base/R-ex/morley.R
-lib/R/library/base/R-ex/mosaicplot.R
 lib/R/library/base/R-ex/mtcars.R
-lib/R/library/base/R-ex/mtext.R
-lib/R/library/base/R-ex/n2mfrow.R
-lib/R/library/base/R-ex/na.action.R
-lib/R/library/base/R-ex/na.fail.R
 lib/R/library/base/R-ex/name.R
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 lib/R/library/base/R-ex/on.exit.R
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 lib/R/library/base/R-ex/options.R
 lib/R/library/base/R-ex/order.R
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-lib/R/library/base/R-ex/panel.smooth.R
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 lib/R/library/base/R-ex/search.R
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 lib/R/library/base/R-ex/seq.POSIXt.R
 lib/R/library/base/R-ex/seq.R
 lib/R/library/base/R-ex/sequence.R
@@ -1406,41 +1217,24 @@ lib/R/library/base/R-ex/slice.index.R
 lib/R/library/base/R-ex/socketSelect.R
 lib/R/library/base/R-ex/solve.R
 lib/R/library/base/R-ex/sort.R
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 lib/R/library/base/R-ex/split.R
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 lib/R/library/base/R-ex/stack.R
 lib/R/library/base/R-ex/stackloss.R
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 lib/R/library/base/R-ex/stop.R
 lib/R/library/base/R-ex/stopifnot.R
-lib/R/library/base/R-ex/str.R
-lib/R/library/base/R-ex/stripchart.R
 lib/R/library/base/R-ex/strptime.R
 lib/R/library/base/R-ex/strsplit.R
 lib/R/library/base/R-ex/structure.R
-lib/R/library/base/R-ex/strwidth.R
 lib/R/library/base/R-ex/strwrap.R
 lib/R/library/base/R-ex/subset.R
 lib/R/library/base/R-ex/substitute.R
 lib/R/library/base/R-ex/substr.R
 lib/R/library/base/R-ex/summary.R
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-lib/R/library/base/R-ex/summaryRprof.R
-lib/R/library/base/R-ex/sunflowerplot.R
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 lib/R/library/base/R-ex/svd.R
 lib/R/library/base/R-ex/sweep.R
 lib/R/library/base/R-ex/swiss.R
 lib/R/library/base/R-ex/switch.R
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 lib/R/library/base/R-ex/sys.parent.R
 lib/R/library/base/R-ex/system.R
 lib/R/library/base/R-ex/system.file.R
@@ -1453,49 +1247,31 @@ lib/R/library/base/R-ex/taskCallback.R
 lib/R/library/base/R-ex/taskCallbackManager.R
 lib/R/library/base/R-ex/taskCallbackNames.R
 lib/R/library/base/R-ex/tempfile.R
-lib/R/library/base/R-ex/termplot.R
-lib/R/library/base/R-ex/text.R
 lib/R/library/base/R-ex/textconnections.R
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-lib/R/library/base/R-ex/title.R
 lib/R/library/base/R-ex/toString.R
 lib/R/library/base/R-ex/trace.R
 lib/R/library/base/R-ex/traceback.R
 lib/R/library/base/R-ex/transform.R
 lib/R/library/base/R-ex/trees.R
 lib/R/library/base/R-ex/try.R
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 lib/R/library/base/R-ex/unique.R
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 lib/R/library/base/R-ex/units.R
 lib/R/library/base/R-ex/unlist.R
 lib/R/library/base/R-ex/unname.R
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-lib/R/library/base/R-ex/update.packages.R
-lib/R/library/base/R-ex/url.show.R
-lib/R/library/base/R-ex/uspop.R
+lib/R/library/base/R-ex/userhooks.R
 lib/R/library/base/R-ex/vector.R
-lib/R/library/base/R-ex/vignette.R
 lib/R/library/base/R-ex/volcano.R
 lib/R/library/base/R-ex/warning.R
 lib/R/library/base/R-ex/warnings.R
 lib/R/library/base/R-ex/warpbreaks.R
 lib/R/library/base/R-ex/weekday.POSIXt.R
-lib/R/library/base/R-ex/weighted.mean.R
-lib/R/library/base/R-ex/weighted.residuals.R
 lib/R/library/base/R-ex/which.R
 lib/R/library/base/R-ex/which.min.R
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 lib/R/library/base/R-ex/with.R
 lib/R/library/base/R-ex/women.R
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 lib/R/library/base/R-ex/write.table.R
-lib/R/library/base/R-ex/xtabs.R
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-lib/R/library/base/R-ex/xyz.coords.R
-lib/R/library/base/R-ex/zC.R
 lib/R/library/base/R-ex/zMachine.R
 lib/R/library/base/R-ex/zScript.R
 lib/R/library/base/R/Rprofile
@@ -1513,20 +1289,16 @@ lib/R/library/base/data/USArrests.tab
 lib/R/library/base/data/USJudgeRatings.R
 lib/R/library/base/data/USPersonalExpenditure.R
 lib/R/library/base/data/VADeaths.R
-lib/R/library/base/data/airmiles.R
 lib/R/library/base/data/airquality.tab
 lib/R/library/base/data/anscombe.R
 lib/R/library/base/data/attenu.R
 lib/R/library/base/data/attitude.R
 lib/R/library/base/data/cars.R
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-lib/R/library/base/data/co2.R
-lib/R/library/base/data/discoveries.R
 lib/R/library/base/data/esoph.R
 lib/R/library/base/data/euro.R
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-lib/R/library/base/data/freeny.R
 lib/R/library/base/data/infert.R
 lib/R/library/base/data/iris.R
 lib/R/library/base/data/iris3.R
@@ -1534,10 +1306,8 @@ lib/R/library/base/data/islands.R
 lib/R/library/base/data/longley.R
 lib/R/library/base/data/morley.tab
 lib/R/library/base/data/mtcars.R
-lib/R/library/base/data/nhtemp.R
 lib/R/library/base/data/phones.R
 lib/R/library/base/data/precip.R
-lib/R/library/base/data/presidents.R
 lib/R/library/base/data/pressure.R
 lib/R/library/base/data/quakes.tab
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@@ -1545,95 +1315,55 @@ lib/R/library/base/data/rivers.R
 lib/R/library/base/data/sleep.R
 lib/R/library/base/data/stackloss.R
 lib/R/library/base/data/state.R
-lib/R/library/base/data/sunspots.R
 lib/R/library/base/data/swiss.tab
 lib/R/library/base/data/trees.R
-lib/R/library/base/data/uspop.R
 lib/R/library/base/data/volcano.R
 lib/R/library/base/data/warpbreaks.R
 lib/R/library/base/data/women.R
 lib/R/library/base/demo/00Index
-lib/R/library/base/demo/Hershey.R
-lib/R/library/base/demo/Japanese.R
-lib/R/library/base/demo/glm.vr.R
-lib/R/library/base/demo/graphics.R
-lib/R/library/base/demo/image.R
 lib/R/library/base/demo/is.things.R
-lib/R/library/base/demo/lm.glm.R
-lib/R/library/base/demo/nlm.R
-lib/R/library/base/demo/persp.R
-lib/R/library/base/demo/plotmath.R
 lib/R/library/base/demo/recursion.R
 lib/R/library/base/demo/scoping.R
-lib/R/library/base/help/AIC
 lib/R/library/base/help/AnIndex
 lib/R/library/base/help/Arithmetic
 lib/R/library/base/help/AsIs
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-lib/R/library/base/help/Cauchy
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 lib/R/library/base/help/Comparison
 lib/R/library/base/help/Constants
 lib/R/library/base/help/Control
 lib/R/library/base/help/DateTimeClasses
+lib/R/library/base/help/Dates
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 lib/R/library/base/help/Deprecated
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-lib/R/library/base/help/Exponential
 lib/R/library/base/help/Extract
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 lib/R/library/base/help/Extract.factor
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-lib/R/library/base/help/FDist
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 lib/R/library/base/help/HairEyeColor
-lib/R/library/base/help/Hershey
 lib/R/library/base/help/Hyperbolic
-lib/R/library/base/help/Hypergeometric
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 lib/R/library/base/help/InsectSprays
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 lib/R/library/base/help/Logic
-lib/R/library/base/help/Logistic
-lib/R/library/base/help/Lognormal
 lib/R/library/base/help/Math
 lib/R/library/base/help/Memory
-lib/R/library/base/help/Multinom
 lib/R/library/base/help/NA
 lib/R/library/base/help/NULL
-lib/R/library/base/help/NegBinomial
-lib/R/library/base/help/Normal
 lib/R/library/base/help/OrchardSprays
 lib/R/library/base/help/Paren
-lib/R/library/base/help/PkgUtils
 lib/R/library/base/help/PlantGrowth
 lib/R/library/base/help/Platform
-lib/R/library/base/help/Poisson
 lib/R/library/base/help/Primitive
-lib/R/library/base/help/REMOVE
-lib/R/library/base/help/RHOME
 lib/R/library/base/help/Random
 lib/R/library/base/help/Random-user
 lib/R/library/base/help/RdUtils
 lib/R/library/base/help/Recall
 lib/R/library/base/help/Rhome
 lib/R/library/base/help/Round
-lib/R/library/base/help/Rprof
-lib/R/library/base/help/SHLIB
-lib/R/library/base/help/SignRank
 lib/R/library/base/help/Signals
 lib/R/library/base/help/Special
 lib/R/library/base/help/Startup
@@ -1641,194 +1371,122 @@ lib/R/library/base/help/Syntax
 lib/R/library/base/help/Sys.info
 lib/R/library/base/help/Sys.sleep
 lib/R/library/base/help/Sys.time
-lib/R/library/base/help/TDist
 lib/R/library/base/help/Titanic
 lib/R/library/base/help/ToothGrowth
 lib/R/library/base/help/Trig
-lib/R/library/base/help/Tukey
-lib/R/library/base/help/TukeyHSD
 lib/R/library/base/help/UCBAdmissions
 lib/R/library/base/help/USArrests
 lib/R/library/base/help/USJudgeRatings
 lib/R/library/base/help/USPersonalExpenditure
-lib/R/library/base/help/Uniform
 lib/R/library/base/help/UseMethod
 lib/R/library/base/help/VADeaths
 lib/R/library/base/help/Version
-lib/R/library/base/help/Weibull
-lib/R/library/base/help/Wilcoxon
 lib/R/library/base/help/abbreviate
-lib/R/library/base/help/abline
-lib/R/library/base/help/add1
-lib/R/library/base/help/aggregate
 lib/R/library/base/help/agrep
-lib/R/library/base/help/airmiles
 lib/R/library/base/help/airquality
-lib/R/library/base/help/alias
 lib/R/library/base/help/all
 lib/R/library/base/help/all.equal
 lib/R/library/base/help/allnames
-lib/R/library/base/help/anova
-lib/R/library/base/help/anova.glm
-lib/R/library/base/help/anova.lm
 lib/R/library/base/help/anscombe
 lib/R/library/base/help/any
-lib/R/library/base/help/aov
 lib/R/library/base/help/aperm
 lib/R/library/base/help/append
 lib/R/library/base/help/apply
 lib/R/library/base/help/approxfun
-lib/R/library/base/help/apropos
 lib/R/library/base/help/args
 lib/R/library/base/help/array
-lib/R/library/base/help/arrows
 lib/R/library/base/help/as.POSIXlt
 lib/R/library/base/help/as.data.frame
 lib/R/library/base/help/as.environment
 lib/R/library/base/help/as.function
 lib/R/library/base/help/assign
 lib/R/library/base/help/assignOps
-lib/R/library/base/help/assocplot
 lib/R/library/base/help/attach
 lib/R/library/base/help/attenu
 lib/R/library/base/help/attitude
 lib/R/library/base/help/attr
 lib/R/library/base/help/attributes
 lib/R/library/base/help/autoload
-lib/R/library/base/help/ave
-lib/R/library/base/help/axTicks
-lib/R/library/base/help/axis
-lib/R/library/base/help/axis.POSIXct
 lib/R/library/base/help/backsolve
-lib/R/library/base/help/bandwidth
-lib/R/library/base/help/barplot
 lib/R/library/base/help/basename
 lib/R/library/base/help/bindenv
-lib/R/library/base/help/birthday
 lib/R/library/base/help/body
-lib/R/library/base/help/box
-lib/R/library/base/help/boxplot
-lib/R/library/base/help/boxplot.stats
 lib/R/library/base/help/bquote
-lib/R/library/base/help/browseEnv
-lib/R/library/base/help/browseURL
 lib/R/library/base/help/browser
-lib/R/library/base/help/bug.report
 lib/R/library/base/help/builtins
-lib/R/library/base/help/bxp
 lib/R/library/base/help/by
 lib/R/library/base/help/c
 lib/R/library/base/help/call
 lib/R/library/base/help/capabilities
-lib/R/library/base/help/capture.output
 lib/R/library/base/help/cars
-lib/R/library/base/help/case.names
 lib/R/library/base/help/cat
 lib/R/library/base/help/cbind
 lib/R/library/base/help/char.expand
 lib/R/library/base/help/character
 lib/R/library/base/help/charmatch
 lib/R/library/base/help/chartr
-lib/R/library/base/help/check.options
 lib/R/library/base/help/chickwts
 lib/R/library/base/help/chol
 lib/R/library/base/help/chol2inv
 lib/R/library/base/help/chull
 lib/R/library/base/help/citation
 lib/R/library/base/help/class
-lib/R/library/base/help/close.socket
-lib/R/library/base/help/co2
 lib/R/library/base/help/codes
-lib/R/library/base/help/coefficients
 lib/R/library/base/help/col
-lib/R/library/base/help/col2rgb
 lib/R/library/base/help/colSums
 lib/R/library/base/help/colnames
-lib/R/library/base/help/colors
 lib/R/library/base/help/commandArgs
 lib/R/library/base/help/comment
-lib/R/library/base/help/complete.cases
+lib/R/library/base/help/compareVersion
 lib/R/library/base/help/complex
 lib/R/library/base/help/conditions
-lib/R/library/base/help/confint
 lib/R/library/base/help/conflicts
 lib/R/library/base/help/connections
-lib/R/library/base/help/constrOptim
-lib/R/library/base/help/contour
-lib/R/library/base/help/contrast
-lib/R/library/base/help/contrasts
 lib/R/library/base/help/contributors
 lib/R/library/base/help/converters
 lib/R/library/base/help/convolve
-lib/R/library/base/help/coplot
 lib/R/library/base/help/copyright
-lib/R/library/base/help/cor
 lib/R/library/base/help/count.fields
-lib/R/library/base/help/cov.wt
 lib/R/library/base/help/crossprod
 lib/R/library/base/help/cumsum
-lib/R/library/base/help/curve
 lib/R/library/base/help/cut
 lib/R/library/base/help/cut.POSIXt
 lib/R/library/base/help/data
 lib/R/library/base/help/data.class
 lib/R/library/base/help/data.frame
 lib/R/library/base/help/data.matrix
-lib/R/library/base/help/dataentry
 lib/R/library/base/help/dataframeHelpers
 lib/R/library/base/help/date
 lib/R/library/base/help/dcf
 lib/R/library/base/help/debug
-lib/R/library/base/help/debugger
 lib/R/library/base/help/delay
-lib/R/library/base/help/delete.response
-lib/R/library/base/help/demo
-lib/R/library/base/help/density
 lib/R/library/base/help/deparse
-lib/R/library/base/help/deriv
 lib/R/library/base/help/det
 lib/R/library/base/help/detach
 lib/R/library/base/help/dev
-lib/R/library/base/help/dev2
-lib/R/library/base/help/dev2bitmap
-lib/R/library/base/help/deviance
-lib/R/library/base/help/df.residual
 lib/R/library/base/help/diag
 lib/R/library/base/help/diff
 lib/R/library/base/help/difftime
 lib/R/library/base/help/dim
 lib/R/library/base/help/dimnames
-lib/R/library/base/help/discoveries
 lib/R/library/base/help/do.call
-lib/R/library/base/help/dotchart
 lib/R/library/base/help/double
-lib/R/library/base/help/download.file
 lib/R/library/base/help/dput
 lib/R/library/base/help/drop
-lib/R/library/base/help/dummy.coef
 lib/R/library/base/help/dump
 lib/R/library/base/help/duplicated
 lib/R/library/base/help/dynload
-lib/R/library/base/help/edit
-lib/R/library/base/help/edit.data.frame
-lib/R/library/base/help/eff.aovlist
-lib/R/library/base/help/effects
 lib/R/library/base/help/eigen
 lib/R/library/base/help/environment
 lib/R/library/base/help/esoph
 lib/R/library/base/help/euro
 lib/R/library/base/help/eurodist
 lib/R/library/base/help/eval
-lib/R/library/base/help/example
 lib/R/library/base/help/exists
 lib/R/library/base/help/expand.grid
-lib/R/library/base/help/expand.model.frame
 lib/R/library/base/help/expression
-lib/R/library/base/help/extractAIC
 lib/R/library/base/help/factor
-lib/R/library/base/help/factor.scope
 lib/R/library/base/help/faithful
-lib/R/library/base/help/family
 lib/R/library/base/help/fft
 lib/R/library/base/help/file.access
 lib/R/library/base/help/file.choose
@@ -1836,66 +1494,36 @@ lib/R/library/base/help/file.info
 lib/R/library/base/help/file.path
 lib/R/library/base/help/file.show
 lib/R/library/base/help/files
-lib/R/library/base/help/filled.contour
 lib/R/library/base/help/findInt
-lib/R/library/base/help/fitted.values
-lib/R/library/base/help/fivenum
-lib/R/library/base/help/fix
 lib/R/library/base/help/force
 lib/R/library/base/help/formals
 lib/R/library/base/help/format
+lib/R/library/base/help/format.Date
 lib/R/library/base/help/format.info
 lib/R/library/base/help/formatDL
 lib/R/library/base/help/formatc
-lib/R/library/base/help/formula
-lib/R/library/base/help/fourfoldplot
-lib/R/library/base/help/frame
-lib/R/library/base/help/freeny
-lib/R/library/base/help/ftable
-lib/R/library/base/help/ftable.formula
 lib/R/library/base/help/function
 lib/R/library/base/help/gc
 lib/R/library/base/help/gc.time
 lib/R/library/base/help/gctorture
 lib/R/library/base/help/get
-lib/R/library/base/help/getAnywhere
-lib/R/library/base/help/getFromNamespace
 lib/R/library/base/help/getNativeSymbolInfo
-lib/R/library/base/help/getS3method
 lib/R/library/base/help/getenv
 lib/R/library/base/help/getpid
 lib/R/library/base/help/getwd
 lib/R/library/base/help/gl
-lib/R/library/base/help/glm
-lib/R/library/base/help/glm.control
-lib/R/library/base/help/glm.summaries
-lib/R/library/base/help/gnome
-lib/R/library/base/help/gray
 lib/R/library/base/help/grep
-lib/R/library/base/help/grid
 lib/R/library/base/help/groupGeneric
 lib/R/library/base/help/gzcon
-lib/R/library/base/help/help
-lib/R/library/base/help/help.search
-lib/R/library/base/help/help.start
-lib/R/library/base/help/hist
-lib/R/library/base/help/hist.POSIXt
-lib/R/library/base/help/hsv
 lib/R/library/base/help/identical
-lib/R/library/base/help/identify
 lib/R/library/base/help/ifelse
-lib/R/library/base/help/image
 lib/R/library/base/help/index.search
 lib/R/library/base/help/infert
-lib/R/library/base/help/influence.measures
 lib/R/library/base/help/integer
-lib/R/library/base/help/integrate
 lib/R/library/base/help/interaction
-lib/R/library/base/help/interaction.plot
 lib/R/library/base/help/interactive
 lib/R/library/base/help/invisible
 lib/R/library/base/help/iris
-lib/R/library/base/help/is.empty
 lib/R/library/base/help/is.finite
 lib/R/library/base/help/is.function
 lib/R/library/base/help/is.language
@@ -1909,47 +1537,23 @@ lib/R/library/base/help/kappa
 lib/R/library/base/help/kronecker
 lib/R/library/base/help/labels
 lib/R/library/base/help/lapply
-lib/R/library/base/help/layout
-lib/R/library/base/help/legend
 lib/R/library/base/help/length
 lib/R/library/base/help/levels
 lib/R/library/base/help/library
 lib/R/library/base/help/library.dynam
 lib/R/library/base/help/license
-lib/R/library/base/help/lines
 lib/R/library/base/help/list
 lib/R/library/base/help/list.files
-lib/R/library/base/help/lm
-lib/R/library/base/help/lm.influence
-lib/R/library/base/help/lm.summaries
-lib/R/library/base/help/lmfit
 lib/R/library/base/help/load
 lib/R/library/base/help/localeconv
 lib/R/library/base/help/locales
-lib/R/library/base/help/locator
-lib/R/library/base/help/logLik
-lib/R/library/base/help/logLik.glm
-lib/R/library/base/help/logLik.lm
 lib/R/library/base/help/logical
-lib/R/library/base/help/loglin
 lib/R/library/base/help/longley
 lib/R/library/base/help/lower.tri
-lib/R/library/base/help/lowess
 lib/R/library/base/help/ls
-lib/R/library/base/help/ls.diag
-lib/R/library/base/help/ls.print
-lib/R/library/base/help/lsfit
-lib/R/library/base/help/mad
-lib/R/library/base/help/mahalanobis
-lib/R/library/base/help/make.link
 lib/R/library/base/help/make.names
-lib/R/library/base/help/make.packages.html
-lib/R/library/base/help/make.socket
-lib/R/library/base/help/make.tables
 lib/R/library/base/help/make.unique
-lib/R/library/base/help/makepredictcall
 lib/R/library/base/help/manglePackageName
-lib/R/library/base/help/manova
 lib/R/library/base/help/mapply
 lib/R/library/base/help/margin.table
 lib/R/library/base/help/mat.or.vec
@@ -1958,159 +1562,77 @@ lib/R/library/base/help/match.arg
 lib/R/library/base/help/match.call
 lib/R/library/base/help/match.fun
 lib/R/library/base/help/matmult
-lib/R/library/base/help/matplot
 lib/R/library/base/help/matrix
 lib/R/library/base/help/maxCol
 lib/R/library/base/help/mean
-lib/R/library/base/help/median
 lib/R/library/base/help/memory.profile
-lib/R/library/base/help/menu
 lib/R/library/base/help/merge
-lib/R/library/base/help/methods
 lib/R/library/base/help/missing
 lib/R/library/base/help/mode
-lib/R/library/base/help/model.extract
-lib/R/library/base/help/model.frame
-lib/R/library/base/help/model.matrix
-lib/R/library/base/help/model.tables
 lib/R/library/base/help/morley
-lib/R/library/base/help/mosaicplot
 lib/R/library/base/help/mtcars
-lib/R/library/base/help/mtext
-lib/R/library/base/help/n2mfrow
-lib/R/library/base/help/na.action
-lib/R/library/base/help/na.fail
-lib/R/library/base/help/nafns
 lib/R/library/base/help/name
 lib/R/library/base/help/names
-lib/R/library/base/help/naprint
 lib/R/library/base/help/nargs
 lib/R/library/base/help/nchar
-lib/R/library/base/help/nclass
 lib/R/library/base/help/nextn
-lib/R/library/base/help/nhtemp
 lib/R/library/base/help/nlevels
-lib/R/library/base/help/nlm
 lib/R/library/base/help/noquote
 lib/R/library/base/help/notyet
 lib/R/library/base/help/nrow
 lib/R/library/base/help/ns-alt
 lib/R/library/base/help/ns-dblcolon
+lib/R/library/base/help/ns-hooks
 lib/R/library/base/help/ns-internal
 lib/R/library/base/help/ns-lowlev
 lib/R/library/base/help/ns-reflect
 lib/R/library/base/help/ns-topenv
-lib/R/library/base/help/nsl
 lib/R/library/base/help/numeric
-lib/R/library/base/help/object.size
 lib/R/library/base/help/octmode
-lib/R/library/base/help/offset
 lib/R/library/base/help/on.exit
-lib/R/library/base/help/optim
-lib/R/library/base/help/optimize
 lib/R/library/base/help/options
 lib/R/library/base/help/order
 lib/R/library/base/help/outer
-lib/R/library/base/help/p.adjust
-lib/R/library/base/help/package.contents
 lib/R/library/base/help/package.dependencies
-lib/R/library/base/help/package.skeleton
-lib/R/library/base/help/packageStatus
-lib/R/library/base/help/page
-lib/R/library/base/help/pairs
-lib/R/library/base/help/palette
-lib/R/library/base/help/palettes
-lib/R/library/base/help/panel.smooth
-lib/R/library/base/help/par
+lib/R/library/base/help/packageDescription
 lib/R/library/base/help/parse
 lib/R/library/base/help/paste
 lib/R/library/base/help/path.expand
-lib/R/library/base/help/pdf
-lib/R/library/base/help/persp
 lib/R/library/base/help/phones
-lib/R/library/base/help/pictex
-lib/R/library/base/help/pie
-lib/R/library/base/help/plot
-lib/R/library/base/help/plot.dataframe
-lib/R/library/base/help/plot.density
-lib/R/library/base/help/plot.design
-lib/R/library/base/help/plot.lm
-lib/R/library/base/help/plot.table
-lib/R/library/base/help/plot.ts
-lib/R/library/base/help/plot.window
-lib/R/library/base/help/plot.xy
-lib/R/library/base/help/plotdefault
-lib/R/library/base/help/plotfactor
-lib/R/library/base/help/plotformula
-lib/R/library/base/help/plothistogram
-lib/R/library/base/help/plotmath
 lib/R/library/base/help/pmatch
-lib/R/library/base/help/png
-lib/R/library/base/help/points
-lib/R/library/base/help/poly
-lib/R/library/base/help/polygon
 lib/R/library/base/help/polyroot
 lib/R/library/base/help/pos.to.env
-lib/R/library/base/help/postscript
-lib/R/library/base/help/power
-lib/R/library/base/help/ppoints
 lib/R/library/base/help/precip
-lib/R/library/base/help/predict
-lib/R/library/base/help/predict.glm
-lib/R/library/base/help/predict.lm
-lib/R/library/base/help/preplot
-lib/R/library/base/help/presidents
 lib/R/library/base/help/pressure
 lib/R/library/base/help/pretty
 lib/R/library/base/help/print
-lib/R/library/base/help/print.coefmat
 lib/R/library/base/help/print.dataframe
 lib/R/library/base/help/print.default
 lib/R/library/base/help/print.matrix
-lib/R/library/base/help/print.ts
 lib/R/library/base/help/proc.time
 lib/R/library/base/help/prod
-lib/R/library/base/help/profile
-lib/R/library/base/help/proj
-lib/R/library/base/help/prompt
-lib/R/library/base/help/promptData
 lib/R/library/base/help/prop.table
 lib/R/library/base/help/pushBack
 lib/R/library/base/help/putenv
-lib/R/library/base/help/qqnorm
 lib/R/library/base/help/qr
 lib/R/library/base/help/qraux
 lib/R/library/base/help/quakes
-lib/R/library/base/help/quantile
-lib/R/library/base/help/quartz
 lib/R/library/base/help/quit
 lib/R/library/base/help/r2dtable
 lib/R/library/base/help/randu
 lib/R/library/base/help/range
 lib/R/library/base/help/rank
 lib/R/library/base/help/read.00Index
-lib/R/library/base/help/read.ftable
-lib/R/library/base/help/read.fwf
-lib/R/library/base/help/read.socket
 lib/R/library/base/help/read.table
 lib/R/library/base/help/readBin
 lib/R/library/base/help/readLines
 lib/R/library/base/help/readline
 lib/R/library/base/help/real
-lib/R/library/base/help/recordplot
-lib/R/library/base/help/recover
-lib/R/library/base/help/rect
 lib/R/library/base/help/reg.finalizer
 lib/R/library/base/help/regex
-lib/R/library/base/help/relevel
-lib/R/library/base/help/remove.packages
 lib/R/library/base/help/rep
 lib/R/library/base/help/replace
-lib/R/library/base/help/replications
-lib/R/library/base/help/reshape
-lib/R/library/base/help/residuals
 lib/R/library/base/help/rev
-lib/R/library/base/help/rgb
 lib/R/library/base/help/rivers
 lib/R/library/base/help/rle
 lib/R/library/base/help/rm
@@ -2118,21 +1640,15 @@ lib/R/library/base/help/round.POSIXt
 lib/R/library/base/help/row
 lib/R/library/base/help/row.names
 lib/R/library/base/help/rowsum
-lib/R/library/base/help/rug
 lib/R/library/base/help/sQuote
 lib/R/library/base/help/sample
 lib/R/library/base/help/save
-lib/R/library/base/help/savehistory
 lib/R/library/base/help/scale
 lib/R/library/base/help/scan
-lib/R/library/base/help/screen
-lib/R/library/base/help/sd
-lib/R/library/base/help/se.aov
-lib/R/library/base/help/se.contrast
 lib/R/library/base/help/search
 lib/R/library/base/help/seek
-lib/R/library/base/help/segments
 lib/R/library/base/help/seq
+lib/R/library/base/help/seq.Date
 lib/R/library/base/help/seq.POSIXt
 lib/R/library/base/help/sequence
 lib/R/library/base/help/serialize
@@ -2147,45 +1663,27 @@ lib/R/library/base/help/socketSelect
 lib/R/library/base/help/solve
 lib/R/library/base/help/sort
 lib/R/library/base/help/source
-lib/R/library/base/help/splinefun
 lib/R/library/base/help/split
 lib/R/library/base/help/sprintf
 lib/R/library/base/help/stack
 lib/R/library/base/help/stackloss
 lib/R/library/base/help/standardGeneric
-lib/R/library/base/help/stars
-lib/R/library/base/help/start
-lib/R/library/base/help/stat.anova
 lib/R/library/base/help/state
-lib/R/library/base/help/stem
-lib/R/library/base/help/step
 lib/R/library/base/help/stop
 lib/R/library/base/help/stopifnot
-lib/R/library/base/help/str
-lib/R/library/base/help/stripchart
 lib/R/library/base/help/strptime
 lib/R/library/base/help/strsplit
 lib/R/library/base/help/structure
-lib/R/library/base/help/strwidth
 lib/R/library/base/help/strwrap
 lib/R/library/base/help/subset
 lib/R/library/base/help/substitute
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 lib/R/library/base/help/sys.parent
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 lib/R/library/base/help/system
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 lib/R/library/base/help/tempfile
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 @dirrm lib/R/library/nnet/Meta
 @dirrm lib/R/library/nnet
-@dirrm lib/R/library/nls/man
-@dirrm lib/R/library/nls/libs
-@dirrm lib/R/library/nls/latex
-@dirrm lib/R/library/nls/html
-@dirrm lib/R/library/nls/help
-@dirrm lib/R/library/nls/data
-@dirrm lib/R/library/nls/R-ex
 @dirrm lib/R/library/nls/R
-@dirrm lib/R/library/nls/Meta
 @dirrm lib/R/library/nls
 @dirrm lib/R/library/nlme/scripts
 @dirrm lib/R/library/nlme/mlbook
@@ -7877,33 +8038,11 @@ lib/R/share/texmf/upquote.sty
 @dirrm lib/R/library/nlme/R
 @dirrm lib/R/library/nlme/Meta
 @dirrm lib/R/library/nlme
-@dirrm lib/R/library/mva/man
-@dirrm lib/R/library/mva/libs
-@dirrm lib/R/library/mva/latex
-@dirrm lib/R/library/mva/html
-@dirrm lib/R/library/mva/help
-@dirrm lib/R/library/mva/data
-@dirrm lib/R/library/mva/R-ex
 @dirrm lib/R/library/mva/R
-@dirrm lib/R/library/mva/Meta
 @dirrm lib/R/library/mva
-@dirrm lib/R/library/modreg/man
-@dirrm lib/R/library/modreg/libs
-@dirrm lib/R/library/modreg/latex
-@dirrm lib/R/library/modreg/html
-@dirrm lib/R/library/modreg/help
-@dirrm lib/R/library/modreg/data
-@dirrm lib/R/library/modreg/R-ex
 @dirrm lib/R/library/modreg/R
-@dirrm lib/R/library/modreg/Meta
 @dirrm lib/R/library/modreg
-@dirrm lib/R/library/mle/man
-@dirrm lib/R/library/mle/latex
-@dirrm lib/R/library/mle/html
-@dirrm lib/R/library/mle/help
-@dirrm lib/R/library/mle/R-ex
 @dirrm lib/R/library/mle/R
-@dirrm lib/R/library/mle/Meta
 @dirrm lib/R/library/mle
 @dirrm lib/R/library/mgcv/man
 @dirrm lib/R/library/mgcv/libs
@@ -7923,14 +8062,7 @@ lib/R/share/texmf/upquote.sty
 @dirrm lib/R/library/methods/R
 @dirrm lib/R/library/methods/Meta
 @dirrm lib/R/library/methods
-@dirrm lib/R/library/lqs/man
-@dirrm lib/R/library/lqs/libs
-@dirrm lib/R/library/lqs/latex
-@dirrm lib/R/library/lqs/html
-@dirrm lib/R/library/lqs/help
-@dirrm lib/R/library/lqs/R-ex
 @dirrm lib/R/library/lqs/R
-@dirrm lib/R/library/lqs/Meta
 @dirrm lib/R/library/lqs
 @dirrm lib/R/library/lattice/man
 @dirrm lib/R/library/lattice/libs
@@ -7953,6 +8085,15 @@ lib/R/share/texmf/upquote.sty
 @dirrm lib/R/library/grid/R
 @dirrm lib/R/library/grid/Meta
 @dirrm lib/R/library/grid
+@dirrm lib/R/library/graphics/man
+@dirrm lib/R/library/graphics/latex
+@dirrm lib/R/library/graphics/html
+@dirrm lib/R/library/graphics/help
+@dirrm lib/R/library/graphics/demo
+@dirrm lib/R/library/graphics/R-ex
+@dirrm lib/R/library/graphics/R
+@dirrm lib/R/library/graphics/Meta
+@dirrm lib/R/library/graphics
 @dirrm lib/R/library/foreign/man
 @dirrm lib/R/library/foreign/libs
 @dirrm lib/R/library/foreign/latex
@@ -7962,24 +8103,9 @@ lib/R/share/texmf/upquote.sty
 @dirrm lib/R/library/foreign/R
 @dirrm lib/R/library/foreign/Meta
 @dirrm lib/R/library/foreign
-@dirrm lib/R/library/eda/man
-@dirrm lib/R/library/eda/libs
-@dirrm lib/R/library/eda/latex
-@dirrm lib/R/library/eda/html
-@dirrm lib/R/library/eda/help
-@dirrm lib/R/library/eda/demo
-@dirrm lib/R/library/eda/R-ex
 @dirrm lib/R/library/eda/R
-@dirrm lib/R/library/eda/Meta
 @dirrm lib/R/library/eda
-@dirrm lib/R/library/ctest/man
-@dirrm lib/R/library/ctest/libs
-@dirrm lib/R/library/ctest/latex
-@dirrm lib/R/library/ctest/html
-@dirrm lib/R/library/ctest/help
-@dirrm lib/R/library/ctest/R-ex
 @dirrm lib/R/library/ctest/R
-@dirrm lib/R/library/ctest/Meta
 @dirrm lib/R/library/ctest
 @dirrm lib/R/library/cluster/man
 @dirrm lib/R/library/cluster/libs