ports/58726: [maintainer-update] upgrade for math/R-letter

Eric van Gyzen vangyzen at stat.duke.edu
Thu Oct 30 14:50:17 UTC 2003 

>Number:         58726
>Category:       ports
>Synopsis:       [maintainer-update] upgrade for math/R-letter
>Confidential:   no
>Severity:       non-critical
>Priority:       low
>Responsible:    freebsd-ports-bugs
>State:          open
>Quarter:        
>Keywords:       
>Date-Required:
>Class:          maintainer-update
>Submitter-Id:   current-users
>Arrival-Date:   Thu Oct 30 06:50:13 PST 2003
>Closed-Date:
>Last-Modified:
>Originator:     Eric van Gyzen
>Release:        FreeBSD 5.1-RELEASE i386
>Organization:
Duke University
>Environment:
N/A

>Description:
A suggested CVS log entry is:
- PORTVERSION: 1.7.1 -> 1.8.0
- add more MASTER_SITES
- register CONFLICTS with math/R-a4
- add knob to use math/atlas instead of math/lapack
  Previously, it ATLAS were present on the build host, R would
  link with it instead of LAPACK, thereby invalidating the
  dependency list of the R package.
- explicity set FFLAGS in the CONFIGURE_ENV, since it (somehow)
  wasn't being set
- add --enable-R-shlib to CONFIGURE_ARGS per user request
- enable R's "check-all" make target
- work around a gcc-3.3.1 internal compiler error on 5.1-CURRENT
  by compiling plotmath.c without optimization
- acknowledge the fact that the entire pkg-descr was borrowed
  from the R project website ;)

>How-To-Repeat:
N/A

>Fix:

Index: Makefile
===================================================================
RCS file: /build/cvsroot/ports/math/R-letter/Makefile,v
retrieving revision 1.32
diff -u -r1.32 Makefile
--- Makefile	29 Oct 2003 03:39:15 -0000	1.32
+++ Makefile	30 Oct 2003 14:00:24 -0000
@@ -1,3 +1,4 @@
+# ex: ts=8 sts=0 noet
 # New ports collection makefile for:	R (letter)
 # Date created:			Fri Feb  9 10:50:25 EST 2001
 # Whom:				Maurice Castro <maurice at serc.rmit.edu.au>
@@ -6,56 +7,77 @@
 #
 
 PORTNAME=	R
-PORTVERSION=	1.7.1
+PORTVERSION=	1.8.0
 CATEGORIES=	math
 MASTER_SITES=	http://cran.r-project.org/src/base/ \
 		ftp://cran.r-project.org/pub/R/src/base/ \
 		http://cran.at.r-project.org/src/base/ \
 		http://cran.au.r-project.org/src/base/ \
+		http://cran.br.r-project.org/src/base/ \
 		http://cran.ch.r-project.org/src/base/ \
+		http://cran.es.r-project.org/src/base/ \
 		http://cran.dk.r-project.org/src/base/ \
 		http://cran.hu.r-project.org/src/base/ \
 		http://cran.uk.r-project.org/src/base/ \
 		http://cran.us.r-project.org/src/base/ \
+		http://cran.za.r-project.org/src/base/ \
 		ftp://ftp.u-aizu.ac.jp/pub/lang/R/CRAN/src/base/ \
-		http://lib.stat.cmu.edu/R/CRAN/src/base/
+		http://lib.stat.cmu.edu/R/CRAN/src/base/ \
+		http://cran.stat.ucla.edu/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 at 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:${PORTSDIR}/graphics/jpeg \
 		png.5:${PORTSDIR}/graphics/png \
-		pcre.0:${PORTSDIR}/devel/pcre \
-		lapack.3:${PORTSDIR}/math/lapack
+		pcre.0:${PORTSDIR}/devel/pcre
+
+.if defined(WITH_ATLAS)
+LIB_DEPENDS+=	f77blas.1:${PORTSDIR}/math/atlas
+CONFIGURE_ARGS=	--with-lapack="-lalapack -lcblas" --with-blas="-lf77blas"
+.else
+LIB_DEPENDS+=	lapack.3:${PORTSDIR}/math/lapack
+CONFIGURE_ARGS=	--with-lapack="-llapack" --with-blas="-lblas"
+.endif
 
 GNU_CONFIGURE=	yes
 USE_XLIB=	yes
 USE_PERL5=	yes
-CONFIGURE_ENV=	R_PAPERSIZE=${PAPERSIZE} \
+CONFIGURE_ENV=	R_PAPERSIZE=${PAPERSIZE} FFLAGS="${FFLAGS}" \
 		INSTALL_DATA="${INSTALL} ${COPY} ${_SHROWNGRP} -m 644"
-CONFIGURE_ARGS=       --with-lapack
+CONFIGURE_ARGS+=--enable-R-shlib
 
 PAPERSIZE?=	letter
 .if ${PAPERSIZE} != letter && ${PAPERSIZE} != a4
 .BEGIN:
 	@${ECHO} "Invalid value for PAPERSIZE: \"${PAPERSIZE}\""
-	@${ECHO} "Possible values are:  a4 and letter."
+	@${ECHO} "Possible values are: a4 letter"
 	@${FALSE}
 .endif
 
 MAN1=	R.1
 
-.include <bsd.port.pre.mk>
+test check: build
+	@(cd ${WRKSRC}; ${MAKE} check)
+check-all: build
+	@(cd ${WRKSRC}; ${MAKE} check-all)
 
-#.if ${OSVERSION} >= 500113
-#BROKEN=         "Does not compile"
-#.endif
+.include <bsd.port.pre.mk>
 
-test check: build
-	@(cd ${WRKSRC}; make check)
+# Work around a gcc-3.3.1 internal compiler error on 5.1-CURRENT.
+.if ${OSVERSION} >= 501103
+pre-build:
+	@(cd ${WRKSRC}/src/include; ${MAKE} Rmath.h)
+	@(cd ${WRKSRC}/src/main; ${MAKE} CFLAGS+=-O0 plotmath.o)
+.endif
 
 .include <bsd.port.post.mk>
Index: distinfo
===================================================================
RCS file: /build/cvsroot/ports/math/R-letter/distinfo,v
retrieving revision 1.15
diff -u -r1.15 distinfo
--- distinfo	29 Oct 2003 03:39:15 -0000	1.15
+++ distinfo	29 Oct 2003 17:25:12 -0000
@@ -1 +1 @@
-MD5 (R-1.7.1.tgz) = 833c2a9a62818211f2f9f0353ecd9bbd
+MD5 (R-1.8.0.tgz) = bb019d7e12e38ac8a8bc247f06cc6b42
Index: pkg-descr
===================================================================
RCS file: /build/cvsroot/ports/math/R-letter/pkg-descr,v
retrieving revision 1.4
diff -u -r1.4 pkg-descr
--- pkg-descr	17 Feb 2003 05:49:39 -0000	1.4
+++ pkg-descr	29 Oct 2003 17:46:55 -0000
@@ -1,20 +1,22 @@
-R is a language and environment for statistical computing and graphics.
-It is a GNU project which is similar to the S language and environment
-which was developed at Bell Laboratories (formerly AT&T, now Lucent
-Technologies) by John Chambers and colleagues. R can be considered as a
-different implementation of S. There are some important differences,
-but much code written for S runs unaltered under R. 
+From <http://www.R-project.org/about.html>:
 
-R provides a wide variety of statistical (linear and nonlinear modelling,
-classical statistical tests, time-series analysis, classification,
-clustering, ...) and graphical techniques, and is highly extensible.
-The S language is often the vehicle of choice for research in statistical
-methodology, and R provides an Open Source route to participation in that
-activity. 
+    R is a language and environment for statistical computing and graphics.
+    It is a GNU project which is similar to the S language and environment
+    which was developed at Bell Laboratories (formerly AT&T, now Lucent
+    Technologies) by John Chambers and colleagues. R can be considered as a
+    different implementation of S. There are some important differences,
+    but much code written for S runs unaltered under R. 
 
-One of R's strengths is the ease with which well-designed publication-quality
-plots can be produced, including mathematical symbols and formulae where
-needed. Great care has been taken over the defaults for the minor design
-choices in graphics, but the user retains full control. 
+    R provides a wide variety of statistical (linear and nonlinear modelling,
+    classical statistical tests, time-series analysis, classification,
+    clustering, ...) and graphical techniques, and is highly extensible.
+    The S language is often the vehicle of choice for research in statistical
+    methodology, and R provides an Open Source route to participation in that
+    activity. 
+
+    One of R's strengths is the ease with which well-designed
+    publication-quality plots can be produced, including mathematical symbols
+    and formulae where needed. Great care has been taken over the defaults for
+    the minor design choices in graphics, but the user retains full control. 
 
 WWW: http://www.R-project.org/
Index: pkg-plist
===================================================================
RCS file: /build/cvsroot/ports/math/R-letter/pkg-plist,v
retrieving revision 1.18
diff -u -r1.18 pkg-plist
--- pkg-plist	29 Oct 2003 03:39:15 -0000	1.18
+++ pkg-plist	29 Oct 2003 17:47:18 -0000
@@ -98,7 +98,6 @@
 lib/R/bin/Rd2txt
 lib/R/bin/Rdconv
 lib/R/bin/Rdiff
-lib/R/bin/Rdindex
 lib/R/bin/Rprof
 lib/R/bin/SHLIB
 lib/R/bin/Sd2Rd
@@ -106,7 +105,9 @@
 lib/R/bin/check
 lib/R/bin/config
 lib/R/bin/f77
+lib/R/bin/libR.so
 lib/R/bin/libtool
+lib/R/bin/mkinstalldirs
 lib/R/bin/pager
 lib/R/bin/texi2dvi
 lib/R/doc/KEYWORDS
@@ -160,8 +161,8 @@
 lib/R/include/R_ext/GraphicsEngine.h
 lib/R/include/R_ext/Lapack.h
 lib/R/include/R_ext/Linpack.h
-lib/R/include/R_ext/Mathlib.h
 lib/R/include/R_ext/Memory.h
+lib/R/include/R_ext/Parse.h
 lib/R/include/R_ext/Print.h
 lib/R/include/R_ext/PrtUtil.h
 lib/R/include/R_ext/R-ftp-http.h
@@ -184,6 +185,7 @@
 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/NAMESPACE
 lib/R/library/KernSmooth/R-ex/bkde.R
 lib/R/library/KernSmooth/R-ex/bkde2D.R
@@ -224,6 +226,7 @@
 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/NAMESPACE
 lib/R/library/MASS/R-ex/Insurance.R
 lib/R/library/MASS/R-ex/Null.R
@@ -460,7 +463,6 @@
 lib/R/library/MASS/help/epil
 lib/R/library/MASS/help/eqscplot
 lib/R/library/MASS/help/farms
-lib/R/library/MASS/help/fdeaths
 lib/R/library/MASS/help/fgl
 lib/R/library/MASS/help/fitdistr
 lib/R/library/MASS/help/forbes
@@ -496,7 +498,6 @@
 lib/R/library/MASS/help/mammals
 lib/R/library/MASS/help/mca
 lib/R/library/MASS/help/mcycle
-lib/R/library/MASS/help/mdeaths
 lib/R/library/MASS/help/menarche
 lib/R/library/MASS/help/michelson
 lib/R/library/MASS/help/minn38
@@ -619,7 +620,6 @@
 lib/R/library/MASS/html/epil.html
 lib/R/library/MASS/html/eqscplot.html
 lib/R/library/MASS/html/farms.html
-lib/R/library/MASS/html/fdeaths.html
 lib/R/library/MASS/html/fgl.html
 lib/R/library/MASS/html/fitdistr.html
 lib/R/library/MASS/html/forbes.html
@@ -655,7 +655,6 @@
 lib/R/library/MASS/html/mammals.html
 lib/R/library/MASS/html/mca.html
 lib/R/library/MASS/html/mcycle.html
-lib/R/library/MASS/html/mdeaths.html
 lib/R/library/MASS/html/menarche.html
 lib/R/library/MASS/html/michelson.html
 lib/R/library/MASS/html/minn38.html
@@ -777,7 +776,6 @@
 lib/R/library/MASS/latex/epil.tex
 lib/R/library/MASS/latex/eqscplot.tex
 lib/R/library/MASS/latex/farms.tex
-lib/R/library/MASS/latex/fdeaths.tex
 lib/R/library/MASS/latex/fgl.tex
 lib/R/library/MASS/latex/fitdistr.tex
 lib/R/library/MASS/latex/forbes.tex
@@ -813,7 +811,6 @@
 lib/R/library/MASS/latex/mammals.tex
 lib/R/library/MASS/latex/mca.tex
 lib/R/library/MASS/latex/mcycle.tex
-lib/R/library/MASS/latex/mdeaths.tex
 lib/R/library/MASS/latex/menarche.tex
 lib/R/library/MASS/latex/michelson.tex
 lib/R/library/MASS/latex/minn38.tex
@@ -915,6 +912,7 @@
 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
@@ -929,6 +927,8 @@
 lib/R/library/base/R-ex/Devices.R
 lib/R/library/base/R-ex/Exponential.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
@@ -1032,8 +1032,8 @@
 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.formula.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
@@ -1067,6 +1067,7 @@
 lib/R/library/base/R-ex/comment.R
 lib/R/library/base/R-ex/complete.cases.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
@@ -1169,7 +1170,6 @@
 lib/R/library/base/R-ex/gl.R
 lib/R/library/base/R-ex/glm.R
 lib/R/library/base/R-ex/glm.control.R
-lib/R/library/base/R-ex/glm.summary.R
 lib/R/library/base/R-ex/gnome.R
 lib/R/library/base/R-ex/gray.R
 lib/R/library/base/R-ex/grep.R
@@ -1208,7 +1208,7 @@
 lib/R/library/base/R-ex/layout.R
 lib/R/library/base/R-ex/legend.R
 lib/R/library/base/R-ex/length.R
-lib/R/library/base/R-ex/levels.factor.R
+lib/R/library/base/R-ex/levels.R
 lib/R/library/base/R-ex/library.R
 lib/R/library/base/R-ex/library.dynam.R
 lib/R/library/base/R-ex/lines.R
@@ -1217,7 +1217,6 @@
 lib/R/library/base/R-ex/lm.R
 lib/R/library/base/R-ex/lm.influence.R
 lib/R/library/base/R-ex/lm.summaries.R
-lib/R/library/base/R-ex/lm.summary.R
 lib/R/library/base/R-ex/lmfit.R
 lib/R/library/base/R-ex/load.R
 lib/R/library/base/R-ex/localeconv.R
@@ -1236,7 +1235,9 @@
 lib/R/library/base/R-ex/make.link.R
 lib/R/library/base/R-ex/make.names.R
 lib/R/library/base/R-ex/make.socket.R
+lib/R/library/base/R-ex/make.unique.R
 lib/R/library/base/R-ex/makepredictcall.R
+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
 lib/R/library/base/R-ex/mat.or.vec.R
@@ -1295,7 +1296,6 @@
 lib/R/library/base/R-ex/package.skeleton.R
 lib/R/library/base/R-ex/packageStatus.R
 lib/R/library/base/R-ex/pairs.R
-lib/R/library/base/R-ex/pairs.formula.R
 lib/R/library/base/R-ex/palette.R
 lib/R/library/base/R-ex/palettes.R
 lib/R/library/base/R-ex/panel.smooth.R
@@ -1309,6 +1309,7 @@
 lib/R/library/base/R-ex/pictex.R
 lib/R/library/base/R-ex/pie.R
 lib/R/library/base/R-ex/plot.R
+lib/R/library/base/R-ex/plot.dataframe.R
 lib/R/library/base/R-ex/plot.design.R
 lib/R/library/base/R-ex/plot.lm.R
 lib/R/library/base/R-ex/plot.table.R
@@ -1381,6 +1382,7 @@
 lib/R/library/base/R-ex/row.R
 lib/R/library/base/R-ex/rowsum.R
 lib/R/library/base/R-ex/rug.R
+lib/R/library/base/R-ex/sQuote.R
 lib/R/library/base/R-ex/sample.R
 lib/R/library/base/R-ex/save.R
 lib/R/library/base/R-ex/savehistory.R
@@ -1394,12 +1396,14 @@
 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
+lib/R/library/base/R-ex/serialize.R
 lib/R/library/base/R-ex/sets.R
 lib/R/library/base/R-ex/showConnections.R
 lib/R/library/base/R-ex/sign.R
 lib/R/library/base/R-ex/sink.R
 lib/R/library/base/R-ex/sleep.R
 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
 lib/R/library/base/R-ex/splinefun.R
@@ -1425,6 +1429,8 @@
 lib/R/library/base/R-ex/substr.R
 lib/R/library/base/R-ex/summary.R
 lib/R/library/base/R-ex/summary.aov.R
+lib/R/library/base/R-ex/summary.glm.R
+lib/R/library/base/R-ex/summary.lm.R
 lib/R/library/base/R-ex/summary.manova.R
 lib/R/library/base/R-ex/summaryRprof.R
 lib/R/library/base/R-ex/sunflowerplot.R
@@ -1471,6 +1477,7 @@
 lib/R/library/base/R-ex/url.show.R
 lib/R/library/base/R-ex/uspop.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
@@ -1559,7 +1566,6 @@
 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/AIC.logLik
 lib/R/library/base/help/AnIndex
 lib/R/library/base/help/Arithmetic
 lib/R/library/base/help/AsIs
@@ -1579,6 +1585,8 @@
 lib/R/library/base/help/Devices
 lib/R/library/base/help/Exponential
 lib/R/library/base/help/Extract
+lib/R/library/base/help/Extract.data.frame
+lib/R/library/base/help/Extract.factor
 lib/R/library/base/help/Extremes
 lib/R/library/base/help/FDist
 lib/R/library/base/help/Foreign
@@ -1644,6 +1652,7 @@
 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
@@ -1674,6 +1683,7 @@
 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
@@ -1698,8 +1708,8 @@
 lib/R/library/base/help/body
 lib/R/library/base/help/box
 lib/R/library/base/help/boxplot
-lib/R/library/base/help/boxplot.formula
 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
@@ -1738,6 +1748,7 @@
 lib/R/library/base/help/comment
 lib/R/library/base/help/complete.cases
 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
@@ -1763,6 +1774,7 @@
 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
@@ -1856,7 +1868,6 @@
 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/glm.summary
 lib/R/library/base/help/gnome
 lib/R/library/base/help/gray
 lib/R/library/base/help/grep
@@ -1902,7 +1913,6 @@
 lib/R/library/base/help/legend
 lib/R/library/base/help/length
 lib/R/library/base/help/levels
-lib/R/library/base/help/levels.factor
 lib/R/library/base/help/library
 lib/R/library/base/help/library.dynam
 lib/R/library/base/help/license
@@ -1912,7 +1922,6 @@
 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/lm.summary
 lib/R/library/base/help/lmfit
 lib/R/library/base/help/load
 lib/R/library/base/help/localeconv
@@ -1937,7 +1946,9 @@
 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
@@ -2007,7 +2018,6 @@
 lib/R/library/base/help/packageStatus
 lib/R/library/base/help/page
 lib/R/library/base/help/pairs
-lib/R/library/base/help/pairs.formula
 lib/R/library/base/help/palette
 lib/R/library/base/help/palettes
 lib/R/library/base/help/panel.smooth
@@ -2021,6 +2031,7 @@
 lib/R/library/base/help/pictex
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@@ -6494,8 +6595,6 @@
 lib/R/library/nls/R-ex/profiler.R
 lib/R/library/nls/R-ex/profiler.nls.R
 lib/R/library/nls/R-ex/selfStart.R
-lib/R/library/nls/R-ex/selfStart.default.R
-lib/R/library/nls/R-ex/selfStart.formula.R
 lib/R/library/nls/R-ex/setNames.R
 lib/R/library/nls/R-ex/sortedXyData.R
 lib/R/library/nls/R/nls
@@ -6546,8 +6645,6 @@
 lib/R/library/nls/help/profiler
 lib/R/library/nls/help/profiler.nls
 lib/R/library/nls/help/selfStart
-lib/R/library/nls/help/selfStart.default
-lib/R/library/nls/help/selfStart.formula
 lib/R/library/nls/help/setNames
 lib/R/library/nls/help/sortedXyData
 lib/R/library/nls/html/00Index.html
@@ -6587,8 +6684,6 @@
 lib/R/library/nls/html/profile.nls.html
 lib/R/library/nls/html/profiler.html
 lib/R/library/nls/html/profiler.nls.html
-lib/R/library/nls/html/selfStart.default.html
-lib/R/library/nls/html/selfStart.formula.html
 lib/R/library/nls/html/selfStart.html
 lib/R/library/nls/html/setNames.html
 lib/R/library/nls/html/sortedXyData.html
@@ -6628,8 +6723,6 @@
 lib/R/library/nls/latex/profile.nls.tex
 lib/R/library/nls/latex/profiler.nls.tex
 lib/R/library/nls/latex/profiler.tex
-lib/R/library/nls/latex/selfStart.default.tex
-lib/R/library/nls/latex/selfStart.formula.tex
 lib/R/library/nls/latex/selfStart.tex
 lib/R/library/nls/latex/setNames.tex
 lib/R/library/nls/latex/sortedXyData.tex
@@ -6640,6 +6733,7 @@
 lib/R/library/nnet/INDEX
 lib/R/library/nnet/LICENCE
 lib/R/library/nnet/Meta/Rd.rds
+lib/R/library/nnet/Meta/hsearch.rds
 lib/R/library/nnet/NAMESPACE
 lib/R/library/nnet/R-ex/class.ind.R
 lib/R/library/nnet/R-ex/multinom.R
@@ -6675,6 +6769,7 @@
 lib/R/library/rpart/INDEX
 lib/R/library/rpart/Meta/Rd.rds
 lib/R/library/rpart/Meta/data.rds
+lib/R/library/rpart/Meta/hsearch.rds
 lib/R/library/rpart/NAMESPACE
 lib/R/library/rpart/R-ex/car.test.frame.R
 lib/R/library/rpart/R-ex/cu.summary.R
@@ -6696,7 +6791,6 @@
 lib/R/library/rpart/R-ex/text.rpart.R
 lib/R/library/rpart/R-ex/xpred.rpart.R
 lib/R/library/rpart/R/rpart
-lib/R/library/rpart/data/00Index
 lib/R/library/rpart/data/car.test.frame.csv
 lib/R/library/rpart/data/cu.summary.rda
 lib/R/library/rpart/data/kyphosis.tab
@@ -6718,13 +6812,9 @@
 lib/R/library/rpart/help/prune.rpart
 lib/R/library/rpart/help/residuals.rpart
 lib/R/library/rpart/help/rpart
-lib/R/library/rpart/help/rpart.anova
-lib/R/library/rpart/help/rpart.class
+lib/R/library/rpart/help/rpart-internal
 lib/R/library/rpart/help/rpart.control
-lib/R/library/rpart/help/rpart.exp
-lib/R/library/rpart/help/rpart.matrix
 lib/R/library/rpart/help/rpart.object
-lib/R/library/rpart/help/rpart.poisson
 lib/R/library/rpart/help/rpconvert
 lib/R/library/rpart/help/rsq.rpart
 lib/R/library/rpart/help/snip.rpart
@@ -6748,14 +6838,10 @@
 lib/R/library/rpart/html/printcp.html
 lib/R/library/rpart/html/prune.rpart.html
 lib/R/library/rpart/html/residuals.rpart.html
-lib/R/library/rpart/html/rpart.anova.html
-lib/R/library/rpart/html/rpart.class.html
+lib/R/library/rpart/html/rpart-internal.html
 lib/R/library/rpart/html/rpart.control.html
-lib/R/library/rpart/html/rpart.exp.html
 lib/R/library/rpart/html/rpart.html
-lib/R/library/rpart/html/rpart.matrix.html
 lib/R/library/rpart/html/rpart.object.html
-lib/R/library/rpart/html/rpart.poisson.html
 lib/R/library/rpart/html/rpconvert.html
 lib/R/library/rpart/html/rsq.rpart.html
 lib/R/library/rpart/html/snip.rpart.html
@@ -6778,13 +6864,9 @@
 lib/R/library/rpart/latex/printcp.tex
 lib/R/library/rpart/latex/prune.rpart.tex
 lib/R/library/rpart/latex/residuals.rpart.tex
-lib/R/library/rpart/latex/rpart.anova.tex
-lib/R/library/rpart/latex/rpart.class.tex
+lib/R/library/rpart/latex/rpart-internal.tex
 lib/R/library/rpart/latex/rpart.control.tex
-lib/R/library/rpart/latex/rpart.exp.tex
-lib/R/library/rpart/latex/rpart.matrix.tex
 lib/R/library/rpart/latex/rpart.object.tex
-lib/R/library/rpart/latex/rpart.poisson.tex
 lib/R/library/rpart/latex/rpart.tex
 lib/R/library/rpart/latex/rpconvert.tex
 lib/R/library/rpart/latex/rsq.rpart.tex
@@ -6800,6 +6882,7 @@
 lib/R/library/spatial/INDEX
 lib/R/library/spatial/LICENCE
 lib/R/library/spatial/Meta/Rd.rds
+lib/R/library/spatial/Meta/hsearch.rds
 lib/R/library/spatial/NAMESPACE
 lib/R/library/spatial/PP.files
 lib/R/library/spatial/R-ex/Kaver.R
@@ -6917,6 +7000,7 @@
 lib/R/library/splines/DESCRIPTION
 lib/R/library/splines/INDEX
 lib/R/library/splines/Meta/Rd.rds
+lib/R/library/splines/Meta/hsearch.rds
 lib/R/library/splines/NAMESPACE
 lib/R/library/splines/R-ex/asVector.R
 lib/R/library/splines/R-ex/backSpline.R
@@ -6979,6 +7063,7 @@
 lib/R/library/stepfun/DESCRIPTION
 lib/R/library/stepfun/INDEX
 lib/R/library/stepfun/Meta/Rd.rds
+lib/R/library/stepfun/Meta/hsearch.rds
 lib/R/library/stepfun/NAMESPACE
 lib/R/library/stepfun/R-ex/ecdf.R
 lib/R/library/stepfun/R-ex/plot.stepfun.R
@@ -7002,6 +7087,7 @@
 lib/R/library/survival/INDEX
 lib/R/library/survival/Meta/Rd.rds
 lib/R/library/survival/Meta/data.rds
+lib/R/library/survival/Meta/hsearch.rds
 lib/R/library/survival/R-ex/Surv.R
 lib/R/library/survival/R-ex/anova.coxph.R
 lib/R/library/survival/R-ex/as.date.R
@@ -7043,6 +7129,7 @@
 lib/R/library/survival/R-ex/survreg.distributions.R
 lib/R/library/survival/R-ex/survreg.old.R
 lib/R/library/survival/R-ex/tcut.R
+lib/R/library/survival/R-ex/tobin.R
 lib/R/library/survival/R-ex/untangle.specials.R
 lib/R/library/survival/R/survival
 lib/R/library/survival/data/aml.rda
@@ -7058,6 +7145,7 @@
 lib/R/library/survival/data/ratetables.rda
 lib/R/library/survival/data/rats.rda
 lib/R/library/survival/data/stanford2.rda
+lib/R/library/survival/data/tobin.txt
 lib/R/library/survival/data/veteran.rda
 lib/R/library/survival/help/AnIndex
 lib/R/library/survival/help/Surv
@@ -7117,6 +7205,7 @@
 lib/R/library/survival/help/survreg.object
 lib/R/library/survival/help/survreg.old
 lib/R/library/survival/help/tcut
+lib/R/library/survival/help/tobin
 lib/R/library/survival/help/untangle.specials
 lib/R/library/survival/help/veteran
 lib/R/library/survival/html/00Index.html
@@ -7177,6 +7266,7 @@
 lib/R/library/survival/html/survreg.object.html
 lib/R/library/survival/html/survreg.old.html
 lib/R/library/survival/html/tcut.html
+lib/R/library/survival/html/tobin.html
 lib/R/library/survival/html/untangle.specials.html
 lib/R/library/survival/html/veteran.html
 lib/R/library/survival/latex/Surv.tex
@@ -7236,6 +7326,7 @@
 lib/R/library/survival/latex/survreg.old.tex
 lib/R/library/survival/latex/survreg.tex
 lib/R/library/survival/latex/tcut.tex
+lib/R/library/survival/latex/tobin.tex
 lib/R/library/survival/latex/untangle.specials.tex
 lib/R/library/survival/latex/veteran.tex
 lib/R/library/survival/libs/survival.so
@@ -7246,11 +7337,12 @@
 lib/R/library/tcltk/INDEX
 lib/R/library/tcltk/Meta/Rd.rds
 lib/R/library/tcltk/Meta/demo.rds
+lib/R/library/tcltk/Meta/hsearch.rds
+lib/R/library/tcltk/NAMESPACE
 lib/R/library/tcltk/R-ex/TclInterface.R
 lib/R/library/tcltk/R-ex/TkCommands.R
 lib/R/library/tcltk/R-ex/TkWidgetcmds.R
 lib/R/library/tcltk/R-ex/TkWidgets.R
-lib/R/library/tcltk/R-ex/tkpager.R
 lib/R/library/tcltk/R/tcltk
 lib/R/library/tcltk/demo/00Index
 lib/R/library/tcltk/demo/tkcanvas.R
@@ -7295,10 +7387,13 @@
 lib/R/library/tools/DESCRIPTION
 lib/R/library/tools/INDEX
 lib/R/library/tools/Meta/Rd.rds
+lib/R/library/tools/Meta/hsearch.rds
 lib/R/library/tools/NAMESPACE
 lib/R/library/tools/R-ex/Sweave.R
 lib/R/library/tools/R-ex/SweaveSyntConv.R
 lib/R/library/tools/R-ex/checkFF.R
+lib/R/library/tools/R-ex/delimMatch.R
+lib/R/library/tools/R-ex/fileutils.R
 lib/R/library/tools/R-ex/md5sum.R
 lib/R/library/tools/R-ex/undoc.R
 lib/R/library/tools/R/tools
@@ -7315,6 +7410,8 @@
 lib/R/library/tools/help/checkTnF
 lib/R/library/tools/help/checkVignettes
 lib/R/library/tools/help/codoc
+lib/R/library/tools/help/delimMatch
+lib/R/library/tools/help/fileutils
 lib/R/library/tools/help/md5sum
 lib/R/library/tools/help/tools-internal
 lib/R/library/tools/help/undoc
@@ -7330,6 +7427,8 @@
 lib/R/library/tools/html/checkTnF.html
 lib/R/library/tools/html/checkVignettes.html
 lib/R/library/tools/html/codoc.html
+lib/R/library/tools/html/delimMatch.html
+lib/R/library/tools/html/fileutils.html
 lib/R/library/tools/html/md5sum.html
 lib/R/library/tools/html/tools-internal.html
 lib/R/library/tools/html/undoc.html
@@ -7344,6 +7443,8 @@
 lib/R/library/tools/latex/checkTnF.tex
 lib/R/library/tools/latex/checkVignettes.tex
 lib/R/library/tools/latex/codoc.tex
+lib/R/library/tools/latex/delimMatch.tex
+lib/R/library/tools/latex/fileutils.tex
 lib/R/library/tools/latex/md5sum.tex
 lib/R/library/tools/latex/tools-internal.tex
 lib/R/library/tools/latex/undoc.tex
@@ -7354,6 +7455,7 @@
 lib/R/library/ts/INDEX
 lib/R/library/ts/Meta/Rd.rds
 lib/R/library/ts/Meta/data.rds
+lib/R/library/ts/Meta/hsearch.rds
 lib/R/library/ts/NAMESPACE
 lib/R/library/ts/R-ex/ARMAacf.R
 lib/R/library/ts/R-ex/ARMAtoMA.R
@@ -7610,9 +7712,11 @@
 lib/R/modules/lapack.so
 lib/R/modules/vfonts.so
 lib/R/share/R/firstlib.R
+lib/R/share/R/nsrdaload.R
 lib/R/share/make/config.mk
 lib/R/share/make/shlib.mk
 lib/R/share/make/tests.mk
+lib/R/share/make/vars.mk
 lib/R/share/perl/R/Dcf.pm
 lib/R/share/perl/R/Logfile.pm
 lib/R/share/perl/R/Rd.pm
@@ -7623,7 +7727,6 @@
 lib/R/share/perl/R/Vars.pm
 lib/R/share/perl/Rd2contents.pl
 lib/R/share/perl/Text/DelimMatch.pm
-lib/R/share/perl/build-help-mac.pl
 lib/R/share/perl/build-help-windows.pl
 lib/R/share/perl/build-help.pl
 lib/R/share/perl/extract-examples.pl
@@ -7642,6 +7745,7 @@
 lib/R/share/texmf/omsaer.fd
 lib/R/share/texmf/omsaett.fd
 lib/R/share/texmf/omscmtt.fd
+lib/R/share/texmf/upquote.sty
 @dirrm lib/R/share/texmf
 @dirrm lib/R/share/sh
 @dirrm lib/R/share/perl/Text
@@ -7780,6 +7884,14 @@
 @dirrm lib/R/library/modreg/R
 @dirrm lib/R/library/modreg/Meta
 @dirrm lib/R/library/modreg
+ at dirrm lib/R/library/mle/man
+ at dirrm lib/R/library/mle/latex
+ at dirrm lib/R/library/mle/html
+ at dirrm lib/R/library/mle/help
+ at dirrm lib/R/library/mle/R-ex
+ at dirrm lib/R/library/mle/R
+ at dirrm lib/R/library/mle/Meta
+ at dirrm lib/R/library/mle
 @dirrm lib/R/library/mgcv/man
 @dirrm lib/R/library/mgcv/libs
 @dirrm lib/R/library/mgcv/latex
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>Audit-Trail:
>Unformatted:

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