upgrade to 1.7.1

PR:		57801
Submitted by:	maintainer

3 files changed, 307 insertions, 460 deletions

diff --git a/math/R/Makefile b/math/R/Makefile
index ed7f5be46e2e..139ca8ab6a54 100644
--- a/math/R/Makefile
+++ b/math/R/Makefile
@@ -6,7 +6,7 @@
 #
 
 PORTNAME=	R
-PORTVERSION=	1.7.0
+PORTVERSION=	1.7.1
 CATEGORIES=	math
 MASTER_SITES=	http://cran.r-project.org/src/base/ \
 		ftp://cran.r-project.org/pub/R/src/base/ \
@@ -26,13 +26,18 @@ MAINTAINER=	vangyzen@stat.duke.edu
 COMMENT=	A language for statistical computing and graphics
 
 LIB_DEPENDS=	tcl84:${PORTSDIR}/lang/tcl84 \
-		tk84:${PORTSDIR}/x11-toolkits/tk84
+		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
 
 GNU_CONFIGURE=	yes
 USE_XLIB=	yes
 USE_PERL5=	yes
 CONFIGURE_ENV=	R_PAPERSIZE=${PAPERSIZE} \
 		INSTALL_DATA="${INSTALL} ${COPY} ${_SHROWNGRP} -m 644"
+CONFIGURE_ARGS=       --with-lapack
 
 PAPERSIZE?=	letter
 .if ${PAPERSIZE} != letter && ${PAPERSIZE} != a4
diff --git a/math/R/distinfo b/math/R/distinfo
index 63db5a7004bd..a438e43ae205 100644
--- a/math/R/distinfo
+++ b/math/R/distinfo
@@ -1 +1 @@
-MD5 (R-1.7.0.tgz) = 292dbe4dc47e6b492ff72a62471654ca
+MD5 (R-1.7.1.tgz) = 833c2a9a62818211f2f9f0353ecd9bbd
diff --git a/math/R/pkg-plist b/math/R/pkg-plist
index 983fdcbfa5f0..fff84538a265 100644
--- a/math/R/pkg-plist
+++ b/math/R/pkg-plist
@@ -106,7 +106,6 @@ lib/R/bin/build
 lib/R/bin/check
 lib/R/bin/config
 lib/R/bin/f77
-lib/R/bin/libRlapack.so
 lib/R/bin/libtool
 lib/R/bin/pager
 lib/R/bin/texi2dvi
@@ -492,6 +491,7 @@ lib/R/library/MASS/help/lh
 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/mammals
 lib/R/library/MASS/help/mca
@@ -650,6 +650,7 @@ lib/R/library/MASS/html/lh.html
 lib/R/library/MASS/html/lm.gls.html
 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/mammals.html
 lib/R/library/MASS/html/mca.html
@@ -807,6 +808,7 @@ lib/R/library/MASS/latex/lh.tex
 lib/R/library/MASS/latex/lm.gls.tex
 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/mammals.tex
 lib/R/library/MASS/latex/mca.tex
@@ -1157,6 +1159,7 @@ lib/R/library/base/R-ex/function.R
 lib/R/library/base/R-ex/gc.R
 lib/R/library/base/R-ex/gc.time.R
 lib/R/library/base/R-ex/get.R
+lib/R/library/base/R-ex/getAnywhere.R
 lib/R/library/base/R-ex/getFromNamespace.R
 lib/R/library/base/R-ex/getNativeSymbolInfo.R
 lib/R/library/base/R-ex/getS3method.R
@@ -1244,7 +1247,7 @@ lib/R/library/base/R-ex/match.fun.R
 lib/R/library/base/R-ex/matmult.R
 lib/R/library/base/R-ex/matplot.R
 lib/R/library/base/R-ex/matrix.R
-lib/R/library/base/R-ex/max.col.R
+lib/R/library/base/R-ex/maxCol.R
 lib/R/library/base/R-ex/mean.R
 lib/R/library/base/R-ex/median.R
 lib/R/library/base/R-ex/memory.profile.R
@@ -1380,6 +1383,7 @@ lib/R/library/base/R-ex/rowsum.R
 lib/R/library/base/R-ex/rug.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
 lib/R/library/base/R-ex/scale.R
 lib/R/library/base/R-ex/scan.R
 lib/R/library/base/R-ex/screen.R
@@ -1841,6 +1845,7 @@ 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
@@ -1944,7 +1949,7 @@ 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/max.col
+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
@@ -2522,6 +2527,7 @@ lib/R/library/base/html/gc.html
 lib/R/library/base/html/gc.time.html
 lib/R/library/base/html/gctorture.html
 lib/R/library/base/html/get.html
+lib/R/library/base/html/getAnywhere.html
 lib/R/library/base/html/getFromNamespace.html
 lib/R/library/base/html/getNativeSymbolInfo.html
 lib/R/library/base/html/getS3method.html
@@ -2625,7 +2631,7 @@ lib/R/library/base/html/match.html
 lib/R/library/base/html/matmult.html
 lib/R/library/base/html/matplot.html
 lib/R/library/base/html/matrix.html
-lib/R/library/base/html/max.col.html
+lib/R/library/base/html/maxCol.html
 lib/R/library/base/html/mean.html
 lib/R/library/base/html/median.html
 lib/R/library/base/html/memory.profile.html
@@ -3202,6 +3208,7 @@ lib/R/library/base/latex/gc.tex
 lib/R/library/base/latex/gc.time.tex
 lib/R/library/base/latex/gctorture.tex
 lib/R/library/base/latex/get.tex
+lib/R/library/base/latex/getAnywhere.tex
 lib/R/library/base/latex/getFromNamespace.tex
 lib/R/library/base/latex/getNativeSymbolInfo.tex
 lib/R/library/base/latex/getS3method.tex
@@ -3305,7 +3312,7 @@ lib/R/library/base/latex/match.tex
 lib/R/library/base/latex/matmult.tex
 lib/R/library/base/latex/matplot.tex
 lib/R/library/base/latex/matrix.tex
-lib/R/library/base/latex/max.col.tex
+lib/R/library/base/latex/maxCol.tex
 lib/R/library/base/latex/mean.tex
 lib/R/library/base/latex/median.tex
 lib/R/library/base/latex/memory.profile.tex
@@ -4040,6 +4047,7 @@ lib/R/library/cluster/R-ex/flower.R
 lib/R/library/cluster/R-ex/lower.to.upper.tri.inds.R
 lib/R/library/cluster/R-ex/mona.R
 lib/R/library/cluster/R-ex/pam.R
+lib/R/library/cluster/R-ex/pam.object.R
 lib/R/library/cluster/R-ex/plot.agnes.R
 lib/R/library/cluster/R-ex/plot.diana.R
 lib/R/library/cluster/R-ex/plot.partition.R
@@ -5267,6 +5275,7 @@ lib/R/library/nlme/DESCRIPTION
 lib/R/library/nlme/INDEX
 lib/R/library/nlme/Meta/Rd.rds
 lib/R/library/nlme/Meta/data.rds
+lib/R/library/nlme/NAMESPACE
 lib/R/library/nlme/R-ex/ACF.R
 lib/R/library/nlme/R-ex/ACF.gls.R
 lib/R/library/nlme/R-ex/ACF.lme.R
@@ -5354,14 +5363,10 @@ lib/R/library/nlme/R-ex/augPred.R
 lib/R/library/nlme/R-ex/balancedGrouped.R
 lib/R/library/nlme/R-ex/bdf.R
 lib/R/library/nlme/R-ex/coef.corStruct.R
-lib/R/library/nlme/R-ex/coef.gls.R
 lib/R/library/nlme/R-ex/coef.gnls.R
 lib/R/library/nlme/R-ex/coef.lmList.R
 lib/R/library/nlme/R-ex/coef.lme.R
 lib/R/library/nlme/R-ex/coef.modelStruct.R
-lib/R/library/nlme/R-ex/coef.pdCompSymm.R
-lib/R/library/nlme/R-ex/coef.pdDiag.R
-lib/R/library/nlme/R-ex/coef.pdIdent.R
 lib/R/library/nlme/R-ex/coef.pdMat.R
 lib/R/library/nlme/R-ex/coef.reStruct.R
 lib/R/library/nlme/R-ex/coef.varFunc.R
@@ -5390,26 +5395,13 @@ lib/R/library/nlme/R-ex/corSpher.R
 lib/R/library/nlme/R-ex/corSymm.R
 lib/R/library/nlme/R-ex/ergoStool.R
 lib/R/library/nlme/R-ex/fdHess.R
-lib/R/library/nlme/R-ex/fitted.gls.R
-lib/R/library/nlme/R-ex/fitted.gnls.R
 lib/R/library/nlme/R-ex/fitted.lmList.R
 lib/R/library/nlme/R-ex/fitted.lme.R
 lib/R/library/nlme/R-ex/fixed.effects.R
 lib/R/library/nlme/R-ex/fixef.lmList.R
-lib/R/library/nlme/R-ex/fixef.lme.R
-lib/R/library/nlme/R-ex/formula.corStruct.R
-lib/R/library/nlme/R-ex/formula.gls.R
-lib/R/library/nlme/R-ex/formula.gnls.R
-lib/R/library/nlme/R-ex/formula.groupedData.R
-lib/R/library/nlme/R-ex/formula.lmList.R
-lib/R/library/nlme/R-ex/formula.lme.R
-lib/R/library/nlme/R-ex/formula.modelStruct.R
-lib/R/library/nlme/R-ex/formula.nlme.R
-lib/R/library/nlme/R-ex/formula.nlsList.R
 lib/R/library/nlme/R-ex/formula.pdBlocked.R
 lib/R/library/nlme/R-ex/formula.pdMat.R
 lib/R/library/nlme/R-ex/formula.reStruct.R
-lib/R/library/nlme/R-ex/formula.varFunc.R
 lib/R/library/nlme/R-ex/gapply.R
 lib/R/library/nlme/R-ex/getCovariate.R
 lib/R/library/nlme/R-ex/getCovariate.corStruct.R
@@ -5429,10 +5421,6 @@ lib/R/library/nlme/R-ex/getGroups.lme.R
 lib/R/library/nlme/R-ex/getGroups.varFunc.R
 lib/R/library/nlme/R-ex/getGroupsFormula.R
 lib/R/library/nlme/R-ex/getResponse.R
-lib/R/library/nlme/R-ex/getResponse.data.frame.R
-lib/R/library/nlme/R-ex/getResponse.gls.R
-lib/R/library/nlme/R-ex/getResponse.lmList.R
-lib/R/library/nlme/R-ex/getResponse.lme.R
 lib/R/library/nlme/R-ex/getResponseFormula.R
 lib/R/library/nlme/R-ex/getVarCov.R
 lib/R/library/nlme/R-ex/gls.R
@@ -5449,7 +5437,6 @@ lib/R/library/nlme/R-ex/intervals.lmList.R
 lib/R/library/nlme/R-ex/intervals.lme.R
 lib/R/library/nlme/R-ex/isBalanced.R
 lib/R/library/nlme/R-ex/isInitialized.R
-lib/R/library/nlme/R-ex/isInitialized.reStruct.R
 lib/R/library/nlme/R-ex/lmList.R
 lib/R/library/nlme/R-ex/lmList.groupedData.R
 lib/R/library/nlme/R-ex/lme.R
@@ -5462,7 +5449,6 @@ lib/R/library/nlme/R-ex/logDet.corStruct.R
 lib/R/library/nlme/R-ex/logDet.pdMat.R
 lib/R/library/nlme/R-ex/logDet.reStruct.R
 lib/R/library/nlme/R-ex/logLik.corStruct.R
-lib/R/library/nlme/R-ex/logLik.gls.R
 lib/R/library/nlme/R-ex/logLik.gnls.R
 lib/R/library/nlme/R-ex/logLik.lmList.R
 lib/R/library/nlme/R-ex/logLik.lme.R
@@ -5513,24 +5499,8 @@ lib/R/library/nlme/R-ex/predict.gnls.R
 lib/R/library/nlme/R-ex/predict.lmList.R
 lib/R/library/nlme/R-ex/predict.lme.R
 lib/R/library/nlme/R-ex/predict.nlme.R
-lib/R/library/nlme/R-ex/print.anova.lme.R
-lib/R/library/nlme/R-ex/print.corStruct.R
-lib/R/library/nlme/R-ex/print.gls.R
-lib/R/library/nlme/R-ex/print.groupedData.R
-lib/R/library/nlme/R-ex/print.lmList.R
-lib/R/library/nlme/R-ex/print.lme.R
-lib/R/library/nlme/R-ex/print.modelStruct.R
-lib/R/library/nlme/R-ex/print.pdMat.R
-lib/R/library/nlme/R-ex/print.reStruct.R
-lib/R/library/nlme/R-ex/print.summary.corStruct.R
-lib/R/library/nlme/R-ex/print.summary.gls.R
-lib/R/library/nlme/R-ex/print.summary.lmList.R
-lib/R/library/nlme/R-ex/print.summary.lme.R
-lib/R/library/nlme/R-ex/print.summary.modelStruct.R
 lib/R/library/nlme/R-ex/print.summary.pdMat.R
-lib/R/library/nlme/R-ex/print.summary.varFunc.R
 lib/R/library/nlme/R-ex/print.varFunc.R
-lib/R/library/nlme/R-ex/pruneLevels.R
 lib/R/library/nlme/R-ex/qqnorm.gls.R
 lib/R/library/nlme/R-ex/qqnorm.lme.R
 lib/R/library/nlme/R-ex/quinModel.R
@@ -5638,10 +5608,6 @@ lib/R/library/nlme/help/Initialize.lmeStruct
 lib/R/library/nlme/help/Initialize.reStruct
 lib/R/library/nlme/help/Initialize.varFunc
 lib/R/library/nlme/help/LDEsysMat
-lib/R/library/nlme/help/MEEM
-lib/R/library/nlme/help/MEdecomp
-lib/R/library/nlme/help/MEdims
-lib/R/library/nlme/help/MEestimate
 lib/R/library/nlme/help/Machines
 lib/R/library/nlme/help/MathAchSchool
 lib/R/library/nlme/help/MathAchieve
@@ -5700,14 +5666,10 @@ lib/R/library/nlme/help/augPred
 lib/R/library/nlme/help/balancedGrouped
 lib/R/library/nlme/help/bdf
 lib/R/library/nlme/help/coef.corStruct
-lib/R/library/nlme/help/coef.gls
 lib/R/library/nlme/help/coef.gnls
 lib/R/library/nlme/help/coef.lmList
 lib/R/library/nlme/help/coef.lme
 lib/R/library/nlme/help/coef.modelStruct
-lib/R/library/nlme/help/coef.pdCompSymm
-lib/R/library/nlme/help/coef.pdDiag
-lib/R/library/nlme/help/coef.pdIdent
 lib/R/library/nlme/help/coef.pdMat
 lib/R/library/nlme/help/coef.reStruct
 lib/R/library/nlme/help/coef.varFunc
@@ -5737,9 +5699,7 @@ lib/R/library/nlme/help/corSpher
 lib/R/library/nlme/help/corSymm
 lib/R/library/nlme/help/ergoStool
 lib/R/library/nlme/help/fdHess
-lib/R/library/nlme/help/fitted.gls
 lib/R/library/nlme/help/fitted.glsStruct
-lib/R/library/nlme/help/fitted.gnls
 lib/R/library/nlme/help/fitted.gnlsStruct
 lib/R/library/nlme/help/fitted.lmList
 lib/R/library/nlme/help/fitted.lme
@@ -5747,20 +5707,9 @@ lib/R/library/nlme/help/fitted.lmeStruct
 lib/R/library/nlme/help/fitted.nlmeStruct
 lib/R/library/nlme/help/fixed.effects
 lib/R/library/nlme/help/fixef.lmList
-lib/R/library/nlme/help/fixef.lme
-lib/R/library/nlme/help/formula.corStruct
-lib/R/library/nlme/help/formula.gls
-lib/R/library/nlme/help/formula.gnls
-lib/R/library/nlme/help/formula.groupedData
-lib/R/library/nlme/help/formula.lmList
-lib/R/library/nlme/help/formula.lme
-lib/R/library/nlme/help/formula.modelStruct
-lib/R/library/nlme/help/formula.nlme
-lib/R/library/nlme/help/formula.nlsList
 lib/R/library/nlme/help/formula.pdBlocked
 lib/R/library/nlme/help/formula.pdMat
 lib/R/library/nlme/help/formula.reStruct
-lib/R/library/nlme/help/formula.varFunc
 lib/R/library/nlme/help/gapply
 lib/R/library/nlme/help/getCovariate
 lib/R/library/nlme/help/getCovariate.corStruct
@@ -5780,10 +5729,6 @@ lib/R/library/nlme/help/getGroups.lme
 lib/R/library/nlme/help/getGroups.varFunc
 lib/R/library/nlme/help/getGroupsFormula
 lib/R/library/nlme/help/getResponse
-lib/R/library/nlme/help/getResponse.data.frame
-lib/R/library/nlme/help/getResponse.gls
-lib/R/library/nlme/help/getResponse.lmList
-lib/R/library/nlme/help/getResponse.lme
 lib/R/library/nlme/help/getResponseFormula
 lib/R/library/nlme/help/getVarCov
 lib/R/library/nlme/help/gls
@@ -5802,7 +5747,6 @@ lib/R/library/nlme/help/intervals.lmList
 lib/R/library/nlme/help/intervals.lme
 lib/R/library/nlme/help/isBalanced
 lib/R/library/nlme/help/isInitialized
-lib/R/library/nlme/help/isInitialized.reStruct
 lib/R/library/nlme/help/lmList
 lib/R/library/nlme/help/lmList.groupedData
 lib/R/library/nlme/help/lme
@@ -5817,7 +5761,6 @@ lib/R/library/nlme/help/logDet.corStruct
 lib/R/library/nlme/help/logDet.pdMat
 lib/R/library/nlme/help/logDet.reStruct
 lib/R/library/nlme/help/logLik.corStruct
-lib/R/library/nlme/help/logLik.gls
 lib/R/library/nlme/help/logLik.glsStruct
 lib/R/library/nlme/help/logLik.gnls
 lib/R/library/nlme/help/logLik.gnlsStruct
@@ -5830,7 +5773,6 @@ lib/R/library/nlme/help/model.matrix.reStruct
 lib/R/library/nlme/help/needUpdate
 lib/R/library/nlme/help/needUpdate.modelStruct
 lib/R/library/nlme/help/nlme
-lib/R/library/nlme/help/nlme-internal
 lib/R/library/nlme/help/nlme.nlsList
 lib/R/library/nlme/help/nlmeControl
 lib/R/library/nlme/help/nlmeObject
@@ -5875,24 +5817,8 @@ lib/R/library/nlme/help/predict.gnls
 lib/R/library/nlme/help/predict.lmList
 lib/R/library/nlme/help/predict.lme
 lib/R/library/nlme/help/predict.nlme
-lib/R/library/nlme/help/print.anova.lme
-lib/R/library/nlme/help/print.corStruct
-lib/R/library/nlme/help/print.gls
-lib/R/library/nlme/help/print.groupedData
-lib/R/library/nlme/help/print.lmList
-lib/R/library/nlme/help/print.lme
-lib/R/library/nlme/help/print.modelStruct
-lib/R/library/nlme/help/print.pdMat
-lib/R/library/nlme/help/print.reStruct
-lib/R/library/nlme/help/print.summary.corStruct
-lib/R/library/nlme/help/print.summary.gls
-lib/R/library/nlme/help/print.summary.lmList
-lib/R/library/nlme/help/print.summary.lme
-lib/R/library/nlme/help/print.summary.modelStruct
 lib/R/library/nlme/help/print.summary.pdMat
-lib/R/library/nlme/help/print.summary.varFunc
 lib/R/library/nlme/help/print.varFunc
-lib/R/library/nlme/help/pruneLevels
 lib/R/library/nlme/help/qqnorm.gls
 lib/R/library/nlme/help/qqnorm.lme
 lib/R/library/nlme/help/quinModel
@@ -5970,10 +5896,6 @@ lib/R/library/nlme/html/Initialize.lmeStruct.html
 lib/R/library/nlme/html/Initialize.reStruct.html
 lib/R/library/nlme/html/Initialize.varFunc.html
 lib/R/library/nlme/html/LDEsysMat.html
-lib/R/library/nlme/html/MEEM.html
-lib/R/library/nlme/html/MEdecomp.html
-lib/R/library/nlme/html/MEdims.html
-lib/R/library/nlme/html/MEestimate.html
 lib/R/library/nlme/html/Machines.html
 lib/R/library/nlme/html/MathAchSchool.html
 lib/R/library/nlme/html/MathAchieve.html
@@ -6032,14 +5954,10 @@ lib/R/library/nlme/html/augPred.html
 lib/R/library/nlme/html/balancedGrouped.html
 lib/R/library/nlme/html/bdf.html
 lib/R/library/nlme/html/coef.corStruct.html
-lib/R/library/nlme/html/coef.gls.html
 lib/R/library/nlme/html/coef.gnls.html
 lib/R/library/nlme/html/coef.lmList.html
 lib/R/library/nlme/html/coef.lme.html
 lib/R/library/nlme/html/coef.modelStruct.html
-lib/R/library/nlme/html/coef.pdCompSymm.html
-lib/R/library/nlme/html/coef.pdDiag.html
-lib/R/library/nlme/html/coef.pdIdent.html
 lib/R/library/nlme/html/coef.pdMat.html
 lib/R/library/nlme/html/coef.reStruct.html
 lib/R/library/nlme/html/coef.varFunc.html
@@ -6069,9 +5987,7 @@ lib/R/library/nlme/html/corSpher.html
 lib/R/library/nlme/html/corSymm.html
 lib/R/library/nlme/html/ergoStool.html
 lib/R/library/nlme/html/fdHess.html
-lib/R/library/nlme/html/fitted.gls.html
 lib/R/library/nlme/html/fitted.glsStruct.html
-lib/R/library/nlme/html/fitted.gnls.html
 lib/R/library/nlme/html/fitted.gnlsStruct.html
 lib/R/library/nlme/html/fitted.lmList.html
 lib/R/library/nlme/html/fitted.lme.html
@@ -6079,20 +5995,9 @@ lib/R/library/nlme/html/fitted.lmeStruct.html
 lib/R/library/nlme/html/fitted.nlmeStruct.html
 lib/R/library/nlme/html/fixed.effects.html
 lib/R/library/nlme/html/fixef.lmList.html
-lib/R/library/nlme/html/fixef.lme.html
-lib/R/library/nlme/html/formula.corStruct.html
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 lib/R/library/nlme/scripts/ch06.R
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 lib/R/library/survival/R-ex/survexp.R
 lib/R/library/survival/R-ex/survfit.R
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 lib/R/library/survival/data/aml.rda
 lib/R/library/survival/data/bladder.rda
 lib/R/library/survival/data/cancer.rda
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 lib/R/library/survival/help/summary.survfit
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 lib/R/library/survival/help/survdiff
 lib/R/library/survival/help/survexp
 lib/R/library/survival/help/survexp.fit
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 lib/R/library/survival/html/stanford2.html
 lib/R/library/survival/html/strata.html
 lib/R/library/survival/html/summary.survfit.html
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 lib/R/library/survival/html/survdiff.html
 lib/R/library/survival/html/survexp.fit.html
 lib/R/library/survival/html/survexp.html
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 lib/R/library/survival/latex/survdiff.tex
 lib/R/library/survival/latex/survexp.fit.tex
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 @dirrm lib/R/share/perl
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+@dirrm lib/R/doc/html/search
+@dirrm lib/R/doc/html
+@dirrm lib/R/doc
+@dirrm lib/R/bin
+@dirrm lib/R/afm
 @dirrm lib/R