Update R to 2.14.0

changes to many to list - see NEWS file in distribution for details.

1 files changed, 254 insertions, 158 deletions

diff --git a/math/R/PLIST b/math/R/PLIST
index dccdae46331..4dad158fcde 100644
--- a/math/R/PLIST
+++ b/math/R/PLIST
@@ -1,8 +1,9 @@
-@comment $NetBSD: PLIST,v 1.11 2010/05/06 07:33:40 adam Exp $
+@comment $NetBSD: PLIST,v 1.12 2011/11/20 04:57:03 markd Exp $
 bin/R
 bin/Rscript
 lib/R/COPYING
 lib/R/NEWS
+lib/R/NEWS.pdf
 lib/R/SVN-REVISION
 lib/R/bin/BATCH
 lib/R/bin/COMPILE
@@ -17,7 +18,6 @@ lib/R/bin/Rdiff
 lib/R/bin/Rprof
 lib/R/bin/Rscript
 lib/R/bin/SHLIB
-lib/R/bin/Sd2Rd
 lib/R/bin/Stangle
 lib/R/bin/Sweave
 lib/R/bin/build
@@ -32,15 +32,15 @@ lib/R/bin/pager
 lib/R/bin/rtags
 lib/R/doc/AUTHORS
 lib/R/doc/COPYING
-lib/R/doc/COPYING.LIB
 lib/R/doc/COPYRIGHTS
 lib/R/doc/CRAN_mirrors.csv
 lib/R/doc/FAQ
 lib/R/doc/KEYWORDS
 lib/R/doc/KEYWORDS.db
-lib/R/doc/NEWS
+lib/R/doc/NEWS.rds
 lib/R/doc/RESOURCES
 lib/R/doc/THANKS
+lib/R/doc/html/NEWS.html
 lib/R/doc/html/R.css
 lib/R/doc/html/Search.html
 lib/R/doc/html/SearchOn.html
@@ -54,13 +54,6 @@ lib/R/doc/html/packages-head-utf8.html
 lib/R/doc/html/resources.html
 lib/R/doc/html/right.jpg
 lib/R/doc/html/up.jpg
-lib/R/doc/manual/R-FAQ.html
-lib/R/doc/manual/R-admin.html
-lib/R/doc/manual/R-data.html
-lib/R/doc/manual/R-exts.html
-lib/R/doc/manual/R-intro.html
-lib/R/doc/manual/R-ints.html
-lib/R/doc/manual/R-lang.html
 lib/R/etc/Makeconf
 lib/R/etc/Renviron
 lib/R/etc/ldpaths
@@ -79,6 +72,7 @@ lib/R/include/R_ext/GraphicsDevice.h
 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/MathThreads.h
 lib/R/include/R_ext/Memory.h
 lib/R/include/R_ext/Parse.h
 lib/R/include/R_ext/Print.h
@@ -126,6 +120,7 @@ lib/R/library/KernSmooth/help/KernSmooth.rdx
 lib/R/library/KernSmooth/help/aliases.rds
 lib/R/library/KernSmooth/help/paths.rds
 lib/R/library/KernSmooth/html/00Index.html
+lib/R/library/KernSmooth/html/R.css
 lib/R/library/KernSmooth/libs/KernSmooth.so
 lib/R/library/KernSmooth/po/de/LC_MESSAGES/R-KernSmooth.mo
 lib/R/library/KernSmooth/po/en@quot/LC_MESSAGES/R-KernSmooth.mo
@@ -153,6 +148,7 @@ lib/R/library/MASS/help/MASS.rdx
 lib/R/library/MASS/help/aliases.rds
 lib/R/library/MASS/help/paths.rds
 lib/R/library/MASS/html/00Index.html
+lib/R/library/MASS/html/R.css
 lib/R/library/MASS/libs/MASS.so
 lib/R/library/MASS/po/de/LC_MESSAGES/R-MASS.mo
 lib/R/library/MASS/po/en@quot/LC_MESSAGES/R-MASS.mo
@@ -235,6 +231,7 @@ lib/R/library/Matrix/help/Matrix.rdx
 lib/R/library/Matrix/help/aliases.rds
 lib/R/library/Matrix/help/paths.rds
 lib/R/library/Matrix/html/00Index.html
+lib/R/library/Matrix/html/R.css
 lib/R/library/Matrix/include/Matrix.h
 lib/R/library/Matrix/include/Matrix_stubs.c
 lib/R/library/Matrix/include/cholmod.h
@@ -243,8 +240,9 @@ lib/R/library/Matrix/po/de/LC_MESSAGES/Matrix.mo
 lib/R/library/Matrix/po/de/LC_MESSAGES/R-Matrix.mo
 lib/R/library/Matrix/po/en@quot/LC_MESSAGES/Matrix.mo
 lib/R/library/Matrix/po/en@quot/LC_MESSAGES/R-Matrix.mo
+lib/R/library/Matrix/test-tools-1.R
+lib/R/library/Matrix/test-tools-Matrix.R
 lib/R/library/Matrix/test-tools.R
-lib/R/library/R.css
 lib/R/library/base/CITATION
 lib/R/library/base/DESCRIPTION
 lib/R/library/base/INDEX
@@ -257,6 +255,7 @@ lib/R/library/base/R/Rprofile
 lib/R/library/base/R/base
 lib/R/library/base/R/base.rdb
 lib/R/library/base/R/base.rdx
+lib/R/library/base/demo/error.catching.R
 lib/R/library/base/demo/is.things.R
 lib/R/library/base/demo/recursion.R
 lib/R/library/base/demo/scoping.R
@@ -266,6 +265,7 @@ lib/R/library/base/help/base.rdb
 lib/R/library/base/help/base.rdx
 lib/R/library/base/help/paths.rds
 lib/R/library/base/html/00Index.html
+lib/R/library/base/html/R.css
 lib/R/library/base/po/de/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/en@quot/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/fr/LC_MESSAGES/R-base.mo
@@ -274,6 +274,7 @@ lib/R/library/base/po/ja/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/ko/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/pt_BR/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/ru/LC_MESSAGES/R-base.mo
+lib/R/library/base/po/tr/LC_MESSAGES/R-base.mo
 lib/R/library/base/po/zh_CN/LC_MESSAGES/R-base.mo
 lib/R/library/boot/CITATION
 lib/R/library/boot/DESCRIPTION
@@ -297,6 +298,7 @@ lib/R/library/boot/help/boot.rdb
 lib/R/library/boot/help/boot.rdx
 lib/R/library/boot/help/paths.rds
 lib/R/library/boot/html/00Index.html
+lib/R/library/boot/html/R.css
 lib/R/library/boot/po/de/LC_MESSAGES/R-boot.mo
 lib/R/library/boot/po/en@quot/LC_MESSAGES/R-boot.mo
 lib/R/library/boot/po/fr/LC_MESSAGES/R-boot.mo
@@ -321,6 +323,7 @@ lib/R/library/class/help/class.rdb
 lib/R/library/class/help/class.rdx
 lib/R/library/class/help/paths.rds
 lib/R/library/class/html/00Index.html
+lib/R/library/class/html/R.css
 lib/R/library/class/libs/class.so
 lib/R/library/class/po/de/LC_MESSAGES/R-class.mo
 lib/R/library/class/po/en@quot/LC_MESSAGES/R-class.mo
@@ -347,7 +350,10 @@ lib/R/library/cluster/help/cluster.rdb
 lib/R/library/cluster/help/cluster.rdx
 lib/R/library/cluster/help/paths.rds
 lib/R/library/cluster/html/00Index.html
+lib/R/library/cluster/html/R.css
 lib/R/library/cluster/libs/cluster.so
+lib/R/library/cluster/po/de/LC_MESSAGES/R-cluster.mo
+lib/R/library/cluster/po/en@quot/LC_MESSAGES/R-cluster.mo
 lib/R/library/codetools/DESCRIPTION
 lib/R/library/codetools/INDEX
 lib/R/library/codetools/Meta/Rd.rds
@@ -365,14 +371,40 @@ lib/R/library/codetools/help/codetools.rdb
 lib/R/library/codetools/help/codetools.rdx
 lib/R/library/codetools/help/paths.rds
 lib/R/library/codetools/html/00Index.html
+lib/R/library/codetools/html/R.css
+lib/R/library/compiler/DESCRIPTION
+lib/R/library/compiler/INDEX
+lib/R/library/compiler/Meta/Rd.rds
+lib/R/library/compiler/Meta/hsearch.rds
+lib/R/library/compiler/Meta/links.rds
+lib/R/library/compiler/Meta/nsInfo.rds
+lib/R/library/compiler/Meta/package.rds
+lib/R/library/compiler/NAMESPACE
+lib/R/library/compiler/R/compiler
+lib/R/library/compiler/R/compiler.rdb
+lib/R/library/compiler/R/compiler.rdx
+lib/R/library/compiler/help/AnIndex
+lib/R/library/compiler/help/aliases.rds
+lib/R/library/compiler/help/compiler.rdb
+lib/R/library/compiler/help/compiler.rdx
+lib/R/library/compiler/help/paths.rds
+lib/R/library/compiler/html/00Index.html
+lib/R/library/compiler/html/R.css
+lib/R/library/compiler/po/de/LC_MESSAGES/R-compiler.mo
+lib/R/library/compiler/po/en@quot/LC_MESSAGES/R-compiler.mo
+lib/R/library/compiler/po/fr/LC_MESSAGES/R-compiler.mo
+lib/R/library/compiler/po/ja/LC_MESSAGES/R-compiler.mo
+lib/R/library/compiler/po/pt_BR/LC_MESSAGES/R-compiler.mo
+lib/R/library/compiler/po/ru/LC_MESSAGES/R-compiler.mo
 lib/R/library/datasets/DESCRIPTION
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 lib/R/library/datasets/Meta/hsearch.rds
 lib/R/library/datasets/Meta/links.rds
+lib/R/library/datasets/Meta/nsInfo.rds
 lib/R/library/datasets/Meta/package.rds
-lib/R/library/datasets/R/datasets
+lib/R/library/datasets/NAMESPACE
 lib/R/library/datasets/data/Rdata.rdb
 lib/R/library/datasets/data/Rdata.rds
 lib/R/library/datasets/data/Rdata.rdx
@@ -383,7 +415,7 @@ lib/R/library/datasets/help/datasets.rdb
 lib/R/library/datasets/help/datasets.rdx
 lib/R/library/datasets/help/paths.rds
 lib/R/library/datasets/html/00Index.html
-lib/R/library/foreign/COPYING
+lib/R/library/datasets/html/R.css
 lib/R/library/foreign/DESCRIPTION
 lib/R/library/foreign/INDEX
 lib/R/library/foreign/LICENCE
@@ -405,6 +437,7 @@ lib/R/library/foreign/help/foreign.rdb
 lib/R/library/foreign/help/foreign.rdx
 lib/R/library/foreign/help/paths.rds
 lib/R/library/foreign/html/00Index.html
+lib/R/library/foreign/html/R.css
 lib/R/library/foreign/libs/foreign.so
 lib/R/library/foreign/po/de/LC_MESSAGES/R-foreign.mo
 lib/R/library/foreign/po/de/LC_MESSAGES/foreign.mo
@@ -423,95 +456,95 @@ lib/R/library/grDevices/NAMESPACE
 lib/R/library/grDevices/R/grDevices
 lib/R/library/grDevices/R/grDevices.rdb
 lib/R/library/grDevices/R/grDevices.rdx
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 lib/R/library/grDevices/enc/AdobeStd.enc
 lib/R/library/grDevices/enc/AdobeSym.enc
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@@ -536,6 +569,10 @@ lib/R/library/grDevices/help/grDevices.rdb
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 lib/R/library/grDevices/help/paths.rds
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+lib/R/library/grDevices/html/R.css
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 lib/R/library/stats/po/de/LC_MESSAGES/stats.mo
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 lib/R/library/stats/po/zh_CN/LC_MESSAGES/stats.mo
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 lib/R/library/stats4/help/stats4.rdb
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 lib/R/library/tcltk/DESCRIPTION
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 lib/R/library/tcltk/po/de/LC_MESSAGES/tcltk.mo
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 lib/R/library/tcltk/po/ru/LC_MESSAGES/R-tcltk.mo
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 lib/R/share/R/tests-startup.R
 lib/R/share/encodings/Adobe-glyphlist
 lib/R/share/encodings/character-sets
+lib/R/share/java/README
 lib/R/share/java/getsp.class
 lib/R/share/licenses/AGPL-3
 lib/R/share/licenses/Artistic-1.0
@@ -1192,29 +1286,31 @@ lib/R/share/locale/ko/LC_MESSAGES/R.mo
 lib/R/share/locale/nn/LC_MESSAGES/R.mo
 lib/R/share/locale/pt_BR/LC_MESSAGES/R.mo
 lib/R/share/locale/ru/LC_MESSAGES/R.mo
+lib/R/share/locale/tr/LC_MESSAGES/R.mo
 lib/R/share/locale/zh_CN/LC_MESSAGES/R.mo
 lib/R/share/locale/zh_TW/LC_MESSAGES/R.mo
 lib/R/share/make/basepkg.mk
 lib/R/share/make/check.mk
 lib/R/share/make/clean.mk
 lib/R/share/make/config.mk
+lib/R/share/make/lazycomp.mk
 lib/R/share/make/shlib.mk
 lib/R/share/make/vars.mk
 lib/R/share/make/winshlib.mk
-lib/R/share/perl/File/Copy/Recursive.pm
-lib/R/share/perl/R/Dcf.pm
-lib/R/share/perl/R/Logfile.pm
-lib/R/share/perl/R/Utils.pm
-lib/R/share/perl/R/Vars.pm
 lib/R/share/sh/echo.sh
-lib/R/share/texmf/Rd.sty
-lib/R/share/texmf/Sweave.sty
-lib/R/share/texmf/omsaer.fd
-lib/R/share/texmf/omsaett.fd
-lib/R/share/texmf/omscmtt.fd
-lib/R/share/texmf/ts1aer.fd
-lib/R/share/texmf/ts1aett.fd
-lib/R/share/texmf/upquote.sty
+lib/R/share/texmf/bibtex/bib/RJournal.bib
+lib/R/share/texmf/bibtex/bib/Rnews.bib
+lib/R/share/texmf/bibtex/bst/jss.bst
+lib/R/share/texmf/tex/latex/Rd.sty
+lib/R/share/texmf/tex/latex/Sweave.sty
+lib/R/share/texmf/tex/latex/jss.cls
+lib/R/share/texmf/tex/latex/omsaer.fd
+lib/R/share/texmf/tex/latex/omsaett.fd
+lib/R/share/texmf/tex/latex/omscmtt.fd
+lib/R/share/texmf/tex/latex/ts1aer.fd
+lib/R/share/texmf/tex/latex/ts1aett.fd
+lib/R/share/texmf/tex/latex/upquote.sty
 lib/pkgconfig/libR.pc
 man/man1/R.1
 man/man1/Rscript.1
+@pkgdir lib/R/doc/manual