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[pkgsrc/trunk]: pkgsrc/math/R Changes 2.10.0:
details: https://anonhg.NetBSD.org/pkgsrc/rev/bebe9d2ac02d
branches: trunk
changeset: 568360:bebe9d2ac02d
user: adam <adam%pkgsrc.org@localhost>
date: Fri Dec 11 18:53:40 2009 +0000
description:
Changes 2.10.0:
* Package help is now converted from Rd by the R-based converters
that were first introduced in 2.9.0.
* HTML help is now generated dynamically using an HTTP server
running in the R process and listening on the loopback interface.
* polygon(), pdf() and postscript() now have a parameter
'fillOddEven' (default FALSE), which controls the mode used for
polygon fills of self-intersecting shapes.
* New debugonce() function; further,
getOption("deparse.max.lines") is now observed when debugging.
* plot() methods for "stepfun" and hence "ecdf" no longer plot
points by default for n >= 1000.
* [g]sub(*, perl=TRUE) now also supports '\E' in order to *end*
\U and \L case changes, thanks to a patch from Bill Dunlap.
* factor(), `levels<-`(), etc, now ensure that the resulting factor
levels are unique (as was always the implied intention). Factors
with duplicated levels are still constructible by low-level means,
but are now declared illegal.
* New print() (S3) method for class "function", also used for
auto-printing. Further, .Primitive functions now print and
auto-print identically.
* The print() and toLatex() methods for class "sessionInfo" now
show the locale in a nicer format and have arguments to
suppress locale information.
* In addition to previously only round(), there are other 'Math'
group (S3) methods for 'difftime', such as floor(), signif(), abs(), etc.
* For completeness, old.packages() and available.packages() allow
'type' to be specified (you could always specify 'available'
or 'contriburl').
* More...
diffstat:
math/R/Makefile | 20 +-
math/R/PLIST | 8109 +---------------------------------------------
math/R/distinfo | 15 +-
math/R/patches/patch-ab | 6 +-
math/R/patches/patch-ac | 24 +-
math/R/patches/patch-ad | 14 +-
6 files changed, 290 insertions(+), 7898 deletions(-)
diffs (truncated from 8962 to 300 lines):
diff -r eedf23749ca4 -r bebe9d2ac02d math/R/Makefile
--- a/math/R/Makefile Fri Dec 11 18:10:56 2009 +0000
+++ b/math/R/Makefile Fri Dec 11 18:53:40 2009 +0000
@@ -1,7 +1,6 @@
-# $NetBSD: Makefile,v 1.103 2009/12/03 13:06:53 asau Exp $
+# $NetBSD: Makefile,v 1.104 2009/12/11 18:53:40 adam Exp $
-DISTNAME= R-2.7.2
-PKGREVISION= 3
+DISTNAME= R-2.10.0
CATEGORIES= math
MASTER_SITES= ${MASTER_SITE_R_CRAN:=base/R-2/}
@@ -20,7 +19,7 @@
USE_TOOLS+= gmake gzip:run makeinfo perl:run sed unzip:run xmkmf
USE_GNU_READLINE= yes # uses callback interface
USE_GNU_ICONV= yes # latin1 support, iconvlist
-USE_LANGUAGES= c fortran
+USE_LANGUAGES= c c++ fortran
USE_LIBTOOL= yes
TEXINFO_REQD= 4.7
@@ -35,14 +34,15 @@
CONFIGURE_ARGS+= --with-system-zlib
CONFIGURE_ARGS+= --with-system-bzlib
CONFIGURE_ARGS+= --with-system-pcre
+CONFIGURE_ARGS+= --with-system-xz
# Disable Mac OS specific support used by R.app
CONFIGURE_ARGS+= --disable-R-framework
CONFIGURE_ARGS+= --without-aqua
# Use BLAS (math/blas)
-#
CONFIGURE_ARGS+= --without-atlas
+CONFIGURE_ARGS+= --disable-BLAS-shlib
CONFIGURE_ARGS+= --with-blas
CONFIGURE_ARGS+= --without-blas_risc
CONFIGURE_ARGS+= --without-dxml
@@ -57,10 +57,10 @@
# Broken test for bzlib >= 1.0.5 in R 2.7.0
CONFIGURE_ENV+= r_cv_have_bzlib=yes
-CONFIGURE_ENV+= GETWD=${TOOLS_PWD_CMD:Q}
+CONFIGURE_ENV+= GETWD=${TOOLS_PWD_CMD}
CONFIGURE_ENV+= lt_cv_path_LD=${LD:Q}
-CONFIGURE_ENV+= lt_cv_path_SED=${TOOLS_SED:Q}
-CONFIGURE_ENV+= ac_cv_path_R_GZIPCMD=${TOOLS_GZIP_CMD:Q}
+CONFIGURE_ENV+= lt_cv_path_SED=${TOOLS_SED}
+CONFIGURE_ENV+= ac_cv_path_R_GZIPCMD=${TOOLS_GZIP_CMD}
CONFIGURE_ENV+= ac_cv_path_R_UNZIPCMD=${TOOLS_PATH.unzip}
# Package assumes it can append to files (specifically DESCRIPTION) that have
@@ -70,7 +70,6 @@
.include "../../mk/bsd.prefs.mk"
# R_PAPERSIZE can be: A4, Letter, Legal, Executive
-#
.if defined(PAPERSIZE)
R_PAPERSIZE?= ${PAPERSIZE}
.else
@@ -82,7 +81,6 @@
CONFIGURE_ENV+= R_PAPERSIZE=${R_PAPERSIZE:Q}
# These macros are used during the build, so strip off the -o,-g flags.
-#
INSTALL_DATA= ${INSTALL} ${COPY} -m ${SHAREMODE}
INSTALL_SCRIPT= ${INSTALL} ${COPY} -m ${BINMODE}
@@ -94,11 +92,13 @@
.endif
.include "../../archivers/bzip2/buildlink3.mk"
+.include "../../archivers/xz/buildlink3.mk"
.include "../../converters/libiconv/buildlink3.mk"
.include "../../devel/gettext-lib/buildlink3.mk"
.include "../../devel/pcre/buildlink3.mk"
.include "../../devel/readline/buildlink3.mk"
.include "../../devel/zlib/buildlink3.mk"
+.include "../../graphics/cairo/buildlink3.mk"
.include "../../graphics/jpeg/buildlink3.mk"
.include "../../graphics/png/buildlink3.mk"
.include "../../graphics/tiff/buildlink3.mk"
diff -r eedf23749ca4 -r bebe9d2ac02d math/R/PLIST
--- a/math/R/PLIST Fri Dec 11 18:10:56 2009 +0000
+++ b/math/R/PLIST Fri Dec 11 18:53:40 2009 +0000
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.9 2009/06/14 18:05:41 joerg Exp $
+@comment $NetBSD: PLIST,v 1.10 2009/12/11 18:53:40 adam Exp $
bin/R
bin/Rscript
lib/R/COPYING
@@ -12,7 +12,6 @@
lib/R/bin/REMOVE
lib/R/bin/Rcmd
lib/R/bin/Rd2dvi
-lib/R/bin/Rd2txt
lib/R/bin/Rdconv
lib/R/bin/Rdiff
lib/R/bin/Rprof
@@ -30,6 +29,7 @@
lib/R/bin/libtool
lib/R/bin/mkinstalldirs
lib/R/bin/pager
+lib/R/bin/rtags
lib/R/doc/AUTHORS
lib/R/doc/COPYING
lib/R/doc/COPYING.LIB
@@ -42,26 +42,17 @@
lib/R/doc/RESOURCES
lib/R/doc/THANKS
lib/R/doc/html/R.css
+lib/R/doc/html/Search.html
+lib/R/doc/html/SearchOn.html
lib/R/doc/html/about.html
+lib/R/doc/html/favicon.ico
lib/R/doc/html/index.html
lib/R/doc/html/left.jpg
lib/R/doc/html/logo.jpg
lib/R/doc/html/logosm.jpg
lib/R/doc/html/packages-head-utf8.html
-lib/R/doc/html/packages-head.html
lib/R/doc/html/resources.html
lib/R/doc/html/right.jpg
-lib/R/doc/html/search/IndexEntry.class
-lib/R/doc/html/search/IndexStream.class
-lib/R/doc/html/search/IndexTable.class
-lib/R/doc/html/search/SearchEngine-foot.html
-lib/R/doc/html/search/SearchEngine-head.html
-lib/R/doc/html/search/SearchEngine.class
-lib/R/doc/html/search/SearchEngine.html
-lib/R/doc/html/search/SearchObject.html
-lib/R/doc/html/search/Tracer.class
-lib/R/doc/html/search/Value.class
-lib/R/doc/html/thanks.html
lib/R/doc/html/up.jpg
lib/R/doc/manual/R-FAQ.html
lib/R/doc/manual/R-admin.html
@@ -109,9 +100,7 @@
lib/R/include/R_ext/stats_stubs.h
lib/R/include/Rconfig.h
lib/R/include/Rdefines.h
-lib/R/include/Rdevices.h
lib/R/include/Rembedded.h
-lib/R/include/Rgraphics.h
lib/R/include/Rinterface.h
lib/R/include/Rinternals.h
lib/R/include/Rmath.h
@@ -119,623 +108,53 @@
lib/R/include/S.h
lib/R/lib/libR.so
lib/R/lib/libRlapack.so
-lib/R/library/KernSmooth/CONTENTS
lib/R/library/KernSmooth/DESCRIPTION
lib/R/library/KernSmooth/INDEX
lib/R/library/KernSmooth/LICENCE
lib/R/library/KernSmooth/Meta/Rd.rds
lib/R/library/KernSmooth/Meta/hsearch.rds
+lib/R/library/KernSmooth/Meta/links.rds
lib/R/library/KernSmooth/Meta/nsInfo.rds
lib/R/library/KernSmooth/Meta/package.rds
lib/R/library/KernSmooth/NAMESPACE
-lib/R/library/KernSmooth/R-ex/bkde.R
-lib/R/library/KernSmooth/R-ex/bkde2D.R
-lib/R/library/KernSmooth/R-ex/bkfe.R
-lib/R/library/KernSmooth/R-ex/dpih.R
-lib/R/library/KernSmooth/R-ex/dpik.R
-lib/R/library/KernSmooth/R-ex/dpill.R
-lib/R/library/KernSmooth/R-ex/locpoly.R
lib/R/library/KernSmooth/R/KernSmooth
lib/R/library/KernSmooth/R/KernSmooth.rdb
lib/R/library/KernSmooth/R/KernSmooth.rdx
lib/R/library/KernSmooth/help/AnIndex
-lib/R/library/KernSmooth/help/bkde
-lib/R/library/KernSmooth/help/bkde2D
-lib/R/library/KernSmooth/help/bkfe
-lib/R/library/KernSmooth/help/dpih
-lib/R/library/KernSmooth/help/dpik
-lib/R/library/KernSmooth/help/dpill
-lib/R/library/KernSmooth/help/locpoly
+lib/R/library/KernSmooth/help/KernSmooth.rdb
+lib/R/library/KernSmooth/help/KernSmooth.rdx
+lib/R/library/KernSmooth/help/aliases.rds
+lib/R/library/KernSmooth/help/paths.rds
lib/R/library/KernSmooth/html/00Index.html
-lib/R/library/KernSmooth/html/bkde.html
-lib/R/library/KernSmooth/html/bkde2D.html
-lib/R/library/KernSmooth/html/bkfe.html
-lib/R/library/KernSmooth/html/dpih.html
-lib/R/library/KernSmooth/html/dpik.html
-lib/R/library/KernSmooth/html/dpill.html
-lib/R/library/KernSmooth/html/locpoly.html
-lib/R/library/KernSmooth/latex/bkde.tex
-lib/R/library/KernSmooth/latex/bkde2D.tex
-lib/R/library/KernSmooth/latex/bkfe.tex
-lib/R/library/KernSmooth/latex/dpih.tex
-lib/R/library/KernSmooth/latex/dpik.tex
-lib/R/library/KernSmooth/latex/dpill.tex
-lib/R/library/KernSmooth/latex/locpoly.tex
lib/R/library/KernSmooth/libs/KernSmooth.so
-lib/R/library/KernSmooth/man/KernSmooth.Rd.gz
+lib/R/library/KernSmooth/po/de/LC_MESSAGES/R-KernSmooth.mo
+lib/R/library/KernSmooth/po/en@quot/LC_MESSAGES/R-KernSmooth.mo
lib/R/library/MASS/CITATION
-lib/R/library/MASS/CONTENTS
lib/R/library/MASS/DESCRIPTION
lib/R/library/MASS/INDEX
lib/R/library/MASS/LICENCE
lib/R/library/MASS/Meta/Rd.rds
lib/R/library/MASS/Meta/data.rds
lib/R/library/MASS/Meta/hsearch.rds
+lib/R/library/MASS/Meta/links.rds
lib/R/library/MASS/Meta/nsInfo.rds
lib/R/library/MASS/Meta/package.rds
lib/R/library/MASS/NAMESPACE
lib/R/library/MASS/NEWS
-lib/R/library/MASS/R-ex/Insurance.R
-lib/R/library/MASS/R-ex/Null.R
-lib/R/library/MASS/R-ex/OME.R
-lib/R/library/MASS/R-ex/Skye.R
-lib/R/library/MASS/R-ex/addterm.R
-lib/R/library/MASS/R-ex/anova.negbin.R
-lib/R/library/MASS/R-ex/area.R
-lib/R/library/MASS/R-ex/bacteria.R
-lib/R/library/MASS/R-ex/bandwidth.nrd.R
-lib/R/library/MASS/R-ex/bcv.R
-lib/R/library/MASS/R-ex/beav1.R
-lib/R/library/MASS/R-ex/beav2.R
-lib/R/library/MASS/R-ex/birthwt.R
-lib/R/library/MASS/R-ex/boxcox.R
-lib/R/library/MASS/R-ex/caith.R
-lib/R/library/MASS/R-ex/cement.R
-lib/R/library/MASS/R-ex/confint.R
-lib/R/library/MASS/R-ex/contr.sdif.R
-lib/R/library/MASS/R-ex/corresp.R
-lib/R/library/MASS/R-ex/cov.rob.R
-lib/R/library/MASS/R-ex/cov.trob.R
-lib/R/library/MASS/R-ex/denumerate.R
-lib/R/library/MASS/R-ex/dose.p.R
-lib/R/library/MASS/R-ex/dropterm.R
-lib/R/library/MASS/R-ex/eagles.R
-lib/R/library/MASS/R-ex/epil.R
-lib/R/library/MASS/R-ex/farms.R
-lib/R/library/MASS/R-ex/fitdistr.R
-lib/R/library/MASS/R-ex/fractions.R
-lib/R/library/MASS/R-ex/galaxies.R
-lib/R/library/MASS/R-ex/gamma.shape.glm.R
-lib/R/library/MASS/R-ex/gehan.R
-lib/R/library/MASS/R-ex/ginv.R
-lib/R/library/MASS/R-ex/glm.convert.R
-lib/R/library/MASS/R-ex/glm.nb.R
-lib/R/library/MASS/R-ex/glmmPQL.R
-lib/R/library/MASS/R-ex/housing.R
-lib/R/library/MASS/R-ex/huber.R
-lib/R/library/MASS/R-ex/hubers.R
-lib/R/library/MASS/R-ex/immer.R
-lib/R/library/MASS/R-ex/isoMDS.R
-lib/R/library/MASS/R-ex/kde2d.R
-lib/R/library/MASS/R-ex/lda.R
-lib/R/library/MASS/R-ex/leuk.R
-lib/R/library/MASS/R-ex/lm.ridge.R
-lib/R/library/MASS/R-ex/loglm.R
-lib/R/library/MASS/R-ex/logtrans.R
-lib/R/library/MASS/R-ex/lqs.R
-lib/R/library/MASS/R-ex/mca.R
-lib/R/library/MASS/R-ex/menarche.R
-lib/R/library/MASS/R-ex/motors.R
-lib/R/library/MASS/R-ex/muscle.R
-lib/R/library/MASS/R-ex/mvrnorm.R
-lib/R/library/MASS/R-ex/negative.binomial.R
-lib/R/library/MASS/R-ex/nlschools.R
-lib/R/library/MASS/R-ex/npk.R
-lib/R/library/MASS/R-ex/oats.R
-lib/R/library/MASS/R-ex/parcoord.R
-lib/R/library/MASS/R-ex/petrol.R
-lib/R/library/MASS/R-ex/plot.mca.R
-lib/R/library/MASS/R-ex/plot.profile.R
-lib/R/library/MASS/R-ex/polr.R
-lib/R/library/MASS/R-ex/predict.glmmPQL.R
-lib/R/library/MASS/R-ex/predict.lda.R
-lib/R/library/MASS/R-ex/predict.lqs.R
-lib/R/library/MASS/R-ex/predict.qda.R
-lib/R/library/MASS/R-ex/profile.glm.R
-lib/R/library/MASS/R-ex/qda.R
-lib/R/library/MASS/R-ex/rational.R
-lib/R/library/MASS/R-ex/renumerate.R
-lib/R/library/MASS/R-ex/rlm.R
-lib/R/library/MASS/R-ex/rms.curv.R
-lib/R/library/MASS/R-ex/rnegbin.R
-lib/R/library/MASS/R-ex/sammon.R
-lib/R/library/MASS/R-ex/stepAIC.R
-lib/R/library/MASS/R-ex/summary.negbin.R
-lib/R/library/MASS/R-ex/summary.rlm.R
-lib/R/library/MASS/R-ex/theta.md.R
-lib/R/library/MASS/R-ex/ucv.R
-lib/R/library/MASS/R-ex/waders.R
-lib/R/library/MASS/R-ex/whiteside.R
-lib/R/library/MASS/R-ex/width.SJ.R
-lib/R/library/MASS/R-ex/wtloss.R
lib/R/library/MASS/R/MASS
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