[pkgsrc/trunk]: pkgsrc/math/R Update to 2.7.0

[markd <markd%pkgsrc.org@localhost>]

details:   https://anonhg.NetBSD.org/pkgsrc/rev/923c6b4ea4d8
branches:  trunk
changeset: 541841:923c6b4ea4d8
user:      markd <markd%pkgsrc.org@localhost>
date:      Sat Apr 26 02:39:27 2008 +0000

description:
Update to 2.7.0

SIGNIFICANT USER-VISIBLE CHANGES

    o   The default graphics device in non-interactive use is now
        pdf() rather than postscript().  [PDF viewers are now
        more widely available than PostScript viewers.]

        The default width and height for pdf() and bitmap() have been
        changed to 7 (inches) to match the screen devices.

    o   Most users of the X11() device will see a new device that has
        different fonts, anti-aliasing of lines and fonts and
        supports semi-transparent colours.

    o   Considerable efforts have been made to make the default output
        from graphics devices as similar as possible (and in
        particular close to that from postscript/pdf).  Many devices
        were misinterpreting 'pointsize' in some way, for example as
        being in device units (pixels) rather than in points.

    o   Packages which include graphics devices need to be re-installed
        for this version of R, with recently updated versions.

+ New features and bug fixes.

diffstat:

 math/R/Makefile         |   12 ++-
 math/R/PLIST            |  148 +++++++++++++++++++++++++++++---------
 math/R/distinfo         |   12 +-
 math/R/patches/patch-ac |  179 ++++++-----------------------------------------
 math/R/patches/patch-ad |   21 ++++-
 5 files changed, 165 insertions(+), 207 deletions(-)

diffs (truncated from 1151 to 300 lines):

diff -r bee1a3097067 -r 923c6b4ea4d8 math/R/Makefile
--- a/math/R/Makefile   Sat Apr 26 01:53:07 2008 +0000
+++ b/math/R/Makefile   Sat Apr 26 02:39:27 2008 +0000
@@ -1,6 +1,6 @@
-# $NetBSD: Makefile,v 1.96 2008/03/15 22:16:41 markd Exp $
+# $NetBSD: Makefile,v 1.97 2008/04/26 02:39:27 markd Exp $
 
-DISTNAME=              R-2.6.2
+DISTNAME=              R-2.7.0
 CATEGORIES=            math
 MASTER_SITES=          ${MASTER_SITE_R_CRAN:=base/R-2/}
 
@@ -47,6 +47,9 @@
 CONFIGURE_ENV+=                ac_cv_lib_blas_dgemm=yes
 CONFIGURE_ENV+=                ac_cv_lib_blas_dgemm_=yes
 
+# Broken test for bzlib >= 1.0.5 in R 2.7.0
+CONFIGURE_ENV+=                r_cv_have_bzlib=yes
+
 CONFIGURE_ENV+=                GETWD=${TOOLS_PWD_CMD:Q}
 CONFIGURE_ENV+=                lt_cv_path_LD=${LD:Q}
 CONFIGURE_ENV+=                lt_cv_path_SED=${TOOLS_SED:Q}
@@ -76,7 +79,8 @@
 INSTALL_DATA=          ${INSTALL} ${COPY} -m ${SHAREMODE}
 INSTALL_SCRIPT=                ${INSTALL} ${COPY} -m ${BINMODE}
 
-BUILDLINK_API_DEPENDS.zlib+= zlib>=1.2.1
+BUILDLINK_API_DEPENDS.zlib+= zlib>=1.2.3
+BUILDLINK_API_DEPENDS.bzip2+= bzip2>=1.0.5
 
 .if ${OPSYS} == "NetBSD" && !empty(OS_VERSION:M1.[0-6]*)
 CONFIGURE_ARGS+=       --enable-mbcs=no
@@ -90,6 +94,7 @@
 .include "../../devel/zlib/buildlink3.mk"
 .include "../../graphics/jpeg/buildlink3.mk"
 .include "../../graphics/png/buildlink3.mk"
+.include "../../graphics/tiff/buildlink3.mk"
 .include "../../math/blas/buildlink3.mk"
 .include "../../x11/libXt/buildlink3.mk"
 .include "../../x11/tk/buildlink3.mk"
@@ -99,4 +104,5 @@
 PRINT_PLIST_AWK+=      /^lib\/R\/doc\/html\/packages.html$$/ { next; }
 PRINT_PLIST_AWK+=      /^lib\/R\/doc\/html\/search\/index.txt$$/ { next; }
 
+.include "../../mk/pthread.buildlink3.mk"
 .include "../../mk/bsd.pkg.mk"
diff -r bee1a3097067 -r 923c6b4ea4d8 math/R/PLIST
--- a/math/R/PLIST      Sat Apr 26 01:53:07 2008 +0000
+++ b/math/R/PLIST      Sat Apr 26 02:39:27 2008 +0000
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.6 2008/03/15 22:16:41 markd Exp $
+@comment $NetBSD: PLIST,v 1.7 2008/04/26 02:39:27 markd Exp $
 bin/R
 bin/Rscript
 lib/R/COPYING
@@ -84,7 +84,6 @@
 lib/R/include/R_ext/Constants.h
 lib/R/include/R_ext/Error.h
 lib/R/include/R_ext/GetX11Image.h
-lib/R/include/R_ext/GraphicsBase.h
 lib/R/include/R_ext/GraphicsDevice.h
 lib/R/include/R_ext/GraphicsEngine.h
 lib/R/include/R_ext/Lapack.h
@@ -93,6 +92,7 @@
 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/QuartzDevice.h
 lib/R/include/R_ext/R-ftp-http.h
 lib/R/include/R_ext/RConverters.h
 lib/R/include/R_ext/RS.h
@@ -101,6 +101,7 @@
 lib/R/include/R_ext/Rdynload.h
 lib/R/include/R_ext/Riconv.h
 lib/R/include/R_ext/Utils.h
+lib/R/include/R_ext/Visibility.h
 lib/R/include/R_ext/eventloop.h
 lib/R/include/R_ext/libextern.h
 lib/R/include/R_ext/rlocale.h
@@ -982,6 +983,7 @@
 lib/R/library/base/R-ex/pos.to.env.R
 lib/R/library/base/R-ex/pretty.R
 lib/R/library/base/R-ex/print.R
+lib/R/library/base/R-ex/print.dataframe.R
 lib/R/library/base/R-ex/print.default.R
 lib/R/library/base/R-ex/prmatrix.R
 lib/R/library/base/R-ex/proc.time.R
@@ -1060,6 +1062,7 @@
 lib/R/library/base/R-ex/taskCallbackNames.R
 lib/R/library/base/R-ex/tempfile.R
 lib/R/library/base/R-ex/textconnections.R
+lib/R/library/base/R-ex/timezones.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
@@ -1071,6 +1074,7 @@
 lib/R/library/base/R-ex/unlist.R
 lib/R/library/base/R-ex/unname.R
 lib/R/library/base/R-ex/userhooks.R
+lib/R/library/base/R-ex/utf8Conversion.R
 lib/R/library/base/R-ex/vector.R
 lib/R/library/base/R-ex/warning.R
 lib/R/library/base/R-ex/warnings.R
@@ -1103,6 +1107,7 @@
 lib/R/library/base/help/Defunct
 lib/R/library/base/help/Deprecated
 lib/R/library/base/help/Encoding
+lib/R/library/base/help/EnvVar
 lib/R/library/base/help/Extract
 lib/R/library/base/help/Extract.data.frame
 lib/R/library/base/help/Extract.factor
@@ -1277,6 +1282,7 @@
 lib/R/library/base/help/hexmode
 lib/R/library/base/help/iconv
 lib/R/library/base/help/identical
+lib/R/library/base/help/identity
 lib/R/library/base/help/ifelse
 lib/R/library/base/help/integer
 lib/R/library/base/help/interaction
@@ -1449,6 +1455,7 @@
 lib/R/library/base/help/tempfile
 lib/R/library/base/help/textconnections
 lib/R/library/base/help/tilde
+lib/R/library/base/help/timezones
 lib/R/library/base/help/toString
 lib/R/library/base/help/trace
 lib/R/library/base/help/traceback
@@ -1490,6 +1497,7 @@
 lib/R/library/base/html/Defunct.html
 lib/R/library/base/html/Deprecated.html
 lib/R/library/base/html/Encoding.html
+lib/R/library/base/html/EnvVar.html
 lib/R/library/base/html/Extract.data.frame.html
 lib/R/library/base/html/Extract.factor.html
 lib/R/library/base/html/Extract.html
@@ -1664,6 +1672,7 @@
 lib/R/library/base/html/hexmode.html
 lib/R/library/base/html/iconv.html
 lib/R/library/base/html/identical.html
+lib/R/library/base/html/identity.html
 lib/R/library/base/html/ifelse.html
 lib/R/library/base/html/integer.html
 lib/R/library/base/html/interaction.html
@@ -1836,6 +1845,7 @@
 lib/R/library/base/html/tempfile.html
 lib/R/library/base/html/textconnections.html
 lib/R/library/base/html/tilde.html
+lib/R/library/base/html/timezones.html
 lib/R/library/base/html/toString.html
 lib/R/library/base/html/trace.html
 lib/R/library/base/html/traceback.html
@@ -1876,6 +1886,7 @@
 lib/R/library/base/latex/Defunct.tex
 lib/R/library/base/latex/Deprecated.tex
 lib/R/library/base/latex/Encoding.tex
+lib/R/library/base/latex/EnvVar.tex
 lib/R/library/base/latex/Extract.data.frame.tex
 lib/R/library/base/latex/Extract.factor.tex
 lib/R/library/base/latex/Extract.tex
@@ -2050,6 +2061,7 @@
 lib/R/library/base/latex/hexmode.tex
 lib/R/library/base/latex/iconv.tex
 lib/R/library/base/latex/identical.tex
+lib/R/library/base/latex/identity.tex
 lib/R/library/base/latex/ifelse.tex
 lib/R/library/base/latex/integer.tex
 lib/R/library/base/latex/interaction.tex
@@ -2222,6 +2234,7 @@
 lib/R/library/base/latex/tempfile.tex
 lib/R/library/base/latex/textconnections.tex
 lib/R/library/base/latex/tilde.tex
+lib/R/library/base/latex/timezones.tex
 lib/R/library/base/latex/toString.tex
 lib/R/library/base/latex/trace.tex
 lib/R/library/base/latex/traceback.tex
@@ -2259,6 +2272,7 @@
 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/zh_CN/LC_MESSAGES/R-base.mo
+lib/R/library/boot/CITATION
 lib/R/library/boot/CONTENTS
 lib/R/library/boot/DESCRIPTION
 lib/R/library/boot/INDEX
@@ -3341,6 +3355,7 @@
 lib/R/library/grDevices/R-ex/convertColor.R
 lib/R/library/grDevices/R-ex/dev.R
 lib/R/library/grDevices/R-ex/dev.interactive.R
+lib/R/library/grDevices/R-ex/dev.size.R
 lib/R/library/grDevices/R-ex/dev2.R
 lib/R/library/grDevices/R-ex/extendrange.R
 lib/R/library/grDevices/R-ex/getGraphicsEvent.R
@@ -3354,6 +3369,7 @@
 lib/R/library/grDevices/R-ex/palette.R
 lib/R/library/grDevices/R-ex/palettes.R
 lib/R/library/grDevices/R-ex/pdf.R
+lib/R/library/grDevices/R-ex/pdf.options.R
 lib/R/library/grDevices/R-ex/pictex.R
 lib/R/library/grDevices/R-ex/plotmath.R
 lib/R/library/grDevices/R-ex/png.R
@@ -3486,6 +3502,7 @@
 lib/R/library/grDevices/help/Type1Font
 lib/R/library/grDevices/help/as.graphicsAnnot
 lib/R/library/grDevices/help/boxplot.stats
+lib/R/library/grDevices/help/cairo
 lib/R/library/grDevices/help/check.options
 lib/R/library/grDevices/help/chull
 lib/R/library/grDevices/help/cm
@@ -3496,8 +3513,10 @@
 lib/R/library/grDevices/help/convertColor
 lib/R/library/grDevices/help/dev
 lib/R/library/grDevices/help/dev.interactive
+lib/R/library/grDevices/help/dev.size
 lib/R/library/grDevices/help/dev2
 lib/R/library/grDevices/help/dev2bitmap
+lib/R/library/grDevices/help/devAskNewPage
 lib/R/library/grDevices/help/embedFonts
 lib/R/library/grDevices/help/extendrange
 lib/R/library/grDevices/help/getGraphicsEvent
@@ -3513,6 +3532,7 @@
 lib/R/library/grDevices/help/palette
 lib/R/library/grDevices/help/palettes
 lib/R/library/grDevices/help/pdf
+lib/R/library/grDevices/help/pdf.options
 lib/R/library/grDevices/help/pictex
 lib/R/library/grDevices/help/plotmath
 lib/R/library/grDevices/help/png
@@ -3525,6 +3545,7 @@
 lib/R/library/grDevices/help/recordplot
 lib/R/library/grDevices/help/rgb
 lib/R/library/grDevices/help/rgb2hsv
+lib/R/library/grDevices/help/savePlot
 lib/R/library/grDevices/help/trans3d
 lib/R/library/grDevices/help/x11
 lib/R/library/grDevices/help/x11Fonts
@@ -3539,6 +3560,7 @@
 lib/R/library/grDevices/html/Type1Font.html
 lib/R/library/grDevices/html/as.graphicsAnnot.html
 lib/R/library/grDevices/html/boxplot.stats.html
+lib/R/library/grDevices/html/cairo.html
 lib/R/library/grDevices/html/check.options.html
 lib/R/library/grDevices/html/chull.html
 lib/R/library/grDevices/html/cm.html
@@ -3549,8 +3571,10 @@
 lib/R/library/grDevices/html/convertColor.html
 lib/R/library/grDevices/html/dev.html
 lib/R/library/grDevices/html/dev.interactive.html
+lib/R/library/grDevices/html/dev.size.html
 lib/R/library/grDevices/html/dev2.html
 lib/R/library/grDevices/html/dev2bitmap.html
+lib/R/library/grDevices/html/devAskNewPage.html
 lib/R/library/grDevices/html/embedFonts.html
 lib/R/library/grDevices/html/extendrange.html
 lib/R/library/grDevices/html/getGraphicsEvent.html
@@ -3566,6 +3590,7 @@
 lib/R/library/grDevices/html/palette.html
 lib/R/library/grDevices/html/palettes.html
 lib/R/library/grDevices/html/pdf.html
+lib/R/library/grDevices/html/pdf.options.html
 lib/R/library/grDevices/html/pictex.html
 lib/R/library/grDevices/html/plotmath.html
 lib/R/library/grDevices/html/png.html
@@ -3578,6 +3603,7 @@
 lib/R/library/grDevices/html/recordplot.html
 lib/R/library/grDevices/html/rgb.html
 lib/R/library/grDevices/html/rgb2hsv.html
+lib/R/library/grDevices/html/savePlot.html
 lib/R/library/grDevices/html/trans3d.html
 lib/R/library/grDevices/html/x11.html
 lib/R/library/grDevices/html/x11Fonts.html
@@ -3591,6 +3617,7 @@
 lib/R/library/grDevices/latex/Type1Font.tex
 lib/R/library/grDevices/latex/as.graphicsAnnot.tex
 lib/R/library/grDevices/latex/boxplot.stats.tex
+lib/R/library/grDevices/latex/cairo.tex
 lib/R/library/grDevices/latex/check.options.tex
 lib/R/library/grDevices/latex/chull.tex
 lib/R/library/grDevices/latex/cm.tex
@@ -3600,9 +3627,11 @@
 lib/R/library/grDevices/latex/contourLines.tex
 lib/R/library/grDevices/latex/convertColor.tex
 lib/R/library/grDevices/latex/dev.interactive.tex
+lib/R/library/grDevices/latex/dev.size.tex
 lib/R/library/grDevices/latex/dev.tex
 lib/R/library/grDevices/latex/dev2.tex
 lib/R/library/grDevices/latex/dev2bitmap.tex
+lib/R/library/grDevices/latex/devAskNewPage.tex
 lib/R/library/grDevices/latex/embedFonts.tex
 lib/R/library/grDevices/latex/extendrange.tex
 lib/R/library/grDevices/latex/getGraphicsEvent.tex
@@ -3617,6 +3646,7 @@
 lib/R/library/grDevices/latex/nclass.tex
 lib/R/library/grDevices/latex/palette.tex
 lib/R/library/grDevices/latex/palettes.tex
+lib/R/library/grDevices/latex/pdf.options.tex
 lib/R/library/grDevices/latex/pdf.tex
 lib/R/library/grDevices/latex/pictex.tex
 lib/R/library/grDevices/latex/plotmath.tex
@@ -3630,6 +3660,7 @@
 lib/R/library/grDevices/latex/recordplot.tex
 lib/R/library/grDevices/latex/rgb.tex