[pkgsrc/trunk]: pkgsrc/math/R Update to R 2.6.2.

To: pkgsrc-changes-hg%NetBSD.org@localhost
Subject: [pkgsrc/trunk]: pkgsrc/math/R Update to R 2.6.2.
From: markd <markd%pkgsrc.org@localhost>
Date: Thu, 14 Oct 2021 05:54:26 +0000
details:   https://anonhg.NetBSD.org/pkgsrc/rev/acdb51858804
branches:  trunk
changeset: 539894:acdb51858804
user:      markd <markd%pkgsrc.org@localhost>
date:      Sat Mar 15 22:16:41 2008 +0000

description:
Update to R 2.6.2.

Changes are basically bugfixes.

pkgsrc changes:
  Don't bother patching configure.ac - it was only part of the changes
being made to configure so don't pretend you could use it to regerate
configure.
  Use -fPIC rather than -fpic for NetBSD powerpc.  Should fix PR 38032.

diffstat:

 math/R/Makefile         |   5 +--
 math/R/PLIST            |  37 +++++++++++++++++++++++++++++-----
 math/R/distinfo         |  11 ++++-----
 math/R/patches/patch-aa |  35 ---------------------------------
 math/R/patches/patch-ac |  51 ++++++++++++++++++++++++++----------------------
 5 files changed, 66 insertions(+), 73 deletions(-)

diffs (truncated from 489 to 300 lines):

diff -r bdbc55f5547b -r acdb51858804 math/R/Makefile
--- a/math/R/Makefile   Sat Mar 15 21:26:11 2008 +0000
+++ b/math/R/Makefile   Sat Mar 15 22:16:41 2008 +0000
@@ -1,7 +1,6 @@
-# $NetBSD: Makefile,v 1.95 2008/03/07 16:11:39 jlam Exp $
+# $NetBSD: Makefile,v 1.96 2008/03/15 22:16:41 markd Exp $
 
-DISTNAME=              R-2.6.0
-PKGREVISION=           2
+DISTNAME=              R-2.6.2
 CATEGORIES=            math
 MASTER_SITES=          ${MASTER_SITE_R_CRAN:=base/R-2/}
 
diff -r bdbc55f5547b -r acdb51858804 math/R/PLIST
--- a/math/R/PLIST      Sat Mar 15 21:26:11 2008 +0000
+++ b/math/R/PLIST      Sat Mar 15 22:16:41 2008 +0000
@@ -1,4 +1,4 @@
-@comment $NetBSD: PLIST,v 1.5 2007/11/03 20:14:39 markd Exp $
+@comment $NetBSD: PLIST,v 1.6 2008/03/15 22:16:41 markd Exp $
 bin/R
 bin/Rscript
 lib/R/COPYING
@@ -2568,6 +2568,7 @@
 lib/R/library/boot/man/boot.Rd.gz
 lib/R/library/boot/po/en@quot/LC_MESSAGES/R-boot.mo
 lib/R/library/boot/po/fr/LC_MESSAGES/R-boot.mo
+lib/R/library/boot/po/ru/LC_MESSAGES/R-boot.mo
 lib/R/library/class/CITATION
 lib/R/library/class/CONTENTS
 lib/R/library/class/DESCRIPTION
@@ -2594,6 +2595,8 @@
 lib/R/library/class/R-ex/olvq1.R
 lib/R/library/class/R-ex/reduce.nn.R
 lib/R/library/class/R/class
+lib/R/library/class/R/class.rdb
+lib/R/library/class/R/class.rdx
 lib/R/library/class/help/AnIndex
 lib/R/library/class/help/SOM
 lib/R/library/class/help/batchSOM
@@ -2868,7 +2871,6 @@
 lib/R/library/codetools/Meta/package.rds
 lib/R/library/codetools/NAMESPACE
 lib/R/library/codetools/R-ex/checkUsage.R
-lib/R/library/codetools/R-ex/codetools.R
 lib/R/library/codetools/R-ex/findGlobals.R
 lib/R/library/codetools/R-ex/showTree.R
 lib/R/library/codetools/R/codetools
@@ -3637,6 +3639,7 @@
 lib/R/library/grDevices/latex/xyz.coords.tex
 lib/R/library/grDevices/libs/grDevices.so
 lib/R/library/grDevices/man/grDevices.Rd.gz
+lib/R/library/grDevices/po/de/LC_MESSAGES/R-grDevices.mo
 lib/R/library/grDevices/po/en@quot/LC_MESSAGES/R-grDevices.mo
 lib/R/library/grDevices/po/en@quot/LC_MESSAGES/grDevices.mo
 lib/R/library/grDevices/po/en_GB/LC_MESSAGES/R-grDevices.mo
@@ -3929,6 +3932,7 @@
 lib/R/library/graphics/latex/xspline.tex
 lib/R/library/graphics/latex/zAxis.tex
 lib/R/library/graphics/man/graphics.Rd.gz
+lib/R/library/graphics/po/de/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/en@quot/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/fr/LC_MESSAGES/R-graphics.mo
 lib/R/library/graphics/po/it/LC_MESSAGES/R-graphics.mo
@@ -3962,7 +3966,6 @@
 lib/R/library/grid/R-ex/grid.frame.R
 lib/R/library/grid/R-ex/grid.get.R
 lib/R/library/grid/R-ex/grid.grab.R
-lib/R/library/grid/R-ex/grid.grob.R
 lib/R/library/grid/R-ex/grid.layout.R
 lib/R/library/grid/R-ex/grid.lines.R
 lib/R/library/grid/R-ex/grid.locator.R
@@ -4237,6 +4240,7 @@
 lib/R/library/grid/latex/xDetails.tex
 lib/R/library/grid/libs/grid.so
 lib/R/library/grid/man/grid.Rd.gz
+lib/R/library/grid/po/de/LC_MESSAGES/R-grid.mo
 lib/R/library/grid/po/en@quot/LC_MESSAGES/R-grid.mo
 lib/R/library/grid/po/en@quot/LC_MESSAGES/grid.mo
 lib/R/library/grid/po/fr/LC_MESSAGES/R-grid.mo
@@ -4287,6 +4291,7 @@
 lib/R/library/lattice/R-ex/qqmath.R
 lib/R/library/lattice/R-ex/rfs.R
 lib/R/library/lattice/R-ex/shingles.R
+lib/R/library/lattice/R-ex/simpleTheme.R
 lib/R/library/lattice/R-ex/singer.R
 lib/R/library/lattice/R-ex/splom.R
 lib/R/library/lattice/R-ex/strip.default.R
@@ -4301,6 +4306,7 @@
 lib/R/library/lattice/data/Rdata.rds
 lib/R/library/lattice/data/Rdata.rdx
 lib/R/library/lattice/demo/intervals.R
+lib/R/library/lattice/demo/labels.R
 lib/R/library/lattice/demo/lattice.R
 lib/R/library/lattice/demo/panel.R
 lib/R/library/lattice/help/AnIndex
@@ -4353,6 +4359,7 @@
 lib/R/library/lattice/help/rfs
 lib/R/library/lattice/help/shingles
 lib/R/library/lattice/help/simpleKey
+lib/R/library/lattice/help/simpleTheme
 lib/R/library/lattice/help/singer
 lib/R/library/lattice/help/splom
 lib/R/library/lattice/help/strip.default
@@ -4413,6 +4420,7 @@
 lib/R/library/lattice/html/rfs.html
 lib/R/library/lattice/html/shingles.html
 lib/R/library/lattice/html/simpleKey.html
+lib/R/library/lattice/html/simpleTheme.html
 lib/R/library/lattice/html/singer.html
 lib/R/library/lattice/html/splom.html
 lib/R/library/lattice/html/strip.default.html
@@ -4472,6 +4480,7 @@
 lib/R/library/lattice/latex/rfs.tex
 lib/R/library/lattice/latex/shingles.tex
 lib/R/library/lattice/latex/simpleKey.tex
+lib/R/library/lattice/latex/simpleTheme.tex
 lib/R/library/lattice/latex/singer.tex
 lib/R/library/lattice/latex/splom.tex
 lib/R/library/lattice/latex/strip.default.tex
@@ -4708,6 +4717,8 @@
 lib/R/library/methods/latex/zBasicFunsList.tex
 lib/R/library/methods/libs/methods.so
 lib/R/library/methods/man/methods.Rd.gz
+lib/R/library/methods/po/de/LC_MESSAGES/R-methods.mo
+lib/R/library/methods/po/de/LC_MESSAGES/methods.mo
 lib/R/library/methods/po/en@quot/LC_MESSAGES/R-methods.mo
 lib/R/library/methods/po/en@quot/LC_MESSAGES/methods.mo
 lib/R/library/methods/po/fr/LC_MESSAGES/R-methods.mo
@@ -5141,7 +5152,6 @@
 lib/R/library/nlme/R-ex/pdMatrix.reStruct.R
 lib/R/library/nlme/R-ex/pdNatural.R
 lib/R/library/nlme/R-ex/pdSymm.R
-lib/R/library/nlme/R-ex/phenoModel.R
 lib/R/library/nlme/R-ex/plot.ACF.R
 lib/R/library/nlme/R-ex/plot.Variogram.R
 lib/R/library/nlme/R-ex/plot.augPred.R
@@ -5165,7 +5175,6 @@
 lib/R/library/nlme/R-ex/print.varFunc.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
 lib/R/library/nlme/R-ex/random.effects.R
 lib/R/library/nlme/R-ex/ranef.lmList.R
 lib/R/library/nlme/R-ex/ranef.lme.R
@@ -6293,6 +6302,8 @@
 lib/R/library/spatial/R-ex/trmat.R
 lib/R/library/spatial/R-ex/variogram.R
 lib/R/library/spatial/R/spatial
+lib/R/library/spatial/R/spatial.rdb
+lib/R/library/spatial/R/spatial.rdx
 lib/R/library/spatial/help/AnIndex
 lib/R/library/spatial/help/Kaver
 lib/R/library/spatial/help/Kenvl
@@ -6456,6 +6467,8 @@
 lib/R/library/splines/latex/xyVector.tex
 lib/R/library/splines/libs/splines.so
 lib/R/library/splines/man/splines.Rd.gz
+lib/R/library/splines/po/de/LC_MESSAGES/R-splines.mo
+lib/R/library/splines/po/de/LC_MESSAGES/splines.mo
 lib/R/library/splines/po/en@quot/LC_MESSAGES/R-splines.mo
 lib/R/library/splines/po/en@quot/LC_MESSAGES/splines.mo
 lib/R/library/splines/po/fr/LC_MESSAGES/R-splines.mo
@@ -7810,7 +7823,6 @@
 lib/R/library/survival/R-ex/survfit.R
 lib/R/library/survival/R-ex/survobrien.R
 lib/R/library/survival/R-ex/survreg.R
-lib/R/library/survival/R-ex/survreg.control.R
 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
@@ -8643,6 +8655,7 @@
 lib/R/share/licenses/LGPL-2
 lib/R/share/licenses/LGPL-2.1
 lib/R/share/licenses/LGPL-3
+lib/R/share/licenses/license.db
 lib/R/share/locale/de/LC_MESSAGES/R.mo
 lib/R/share/locale/en/LC_MESSAGES/R.mo
 lib/R/share/locale/en@quot/LC_MESSAGES/R.mo
@@ -8882,6 +8895,8 @@
 @dirrm lib/R/library/splines/po/fr
 @dirrm lib/R/library/splines/po/en@quot/LC_MESSAGES
 @dirrm lib/R/library/splines/po/en@quot
+@dirrm lib/R/library/splines/po/de/LC_MESSAGES
+@dirrm lib/R/library/splines/po/de
 @dirrm lib/R/library/splines/po
 @dirrm lib/R/library/splines/man
 @dirrm lib/R/library/splines/libs
@@ -8986,6 +9001,8 @@
 @dirrm lib/R/library/methods/po/fr
 @dirrm lib/R/library/methods/po/en@quot/LC_MESSAGES
 @dirrm lib/R/library/methods/po/en@quot
+@dirrm lib/R/library/methods/po/de/LC_MESSAGES
+@dirrm lib/R/library/methods/po/de
 @dirrm lib/R/library/methods/po
 @dirrm lib/R/library/methods/man
 @dirrm lib/R/library/methods/libs
@@ -9023,6 +9040,8 @@
 @dirrm lib/R/library/grid/po/fr
 @dirrm lib/R/library/grid/po/en@quot/LC_MESSAGES
 @dirrm lib/R/library/grid/po/en@quot
+@dirrm lib/R/library/grid/po/de/LC_MESSAGES
+@dirrm lib/R/library/grid/po/de
 @dirrm lib/R/library/grid/po
 @dirrm lib/R/library/grid/man
 @dirrm lib/R/library/grid/libs
@@ -9048,6 +9067,8 @@
 @dirrm lib/R/library/graphics/po/fr
 @dirrm lib/R/library/graphics/po/en@quot/LC_MESSAGES
 @dirrm lib/R/library/graphics/po/en@quot
+@dirrm lib/R/library/graphics/po/de/LC_MESSAGES
+@dirrm lib/R/library/graphics/po/de
 @dirrm lib/R/library/graphics/po
 @dirrm lib/R/library/graphics/man
 @dirrm lib/R/library/graphics/latex
@@ -9074,6 +9095,8 @@
 @dirrm lib/R/library/grDevices/po/en_GB
 @dirrm lib/R/library/grDevices/po/en@quot/LC_MESSAGES
 @dirrm lib/R/library/grDevices/po/en@quot
+@dirrm lib/R/library/grDevices/po/de/LC_MESSAGES
+@dirrm lib/R/library/grDevices/po/de
 @dirrm lib/R/library/grDevices/po
 @dirrm lib/R/library/grDevices/man
 @dirrm lib/R/library/grDevices/libs
@@ -9142,6 +9165,8 @@
 @dirrm lib/R/library/class/R
 @dirrm lib/R/library/class/Meta
 @dirrm lib/R/library/class
+@dirrm lib/R/library/boot/po/ru/LC_MESSAGES
+@dirrm lib/R/library/boot/po/ru
 @dirrm lib/R/library/boot/po/fr/LC_MESSAGES
 @dirrm lib/R/library/boot/po/fr
 @dirrm lib/R/library/boot/po/en@quot/LC_MESSAGES
diff -r bdbc55f5547b -r acdb51858804 math/R/distinfo
--- a/math/R/distinfo   Sat Mar 15 21:26:11 2008 +0000
+++ b/math/R/distinfo   Sat Mar 15 22:16:41 2008 +0000
@@ -1,9 +1,8 @@
-$NetBSD: distinfo,v 1.36 2008/03/07 16:11:39 jlam Exp $
+$NetBSD: distinfo,v 1.37 2008/03/15 22:16:41 markd Exp $
 
-SHA1 (R-2.6.0.tar.gz) = ff51578fc630e65ce0e2bb92b0e1f8324c94925d
-RMD160 (R-2.6.0.tar.gz) = 54b3d183dfb15af7f861e7b62904998865ad194c
-Size (R-2.6.0.tar.gz) = 15447985 bytes
-SHA1 (patch-aa) = 0e1deea1411b5d1c31c9cc46708c08cc20d5c8c5
+SHA1 (R-2.6.2.tar.gz) = 3d06b12cbf1dab25ddd759522157e6cc6a8eae19
+RMD160 (R-2.6.2.tar.gz) = 7956c284aad3c2d4fc85d566b45e2ba308dffefb
+Size (R-2.6.2.tar.gz) = 15569391 bytes
 SHA1 (patch-ab) = b724b549cd9920865c4d4ae60c71dff48c4c0c06
-SHA1 (patch-ac) = 5c0013236b2effaabb381a2426565bd1f73f5d5e
+SHA1 (patch-ac) = fb35ac7a2d22a4cc60704ce06a0471fab2e64ac0
 SHA1 (patch-ad) = 666dccbc9741b90bc7af11e51ccf25240906da8b
diff -r bdbc55f5547b -r acdb51858804 math/R/patches/patch-aa
--- a/math/R/patches/patch-aa   Sat Mar 15 21:26:11 2008 +0000
+++ /dev/null   Thu Jan 01 00:00:00 1970 +0000
@@ -1,35 +0,0 @@
-$NetBSD: patch-aa,v 1.19 2008/03/07 16:11:39 jlam Exp $
-
---- configure.ac.orig  2007-09-21 14:05:04.000000000 +1200
-+++ configure.ac
-@@ -260,7 +260,7 @@ AC_ARG_ENABLE([BLAS-shlib],
- [use_blas_shlib="unset"])
- 
- if test "${want_R_shlib}" = yes; then
--  LIBR="-L\$(R_HOME)/lib\$(R_ARCH) -lR"
-+  LIBR="-Wl,-R${prefix}/lib/R/lib\$(R_ARCH) -L\$(R_HOME)/lib\$(R_ARCH) -lR"
- else
-   LIBR=
- fi
-@@ -817,13 +817,6 @@ case "${host_cpu}" in
-       R_PROG_CC_FLAG([-ieee_with_inexact],
-                      R_SH_VAR_ADD(R_XTRA_CFLAGS, [-ieee_with_inexact]))
-     fi
--    if test "${G77}" = yes; then
--      R_PROG_F77_FLAG([-mieee],
--                      R_SH_VAR_ADD(R_XTRA_FFLAGS, [-mieee]))
--    else
--      R_PROG_F77_FLAG([-fpe3],
--                      R_SH_VAR_ADD(R_XTRA_FFLAGS, [-fpe3]))
--    fi
-     if test "${GXX}" = yes; then
-       R_PROG_CXX_FLAG([-mieee],
-                       R_SH_VAR_ADD(R_XTRA_CXXFLAGS, [-mieee]))
-@@ -1380,6 +1373,7 @@ rm -f libconftest${DYLIB_EXT} conftest.c
-     fcpicflags=
-     ;;
-   netbsd*)
-+    fpicflags="-fPIC"
-     if ${CPP} - -dM < /dev/null | grep __ELF__ >/dev/null ; then
-       main_ldflags="-export-dynamic"
-       shlib_ldflags="-shared"
diff -r bdbc55f5547b -r acdb51858804 math/R/patches/patch-ac
--- a/math/R/patches/patch-ac   Sat Mar 15 21:26:11 2008 +0000
+++ b/math/R/patches/patch-ac   Sat Mar 15 22:16:41 2008 +0000
@@ -1,8 +1,8 @@
-$NetBSD: patch-ac,v 1.21 2008/03/07 16:11:39 jlam Exp $
+$NetBSD: patch-ac,v 1.22 2008/03/15 22:16:41 markd Exp $
 
---- configure.orig     2007-09-26 14:06:08.000000000 +1200
+--- configure.orig     2008-01-30 23:43:09.000000000 +1300
 +++ configure
-@@ -2659,7 +2659,7 @@ fi
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