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Update to 2.14.2
CHANGES IN R VERSION 2.14.2:
NEW FEATURES:
o The internal untar() (as used by default by R CMD INSTALL) now
knows about some pax headers which bsdtar (e.g., the default tar
for Mac OS >= 10.6) can incorrectly include in tar files, and
will skip them with a warning.
o Function compactPDF() in package tools now takes the default for
argument gs_quality from environment variable GS_QUALITY: there
is a new value "none", the ultimate default, which prevents
GhostScript being used in preference to qpdf just because
environment variable R_GSCMD is set. If R_GSCMD is unset or set
to "", the function will try to find a suitable GhostScript
executable.
o For consistency with the logLik() method, nobs() for "nls" files
now excludes observations with zero weight. (Reported by Berwin
Turlach.)
UTILITIES:
o R CMD check now reports by default on licenses not according to
the description in 'Writing R Extensions'.
o R CMD check has a new option --as-cran to turn on most of the
customizations that CRAN uses for its incoming checks.
PACKAGE INSTALLATION:
o R CMD INSTALL will now no longer install certain file types from
inst/doc: these are almost certainly mistakes and for some
packages are wasting a lot of space.
+ BUG FIXES
CHANGES IN R VERSION 2.14.1:
NEW FEATURES:
o parallel::detectCores() is now able to find the number of
physical cores (rather than CPUs) on Sparc Solaris.
It can also do so on most versions of Windows; however the
default remains detectCores(logical = TRUE) on that platform.
o Reference classes now keep a record of which fields are locked.
$lock() with no arguments returns the names of the locked fields.
o HoltWinters() reports a warning rather than an error for some
optimization failures (where the answer might be a reasonable
one).
o tools::dependsOnPkg() now accepts the shorthand dependencies =
"all".
o parallel::clusterExport() now allows specification of an
environment from which to export.
o The quartz() device now does tilde expansion on its file
argument.
o Option print in Sweave's RweaveLatex() driver now emulates
auto-printing rather than printing (which can differ for an S4
object by calling show() rather than print()).
o filled.contour() now accepts infinite values: previously it might
have generated invalid graphics files (e.g. containing NaN
values).
+ BUG FIXES
Fix build with pcre-8.30+. Based on patch by Petr Pisar <ppisar@redhat.com>
math/R: Expand NetBSD floorl patch to DragonFly DragonFly has the same math limitations as NetBSD, so it needs the same fix.
Update R to 2.14.0 changes to many to list - see NEWS file in distribution for details.
Changes 2.11.1: * R CMD INSTALL checks if dependent packages are available early on * in the installation of source packages, thereby giving clearer error messages. * R CMD INSTALL --build now names the file in the format used for Mac OS X binary files on that platform. * BIC() in package stats4 now also works with multiple fitted models, analogously to AIC(). * Use of file extension .C for C++ code in packages is now deprecated: it has caused problems for some 'make's on case-insensitive file systems (although it currently works with the recommended toolkits). * The C function mkCharLenCE now no longer reads past 'len' bytes (unlikely to be a problem except in user code). * On systems without any default LD_LIBRARY_PATH (not even /usr/local/lib), [DY]LIB_LIBRARY_PATH is now set without a trailing colon. * More efficient utf8ToInt() on long multi-byte strings with many multi-byte characters. * aggregate.ts() gave platform-depedent results due to rounding error for ndeltat != 1. * package.skeleton() sometimes failed to fix filenames for .R or .Rd files to start with an alphanumeric.
Changes 2.11.0: * Packages must have been installed under R >= 2.10.0, as the current help system is the only one now supported. * A port to 64-bit Windows is now available as well as binary package repositiories: see the 'R Administration and Installation Manual'. * Argument matching for primitive functions is now done in the same way as for interpreted functions except for the deliberate exceptions call switch .C .Fortran .Call .External all of which use positional matching for their first argument, and also some internal-use-only primitives. * The default device for command-line R at the console on Mac OS X is now quartz() and not X11(). New features * The 'open' modes for connections are now interpreted more consistently. * R CMD INSTALL now uses the internal untar() in package utils. * help(try.all.packages = TRUE) is much faster. * R CMD check has a new option '--timings' to record per-example timings in file <pkg>.Rcheck/<pkg>-Ex.timings. * The TRE library has been updated to version 0.8.0 (minor bugfixes). More...
Changes 2.10.1: * The PCRE library has been updated to version 8.00. * R CMD INSTALL has new options --no-R, --no-libs, --no-data, --no-help, --no-demo, --no-exec, and --no-inst to suppress installation of the specified part of the package. * The documented line-length limit of 4095 bytes when reading from the console now also applies also to parse(file="") (which previously had a limit of around 1024 bytes). * A Bioconductor mirror can be set for use by setRepositories() via the option "BioC_mirror". * Double-clicking in a tk_select.list() list box now selects the item and closes the list box (as happens on the Windows select.list() widget). * configure will be able to find a usable libtiff in some rare circumstances where it did not previously (where libtiff needed to be linked explicitly against -ljpeg). * Making refman.pdf works around a problem with the indexing with hyperref 6.79d and later. * The 'extended' argument is deprecated in strsplit(), grep(), grepl(), sub(), gsub(), regexpr() and gregexpr() (not just the value extended = FALSE) and will be removed in R 2.11.0. * bug fixes
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...
Pullup ticket #2513 - requested by markd R: security patch Revisions pulled up: - math/R/Makefile 1.99 - math/R/distinfo 1.39 - math/R/patches/patch-ae 1.15 --- Module Name: pkgsrc Committed By: markd Date: Sun Aug 31 12:33:53 UTC 2008 Modified Files: pkgsrc/math/R: Makefile distinfo Added Files: pkgsrc/math/R/patches: patch-ae Log Message: Fix for http://secunia.com/advisories/31647/ from R svn.
Update to R 2.7.2
NEW FEATURES
o sprintf() returns elements of the result in UTF-8 when the
format or any character input has a corresponding element
declared as UTF-8. Similarly for paste(), elements of the
result are in UTF-8 when any input to that element is declared
as UTF-8.
o axis() has new arguments 'col.ticks' and 'lwd.ticks' to allow
the colour and line width of ticks to be set separately from
that of the line (e.g. to set one or the other to transparent
or zero width).
o legend() has a new argument 'box.col' to set the colour of the
enclosing box.
o legend() gains a 'xpd' argument to make it easier to place a
legend in the margins or outer margins.
o stripchart() now passes '...' to title() (as well as to
plot.default() and axis()). (Wish of PR#12202)
o help.search() has new argument 'searchEngine' to go
directly to the search form: this is needed by users of
Firefox 3 to workaround a bug in interpreting the search
results pages.
+ BUG FIXES
2.7.1 NEW FEATURES
o tools::texi2dvi() has a new argument 'texinputs' to allow the
TeX and bibtex input paths to be specified (even on MiKTeX).
o dev.copy2pdf() gains an 'out.type' argument to allow it to be
used with cairo_pdf() or quartz(type = "pdf").
o poly() has additional checks against user error (as in PR#11243).
o The Mac OS quartz() device draws contiguous lines much faster.
o A field containing just a sign is no longer regarded as numeric
(it was on all platforms in 2.7.0, but not on most in earlier
versions of R). Similarly, '.' is now always non-numeric.
o CITATION files are now read in Latin-1: quite a few were
failing if used in a multibyte locale such as UTF-8.
o The DESCRIPTION file of a package can specify an 'OS_type' field
as either 'unix' or 'windows' to confine installation to that
OS type.
o HoltWinters() now uses optimize() rather than optim for
one-parameter problems which should be more reliable (PR#11469).
o axis() now respects the setting of par("xpd") when clipping.
o The 'factor' method of format() now preserves names, dims and
dimnames in the same way as for character and numeric inputs.
(PR#11512)
o read.DIF(*, transpose=TRUE) now allows to correctly read DIF files
produced by some versions of Excel.
DEPRECATED & DEFUNCT
o The use of unserialize() on character strings is deprecated:
that was a format used in R < 2.4.0.
o The use of embedded nuls in character strings is deprecated:
They will no longer be allowed in R 2.8.0.
UTILITIES
o R CMD check checks for possible check directories in the
sources -- in mid-2008 there were about 20 examples on CRAN.
o R CMD build tries harder to clean up the inst/doc directory
from the remnants of earlier builds.
It also removes any directories with extension .Rcheck, and
files .DS_Store and ._* (created by tar on Mac OS X under some
circumstances: it now sets environment variables to ask for
such files not to be created by that tar.)
+ BUG FIXES
Fix for http://secunia.com/advisories/31647/ from R svn.
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.
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.
+ Remove modifications to configure.in and configure in patch-aa and
patch-ac that altered the order in which the terminal library for
readline was detected. The termcap.buildlink3.mk file (included
indirectly by readline/buildlink3.mk) will do the right thing by
itself.
+ Modify the pkg-index.tmpl INSTALL script fragment: we can just use
${PKG_PREFIX} instead of substituting for @PREFIX@ everywhere. Also
refactor the commands to rebuild the package index into a shell
function and give some indication to the user what is happening.
+ Remove chown operation in post-install that was basically
cargo-culted from the very first version of R imported into pkgsrc.
It's not necessary.
+ Support user-destdir installation.
Bump the PKGREVISION to 2.
Update R to version 2.6.0 Many new features, changes and bug fixes. See lib/R/doc/NEWS for details.
Fix configure's handling of libblas when compiling with f2c and therefore remove conditional PLIST entry no longer required. Bump PKGREVISION.
Update R to version 2.4.1.
pkgsrc changes: no longer automatically generate the PLIST.
use (de)install templates for handling updating the index files
when adding/removing R packages.
Changes 2.4.1
This is a maintenance release and fixes a number of mostly minor bugs.
Changes 2.4.0
This release has many new features. One important aspect is that S4
classes now have their own internal type, and S4 method dispatch has
been completely revised to using cached generic functions, giving
substantial performance improvements. As a consequence, all packages
depending on "methods" need to be reinstalled.
Update to R 2.3.1 This version contains several minor fixups and removes a couple of bad bugs such as NA-handling of mean() for integer vectors. Changes 2.3.0 This version contains several changes and additions, mostly incremental.
Patch from R's svn trunk. Should fix build on NetBSD 1.6.2.
test -z $foo -> test -z "$foo" fixes build on Solaris.
Update R to 2.2.1
USER-VISIBLE CHANGES
o options("expressions") has been reduced to 1000: the limit
of 5000 introduced in 2.1.0 was liable to give crashes from C
stack overflow.
NEW FEATURES
o Use of 'pch' (e.g. in points) in the symbol font 5 is now
interpreted in the single-byte encoding used by that font.
Similarly, strwidth now recognizes that font 5 has a different
encoding from that of the locale. (These are likely to affect
the answer only in MBCS locales such as UTF-8.)
o The URW font metrics have been updated to versions from late
2002 which cover more glyphs, including Cyrillic.
o New postscript encodings for CP1250 (Windows East European),
ISO Latin-7 (8859-13, Latvian, Lithuanian and Maori), Cyrillic
(8859-5), KOI8-R, KOI8-U and CP1251.
o configure has more support for the Intel and Portland Group
compilers on ix86 and x86_64 Linux.
o R CMD INSTALL will clean up if interrupted (e.g. by ctrl-C from
the keyboard).
o There is now a comprehensive French translation of the messages,
thanks to Philippe Grosjean.
DEPRECATED & DEFUNCT
o The undocumented use of atan() with two arguments is deprecated:
instead use atan2() (as documented).
o The 'vfont' argument of axis() and mtext() is deprecated
(it currently warns and does nothing).
o The function mauchley.test() is deprecated (was a misspelling)
and replaced by mauchly.test()
Many BUG FIXES
avoid computed static constant (which was in any case the wrong value) in log1p(). From R svn. Should fix build on NetBSD-1.6.2.
Update R to 2.2.0 Changes: This version contains several changes and additions, mostly incremental.
forgot patch-ai in last commit
- correctly depend on devel/gettext-lib, bump revision for this - this uses libtool, tell the framework so - don't declare alloca on DragonFly, it conflicts with system headers - patch libtool.m4 fragment for DrgaonFly
Update R to version 2.1.1. minor bug fixes.
update to 2.1.0 too many changes to list here ...still doesn't work within TEXmacs
Add RMD160 digests in addition to SHA1 ones.
Make bulk build happy by fixing up the rpath. Not actually an issue in normal operation as the binary is always called from a wrapper script that sets LD_LIBRARY_PATH.
Update R to 2.0.1 Changes 2.0.1: This is a maintenance version mainly to fix a number of minor bugs and issues. Some rather nasty bugs were Windows-specific. Changes 2.0.0: Many things have changed since 1.0. The R language has acquired namespaces, exception handling constructs, formal methods and classes, much improved garbage collection, generalized I/O via connection objects, and considerable improvements in the graphics area. The user workspace has been reorganized, and so has the set of packages that ship with R. Several "recommended packages" deemed indispensable in a statistical system are bundled. In addition, there has been a large number of more specific new functions, tweaks, and bugfixes.
Update R to 1.9.1
CHANGES IN R VERSION 1.9.1
NEW FEATURES
o as.Date() now has a method for "POSIXlt" objects.
o mean() has a method for "difftime" objects and so summary()
works for such objects.
o legend() has a new argument 'pt.cex'.
o plot.ts() has more arguments, particularly 'yax.flip'.
o heatmap() has a new 'keep.dendro' argument.
o The default barplot method now handles vectors and 1-d arrays
(e.g., obtained by table()) the same, and uses grey instead of
heat color palettes in these cases. (Also fixes PR#6776.)
o nls() now looks for variables and functions in its formula in
the environment of the formula before the search path, in the
same way lm() etc look for variables in their formulae.
DEPRECATED & DEFUNCT
o Support for non-IEEE-754 arithmetic (which has been untested
for some time) will be removed in the next full release.
o Direct use of R INSTALL|REMOVE|BATCH|COMPILE|SHLIB is
deprecated: use R CMD instead.
o The gnome/GNOME graphics device is deprecated and will be
removed in the next full release.
Plus Bug Fixes.
R assumes it can append to the DESCRIPTION files of each R package while building even though it uses INSTALL_DATA on them so set SHAREMODE=644 rather than have to patch an ever increasing number of files. Idea from Julio M. Merino Vidal.
Update R to 1.9.0 and buildlink3ify
USER-VISIBLE CHANGES
o Underscore '_' is now allowed in syntactically valid names, and
make.names() no longer changes underscores. Very old code
that makes use of underscore for assignment may now give
confusing error messages.
o Package 'base' has been split into packages 'base', 'graphics',
'stats' and 'utils'. All four are loaded in a default
installation, but the separation allows a 'lean and mean'
version of R to be used for tasks such as building indices.
Packages ctest, eda, modreg, mva, nls, stepfun and ts have been
merged into stats, and lqs has been returned to MASS. In all
cases a stub has been left that will issue a warning and ensure
that the appropriate new home is loaded. All the time series
datasets have been moved to package stats. Sweave has been
moved to utils.
Package mle has been moved to stats4 which will become the
central place for statistical S4 classes and methods
distributed with base R. Package mle remains as a stub.
Users may notice that code in .Rprofile is run with only the
new base loaded and so functions may now not be found. For
example, ps.options(horizontal = TRUE) should be preceded by
library(graphics) or called as graphics::ps.options or,
better, set as a hook -- see ?setHook.
o There has been a concerted effort to speed up the startup of
an R session: it now takes about 2/3rds of the time of 1.8.1.
o A warning is issued at startup in a UTF-8 locale, as currently R
only supports single-byte encodings.
plus many new features and bug fixes.
Pullup build fix to the pkgsrc-2004Q1 branch. Requested by jwise in ticket pkgsrc-9. "Fix build against newest X11. for some obscure reason, src/modules/x11/dataentry.c explicitly unset NeedFunctionPrototypes, which can no longer safely be done in recent X11 sources (as _Xconst is only defined if this is set, yet is used everywhere)."
Fix build against newest X11. for some obscure reason, src/modules/x11/dataentry.c explicitly unset NeedFunctionPrototypes, which can no longer safely be done in recent X11 sources (as _Xconst is only defined if this is set, yet is used everywhere).
Reintroduce reordering tests for termcap vs termlib vs ncurses and make dependency on libbz2 explicit Fixes build on Solaris 8.
Fix building when non-root. Closes PR pkg/23760
Update R to 1.8.1. Changes since 1.6.2 Many new features. Language changes. Additional standard package 'mle'. Some old features deprecated or defunct. Many many bug fixes. Update to 1.8.0 from Ray Brownrigg in private communication, cleaned up and updated to 1.8.1 by me.
Update to R-1.6.2
CHANGES IN R VERSION 1.6.2
BUG FIXES
o plot.stepfun() now obeys a `ylim=.' specification.
o removeClass() does a better job of removing inheritance
information.
o setIs() will not allow mismatched representations between two
classes (without an explicit coerce method).
o The code underlying polygon drawing contained a memory leak.
This showed up in persp, but did not affect other graphics
functions. It is now possible to draw big DEMs.
o logLik.nls() gave wrong df.
o rbind() with a mixture of data frames and matrices treated the
matrices as vectors.
o stripchart(method="stack") was not handling missing values.
o Arithmetic functions such as log() lost the object bit from
classed objects if coercion was needed.
o exp_rand would go into an infinite loop if unif_rand returned 0.
o formatC(x, format="fg") could return exponential format if
rounding pushed x over a positive power of 10.
o attr(x, foo) used partial matching for `foo' (even though not
documented to do so), and failed to find `foo' if there were
two or more partial matches before the exact match in the list
of attributes.
o Rdconv now creates direct HTML hyperlinks when linking to
documentation in the same package. The code now ensures that
links which can be resolved within the package are so resolved,
even when there are possible resolutions in other packages.
o If readBin(what=character()) is used incorrectly on a file which
does not contain C-style character strings, warnings (usually
many) are now given.
o Building libR.so with the zlib in the R sources was not
finding the local zlib headers.
o system(intern=TRUE) has an undocumented line length limit of
119 chars both on Unix and Windows. The limit is now 8096 and
documented. On Unix (only) every 120th character used to be
discarded.
o plot.POSIX[cl]t were not passing graphics parameters on to
axis.POSIXct.
o On some HP-UX systems, installed scripts were not executable
when using the BSD-compatible install system program found by
configure. We now always use install-sh on HP-UX.
o c() was converting NA names to "NA": now proper NA strings are
used wherever possible.
o A typo was causing segfaults when using data.entry under SuSE.
Update R to version 1.6.1.
Pkgsrc changes:
Now builds the libR.so and provides a buildlink2.mk for packages that want
to use it. From suggestions from Kent Polk.
Recommended library set is now included in the base package.
Changes:
CHANGES IN R VERSION 1.6.1
NEW FEATURES
o Added a few "trivial and obviously missing" functions to tcltk:
tkchooseDirectory, tkpopup, tkdialog, tkread
o barplot() has a new argument `axis.lty', which if set to 1
allows the pre-1.6.0 behaviour of plotting the axis and tick
marks for the categorical axis. (This was apparently not
intentional, but axis() used to ignore lty=0.)
The argument `border' is no longer ".NotYetUsed".
CHANGES IN R VERSION 1.6.0
USER-VISIBLE CHANGES
o The default colour palette now has "grey" instead of "white"
in location 8. See palette().
o grid(nx) behaves differently (but the same as in R versions <= 0.64).
NEW FEATURES
o Preparations for name space support:
o The objects created in the methods package to represent
classes, generic functions, method definitions, and
inheritance relations now themselves belong to true classes. In
particular, the "classRepresentation" objects follow the description
in "Programming with Data" (section 7.6).
o Other additions and changes to the methods package:
o New methods ([[, print, str) and extended plot() method
(incl. logical `horiz') for "dendrogram" class.
o sprintf() now checks the agreement between formats and object
types, and handles special values (NA, Inf, ...) correctly.
o chol() now uses a tolerance for non-positive-definiteness and
so should give more consistent results across platforms.
o New function agrep() for approximate (fuzzy) string matching.
o help.search() can now use both approximate (fuzzy) and regular
expression matching. By default, if the pattern to be matched
consists of only alphanumeric characters, whitespace or a dash,
approximate matching is used.
o axis() has three new optional arguments `col', `lty', and `lwd'
all for drawing the axis line and tick marks.
o Function vcov() (formerly in MASS), a generic function to
return the variance-covariance matrix of the parameter
estimates of a fitted model.
o duplicated() and unique() have methods for matrices and arrays
(based on ideas from Jens Oehlschl<E4>gel).
o Internally memory sizes and counts of cons cells are now stored
in unsigned longs. This allows memory limits to be set and
objects created in the range 2-4Gb on 32-bit platforms, and
allows 64-bit platforms to use much larger amounts of memory.
o Command-line flags to set memory can now use the suffix `G'
for gigabytes. The setting of maximum vsize is now only
limited by the platform's address space.
o All warning and error messages are truncated to a length set
by options(warning.length=), defaulting to 1000. (Previously
most (but not quite all) were truncated at 8192 characters.)
o [dpqr]gamma() check for shape parameter > 0.
o as.POSIX[cl]t can now convert logical NAs.
o All installed packages (even those shipped with R) are
given a `Built' field in the DESCRIPTION file.
o as.data.frame() now coerces logical matrices into logical
columns (rather than factors).
o [[<-.data.frame no longer coerces character replacement values
to factor. This is consistent with using $ to replace and
with S4.
o library() attempts to detect improperly installed packages, so
as from this version an installed package must have a
DESCRIPTION file and that file must have been stamped with a
`Built:' line (which was introduced in 1.2.0). Under
Unix-alikes, the platform is checked against that used for
installation.
o print.factor() has new arguments `max.levels' (with a smart default)
and `width'. print.ordered() is no longer needed.
o RNGkind() has an additional option for normal random generators:
"Inversion".
o data.frame() recycles factors and "AsIs" objects as well as
atomic vectors.
o rect() accepts additional graphics parameters through a ...
argument (in the same way as polygon).
o strwidth/strheight() now coerce their first argument in exactly
the same way text() does, so a wider range of inputs is allowed.
o prompt()'s default and data.frame methods have a new 3rd argument
`name' allowing them to used more easily in scripts and loops.
o rgb() has a new `maxColorValue' argument, allowing r,g,b in [0,M],
particularly in {0:255}, efficiently and non-error-prone.
o summaryRprof() provides the functionality of R CMD Rprof in R
code, though more slowly.
o pdf() now uses PDF not R code for clipping, which ensures that
partially visible text strings are (partially) shown.
o Each R session uses a per-session temporary directory which
is removed at normal termination. The directory name is given
by the tempdir() function, and filenames returned by
tempfile() will be within that directory.
o help.start() on Unix now uses a .R subdirectory of the
per-session temporary directory and not ~/.R. A side effect
is that ~/.R is now never deleted by R.
o cbind/rbind() used to ignore all zero-length vectors, an
undocumented quirk for S-compatibility. This caused problems
when combining zero-extent matrices and zero-length vectors, and
now zero-length vectors are ignored unless the result would
have zero rows/columns.
o plot.spec(x) now also works for other x than AR and Pgram results.
o New functions La.chol() and La.chol2inv() for Cholesky
decomposition and inverse of positive definite matrices using
Lapack.
o Changes to the tcltk package
o New function axTicks() returning tick mark locations like axis().
o grid() has a more sensible default behavior. Tick axis alignment
only happens when no numbers of grid cells are specified. New
arguments lwd and equilogs; nx/ny = NA for not drawing, see ?grid.
o installed.packages() has a new argument `priority'.
o termplot() uses factor levels rather than 1,2,3... for x-axis.
o The trace() function has been robustified and a new function
tracingState() added to turn tracing temporarily on and off.
o New cophenetic() in "mva" as utility for hierarchical clustering.
o p.adjust() has two new methods, 'Hommel' and 'FDR', contributed
by Gordon Smyth <smyth@wehi.edu.au>.
o stars() now has add and plot arguments.
and lots of bug fixes.
Update R to 1.5.1, switch to buildlink2, change maintainer.
User-Visible Changes
o XDR support is now guaranteed to be available, so the default
save format will always be XDR binary files, and it is safe to
distribute data in that format. (We are unaware of any
platform that did not support XDR in recent versions of R.)
gzfile() is guaranteed to be available, so the preferred
method to distribute sizeable data objects is now via
save(compress = TRUE).
o pie() replaces piechart() and defaults to using pastel colours.
o formatC has new arguments (see below) and formatC(*, d = <dig>)
is no longer valid and must be written as formatC(*, digits = <dig>).
o Missingness of character strings is treated much more
consistently, and the character string "NA" can be used as a
non-missing value.
o summary.factor() now uses a stable sort, so the output will
change where there are ties in the frequencies.
Plus lots of new features and many bug fixes.
Merge from pkgsrc-current to buildlink2 branch.
don't key off of `alpha' to decide to do OSF specific things (-fpe3 flag to the fortran compiler). Also mark as not for older netbsd-alpha systems as this is an IEEE-754 infected program (hi ross!).
Fix up distinfo to reflect last change to patches.
Make local copy of R's package list writable before trying to append to it. From PR# pkg/15773 from Ray Brownrigg.
Update to version 1.4.1 from PR pkg/15757 by Ray Brownrigg with minor mods by me. Changes and bug fixes from 1.3.1 are numerous. See the NEWS file in the distribution for details.
Include a patch for the generated configure script so that we don't have to depend on auto* tools at build-time. This fixes pkg/14916 by Brook Milligan <brook@biology.nmsu.edu>.
Update R to 1.3.0. This is a two-generation upgrade from the previous 1.1.1 version in pkgsrc. There are many, many bugfixes, better compliance with S3/S4, and many additional statistical analysis functions added to the base library. There is also an improved (faster) garbage collector and support for dynamically sizing the memory used by R. The full summary of changes may be found on the R Project website.
Make this build again by fixing undefined references to MAIN__.
Move to sha1 digests, and add distfile sizes.
+ move the distfile digest/checksum value from files/md5 to distinfo + move the patch digest/checksum values from files/patch-sum to distinfo