- CHANGES IN R 4.1.0:
FUTURE DIRECTIONS: * It is planned that the 4.1.x series will be the last to support 32-bit Windows, with production of binary packages for that series continuing until early 2023. SIGNIFICANT USER-VISIBLE CHANGES: * Data set esoph in package datasets now provides the correct numbers of controls; previously it had the numbers of cases added to these. (Reported by Alexander Fowler in PR#17964.) NEW FEATURES: * www.omegahat.net is no longer one of the repositories known by default to setRepositories(). (Nowadays it only provides source packages and is often unavailable.) * Function package_dependencies() (in package tools) can now use different dependency types for direct and recursive dependencies. * The checking of the size of tarball in R CMD check --as-cran <pkg> may be tweaked via the new environment variable _R_CHECK_CRAN_INCOMING_TARBALL_THRESHOLD_, as suggested in PR#17777 by Jan Gorecki. * Using c() to combine a factor with other factors now gives a factor, an ordered factor when combining ordered factors with identical levels. * apply() gains a simplify argument to allow disabling of simplification of results. * The format() method for class "ftable" gets a new option justify. (Suggested by Thomas Soeiro.) * New ...names() utility. (Proposed by Neal Fultz in PR#17705.) * type.convert() now warns when its as.is argument is not specified, as the help file always said it _should_. In that case, the default is changed to TRUE in line with its change in OBS-URL: https://build.opensuse.org/package/show/devel:languages:R:released/R-base?expand=0&rev=113
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R-base.changes
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R-base.changes
@@ -1,3 +1,620 @@
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-------------------------------------------------------------------
|
||||
Tue May 18 17:01:25 UTC 2021 - Detlef Steuer <detlef.steuer@gmx.de>
|
||||
|
||||
- CHANGES IN R 4.1.0:
|
||||
|
||||
FUTURE DIRECTIONS:
|
||||
|
||||
* It is planned that the 4.1.x series will be the last to support
|
||||
32-bit Windows, with production of binary packages for that
|
||||
series continuing until early 2023.
|
||||
|
||||
SIGNIFICANT USER-VISIBLE CHANGES:
|
||||
|
||||
* Data set esoph in package datasets now provides the correct
|
||||
numbers of controls; previously it had the numbers of cases added
|
||||
to these. (Reported by Alexander Fowler in PR#17964.)
|
||||
|
||||
NEW FEATURES:
|
||||
|
||||
* www.omegahat.net is no longer one of the repositories known by
|
||||
default to setRepositories(). (Nowadays it only provides source
|
||||
packages and is often unavailable.)
|
||||
|
||||
* Function package_dependencies() (in package tools) can now use
|
||||
different dependency types for direct and recursive dependencies.
|
||||
|
||||
* The checking of the size of tarball in R CMD check --as-cran
|
||||
<pkg> may be tweaked via the new environment variable
|
||||
_R_CHECK_CRAN_INCOMING_TARBALL_THRESHOLD_, as suggested in
|
||||
PR#17777 by Jan Gorecki.
|
||||
|
||||
* Using c() to combine a factor with other factors now gives a
|
||||
factor, an ordered factor when combining ordered factors with
|
||||
identical levels.
|
||||
|
||||
* apply() gains a simplify argument to allow disabling of
|
||||
simplification of results.
|
||||
|
||||
* The format() method for class "ftable" gets a new option justify.
|
||||
(Suggested by Thomas Soeiro.)
|
||||
|
||||
* New ...names() utility. (Proposed by Neal Fultz in PR#17705.)
|
||||
|
||||
* type.convert() now warns when its as.is argument is not
|
||||
specified, as the help file always said it _should_. In that
|
||||
case, the default is changed to TRUE in line with its change in
|
||||
read.table() (related to stringsAsFactor) in R 4.0.0.
|
||||
|
||||
* When printing list arrays, classed objects are now shown _via_
|
||||
their format() value if this is a short enough character string,
|
||||
or by giving the first elements of their class vector and their
|
||||
length.
|
||||
|
||||
* capabilities() gets new entry "Rprof" which is TRUE when R has
|
||||
been configured with the equivalent of --enable-R-profiling (as
|
||||
it is by default). (Related to Michael Orlitzky's report
|
||||
PR#17836.)
|
||||
|
||||
* str(xS4) now also shows extraneous attributes of an S4 object
|
||||
xS4.
|
||||
|
||||
* Rudimentary support for vi-style tags in rtags() and R CMD rtags
|
||||
has been added. (Based on a patch from Neal Fultz in PR#17214.)
|
||||
|
||||
* checkRdContents() is now exported from tools; it and also
|
||||
checkDocFiles() have a new option chkInternal allowing to check
|
||||
Rd files marked with keyword "internal" as well. The latter can
|
||||
be activated for R CMD check via environment variable
|
||||
_R_CHECK_RD_INTERNAL_TOO_.
|
||||
|
||||
* New functions numToBits() and numToInts() extend the raw
|
||||
conversion utilities to (double precision) numeric.
|
||||
|
||||
* Functions URLencode() and URLdecode() in package utils now work
|
||||
on vectors of URIs. (Based on patch from Bob Rudis submitted
|
||||
with PR#17873.)
|
||||
|
||||
* path.expand() can expand ~user on most Unix-alikes even when
|
||||
readline is not in use. It tries harder to expand ~, for example
|
||||
should environment variable HOME be unset.
|
||||
|
||||
* For HTML help (both dynamic and static), Rd file links to help
|
||||
pages in external packages are now treated as references to
|
||||
topics rather than file names, and fall back to a file link only
|
||||
if the topic is not found in the target package. The earlier rule
|
||||
which prioritized file names over topics can be restored by
|
||||
setting the environment variable _R_HELP_LINKS_TO_TOPICS_ to a
|
||||
false value.
|
||||
|
||||
* c() now removes NULL arguments before dispatching to methods,
|
||||
thus simplifying the implementation of c() methods, _but_ for
|
||||
back compatibility keeps NULL when it is the first argument.
|
||||
(From a report and patch proposal by Lionel Henry in PR#17900.)
|
||||
|
||||
* Vectorize()'s result function's environment no longer keeps
|
||||
unneeded objects.
|
||||
|
||||
* Function ...elt() now propagates visibility consistently with
|
||||
..n. (Thanks to Lionel Henry's PR#17905.)
|
||||
|
||||
* capture.output() no longer uses non-standard evaluation to
|
||||
evaluate its arguments. This makes evaluation of functions like
|
||||
parent.frame() more consistent. (Thanks to Lionel Henry's
|
||||
PR#17907.)
|
||||
|
||||
* packBits(bits, type="double") now works as inverse of
|
||||
numToBits(). (Thanks to Bill Dunlap's proposal in PR#17914.)
|
||||
|
||||
* curlGetHeaders() has two new arguments, timeout to specify the
|
||||
timeout for that call (overriding getOption("timeout")) and TLS
|
||||
to specify the minimum TLS protocol version to be used for
|
||||
https:// URIs (_inter alia_ providing a means to check for sites
|
||||
using deprecated TLS versions 1.0 and 1.1).
|
||||
|
||||
* For nls(), an optional constant scaleOffset may be added to the
|
||||
denominator of the relative offset convergence test for cases
|
||||
where the fit of a model is expected to be exact, thanks to a
|
||||
proposal by John Nash. nls(*, trace=TRUE) now also shows the
|
||||
convergence criterion.
|
||||
|
||||
* Numeric differentiation _via_ numericDeriv() gets new optional
|
||||
arguments eps and central, the latter for taking central divided
|
||||
differences. The latter can be activated for nls() via
|
||||
nls.control(nDcentral = TRUE).
|
||||
|
||||
* nls() now passes the trace and control arguments to getInitial(),
|
||||
notably for all self-starting models, so these can also be fit in
|
||||
zero-noise situations via a scaleOffset. For this reason, the
|
||||
initial function of a selfStart model must now have ... in its
|
||||
argument list.
|
||||
|
||||
* bquote(splice = TRUE) can now splice expression vectors with
|
||||
attributes: this makes it possible to splice the result of
|
||||
parse(keep.source = TRUE). (Report and patch provided by Lionel
|
||||
Henry in PR#17869.)
|
||||
|
||||
* textConnection() gets an optional name argument.
|
||||
|
||||
* get(), exists(), and get0() now signal an error if the first
|
||||
argument has length greater than 1. Previously additional
|
||||
elements were silently ignored. (Suggested by Antoine Fabri on
|
||||
R-devel.)
|
||||
|
||||
* R now provides a shorthand notation for creating functions, e.g.
|
||||
\(x) x + 1 is parsed as function(x) x + 1.
|
||||
|
||||
* R now provides a simple native forward pipe syntax |>. The
|
||||
simple form of the forward pipe inserts the left-hand side as the
|
||||
first argument in the right-hand side call. The pipe
|
||||
implementation as a syntax transformation was motivated by
|
||||
suggestions from Jim Hester and Lionel Henry.
|
||||
|
||||
* all.equal(f, g) for functions now by default also compares their
|
||||
environment(.)s, notably via new all.equal method for class
|
||||
function. Comparison of nls() fits, e.g., may now need
|
||||
all.equal(m1, m2, check.environment = FALSE).
|
||||
|
||||
* .libPaths() gets a new option include.site, allowing to _not_
|
||||
include the site library. (Thanks to Dario Strbenac's suggestion
|
||||
and Gabe Becker's PR#18016.)
|
||||
|
||||
* Lithuanian translations are now available. (Thanks to Rimantas
|
||||
Zakauskas.)
|
||||
|
||||
* names() now works for DOTSXP objects. On the other hand, in
|
||||
R-lang, the R language manual, we now warn against relying on the
|
||||
structure or even existence of such dot-dot-dot objects.
|
||||
|
||||
* all.equal() no longer gives an error on DOTSXP objects.
|
||||
|
||||
* capabilities("cairo") now applies only to the file-based devices
|
||||
as it is now possible (if very unusual) to build R with Cairo
|
||||
support for those but not for X11().
|
||||
|
||||
* There is optional support for tracing the progress of
|
||||
loadNamespace() - see its help.
|
||||
|
||||
* (Not Windows.) l10n_info() reports an additional element, the
|
||||
name of the encoding as reported by the OS (which may differ from
|
||||
the encoding part (if any) of the result from
|
||||
Sys.getlocale("LC_CTYPE").
|
||||
|
||||
* New function gregexec() which generalizes regexec() to find _all_
|
||||
disjoint matches and well as all substrings corresponding to
|
||||
parenthesized subexpressions of the given regular expression.
|
||||
(Contributed by Brodie Gaslam.)
|
||||
|
||||
* New function charClass() in package utils to query the
|
||||
wide-character classification functions in use (such as
|
||||
iswprint).
|
||||
|
||||
* The names of quantile()'s result no longer depend on the global
|
||||
getOption("digits"), but quantile() gets a new optional argument
|
||||
digits = 7 instead.
|
||||
|
||||
* grep(), sub(), regexp and variants work considerably faster for
|
||||
long factors with few levels. (Thanks to Michael Chirico's
|
||||
PR#18063.)
|
||||
|
||||
* Provide grouping of x11() graphics windows within a window
|
||||
manager such as Gnome or Unity; thanks to a patch by Ivan Krylov
|
||||
posted to R-devel.
|
||||
|
||||
* The split() method for class data.frame now allows the f argument
|
||||
to be specified as a formula.
|
||||
|
||||
* sprintf now warns on arguments unused by the format string.
|
||||
|
||||
* New palettes "Rocket" and "Mako" for hcl.colors() (approximating
|
||||
palettes of the same name from the 'viridisLite' package).
|
||||
|
||||
Contributed by Achim Zeileis.
|
||||
|
||||
* The base environment and its namespace are now locked (so one can
|
||||
no longer add bindings to these or remove from these).
|
||||
|
||||
* Rterm handling of multi-byte characters has been improved,
|
||||
allowing use of such characters when supported by the current
|
||||
locale.
|
||||
|
||||
* Rterm now accepts ALT+ +xxxxxxxx sequences to enter Unicode
|
||||
characters as hex digits.
|
||||
|
||||
* Environment variable LC_ALL on Windows now takes precedence over
|
||||
LC_CTYPE and variables for other supported categories, matching
|
||||
the POSIX behaviour.
|
||||
|
||||
* duplicated() and anyDuplicated() are now optimized for integer
|
||||
and real vectors that are known to be sorted via the ALTREP
|
||||
framework. Contributed by Gabriel Becker via PR#17993.
|
||||
|
||||
GRAPHICS:
|
||||
|
||||
* The graphics engine version, R_GE_version, has been bumped to 14
|
||||
and so packages that provide graphics devices should be
|
||||
reinstalled.
|
||||
|
||||
* Graphics devices should now specify deviceVersion to indicate
|
||||
what version of the graphics engine they support.
|
||||
|
||||
* Graphics devices can now specify deviceClip. If TRUE, the
|
||||
graphics engine will never perform any clipping of output itself.
|
||||
|
||||
The clipping that the graphics engine does perform (for both
|
||||
canClip = TRUE and canClip = FALSE) has been improved to avoid
|
||||
producing unnecessary artifacts in clipped output.
|
||||
|
||||
* The grid package now allows gpar(fill) to be a linearGradient(),
|
||||
a radialGradient(), or a pattern(). The viewport(clip) can now
|
||||
also be a grob, which defines a clipping path, and there is a new
|
||||
viewport(mask) that can also be a grob, which defines a mask.
|
||||
|
||||
These new features are only supported so far on the Cairo-based
|
||||
graphics devices and on the pdf() device.
|
||||
|
||||
* (Not Windows.) A warning is given when a Cairo-based type is
|
||||
specified for a png(), jpeg(), tiff() or bmp() device but Cairo
|
||||
is unsupported (so type = "Xlib" is tried instead).
|
||||
|
||||
* grSoftVersion() now reports the versions of FreeType and
|
||||
FontConfig if they are used directly (not _via_ Pango), as is
|
||||
most commonly done on macOS.
|
||||
|
||||
C-LEVEL FACILITIES:
|
||||
|
||||
* The _standalone_ libRmath math library and R's C API now provide
|
||||
log1pexp() again as documented, and gain log1mexp().
|
||||
|
||||
INSTALLATION on a UNIX-ALIKE:
|
||||
|
||||
* configure checks for a program pkgconf if program pkg-config is
|
||||
not found. These are now only looked for on the path (like
|
||||
almost all other programs) so if needed specify a full path to
|
||||
the command in PKG_CONFIG, for example in file config.site.
|
||||
|
||||
* C99 function iswblank is required - it was last seen missing ca
|
||||
2003 so the workaround has been removed.
|
||||
|
||||
* There are new configure options --with-internal-iswxxxxx,
|
||||
--with-internal-towlower and --with-internal-wcwidth which allows
|
||||
the system functions for wide-character classification,
|
||||
case-switching and width (wcwidth and wcswidth) to be replaced by
|
||||
internal ones. The first has long been used on macOS, AIX (and
|
||||
Windows) but this enables it to be unselected there and selected
|
||||
for other platforms (it is the new default on Solaris). The
|
||||
second is new in this version of R and is selected by default on
|
||||
macOS and Solaris. The third has long been the default and
|
||||
remains so as it contains customizations for East Asian
|
||||
languages.
|
||||
|
||||
System versions of these functions are often minimally
|
||||
implemented (sometimes only for ASCII characters) and may not
|
||||
cover the full range of Unicode points: for example Solaris (and
|
||||
Windows) only cover the Basic Multilingual Plane.
|
||||
|
||||
* Cairo installations without X11 are more likely to be detected by
|
||||
configure, when the file-based Cairo graphics devices will be
|
||||
available but not X11(type = "cairo").
|
||||
|
||||
* There is a new configure option --with-static-cairo which is the
|
||||
default on macOS. This should be used when only static cairo
|
||||
(and where relevant, Pango) libraries are available.
|
||||
|
||||
* Cairo-based graphics devices on platforms without Pango but with
|
||||
FreeType/FontConfig will make use of the latter for font
|
||||
selection.
|
||||
|
||||
LINK-TIME OPTIMIZATION on a UNIX-ALIKE:
|
||||
|
||||
* Configuring with flag --enable-lto=R now also uses LTO when
|
||||
installing the recommended packages.
|
||||
|
||||
* R CMD INSTALL and R CMD SHLIB have a new flag --use-LTO to use
|
||||
LTO when compiling code, for use with R configured with
|
||||
--enable-lto=R. For R configured with --enable-lto, they have
|
||||
the new flag --no-use-LTO.
|
||||
|
||||
Packages can opt in or out of LTO compilation _via_ a UseLTO
|
||||
field in the DESCRIPTION file. (As usual this can be overridden
|
||||
by the command-line flags.)
|
||||
|
||||
BUILDING R on Windows:
|
||||
|
||||
* for GCC >= 8, FC_LEN_T is defined in config.h and hence character
|
||||
lengths are passed from C to Fortran in _inter alia_ BLAS and
|
||||
LAPACK calls.
|
||||
|
||||
* There is a new text file src/gnuwin32/README.compilation, which
|
||||
outlines how C/Fortran code compilation is organized and
|
||||
documents new features:
|
||||
|
||||
* R can be built with Link-Time Optimization with a suitable
|
||||
compiler - doing so with GCC 9.2 showed several
|
||||
inconsistencies which have been corrected.
|
||||
|
||||
* There is support for cross-compiling the C and Fortran code
|
||||
in R and standard packages on suitable (Linux) platforms.
|
||||
This is mainly intended to allow developers to test later
|
||||
versions of compilers - for example using GCC 9.2 or 10.x has
|
||||
detected issues that GCC 8.3 in Rtools40 does not.
|
||||
|
||||
* There is experimental support for cross-building R packages
|
||||
with C, C++ and/or Fortran code.
|
||||
|
||||
* The R installer can now be optionally built to support a single
|
||||
architecture (only 64-bit or only 32-bit).
|
||||
|
||||
PACKAGE INSTALLATION:
|
||||
|
||||
* The default C++ standard has been changed to C++14 where
|
||||
available (which it is on all currently checked platforms): if
|
||||
not (as before) C++11 is used if available otherwise C++ is not
|
||||
supported.
|
||||
|
||||
Packages which specify C++11 will still be installed using C++11.
|
||||
|
||||
C++14 compilers may give deprecation warnings, most often for
|
||||
std::random_shuffle (deprecated in C++14 and removed in C++17).
|
||||
Either specify C++11 (see 'Writing R Extensions') or modernize
|
||||
the code and if needed specify C++14. The latter has been
|
||||
supported since R 3.4.0 so the package's DESCRIPTION would need
|
||||
to include something like
|
||||
|
||||
Depends: R (>= 3.4)
|
||||
|
||||
PACKAGE INSTALLATION on Windows:
|
||||
|
||||
* R CMD INSTALL and R CMD SHLIB make use of their flag --use-LTO
|
||||
when the LTO_OPT make macro is set in file etc/${R_ARCH}/Makeconf
|
||||
or in a personal/site Makevars file. (For details see 'Writing R
|
||||
Extensions' SS4.5.)
|
||||
|
||||
This provides a valuable check on code consistency. It does work
|
||||
with GCC 8.3 as in Rtools40, but that does not detect everything
|
||||
the CRAN checks with current GCC do.
|
||||
|
||||
PACKAGE INSTALLATION on macOS:
|
||||
|
||||
* The default personal library directory on builds with
|
||||
--enable-aqua (including CRAN builds) now differs by CPU type,
|
||||
one of
|
||||
|
||||
~/Library/R/x86_64/x.y/library
|
||||
~/Library/R/arm64/x.y/library
|
||||
|
||||
This uses the CPU type R (and hence the packages) were built for,
|
||||
so when a x86_64 build of R is run under Rosetta emulation on an
|
||||
arm64 Mac, the first is used.
|
||||
|
||||
UTILITIES:
|
||||
|
||||
* R CMD check can now scan package functions for bogus return
|
||||
statements, which were possibly intended as return() calls (wish
|
||||
of PR#17180, patch by Sebastian Meyer). This check can be
|
||||
activated via the new environment variable
|
||||
_R_CHECK_BOGUS_RETURN_, true for --as-cran.
|
||||
|
||||
* R CMD build omits tarballs and binaries of previous builds from
|
||||
the top-level package directory. (PR#17828, patch by Sebastian
|
||||
Meyer.)
|
||||
|
||||
* R CMD check now runs sanity checks on the use of LazyData, for
|
||||
example that a data directory is present and that
|
||||
LazyDataCompression is not specified without LazyData and has a
|
||||
documented value. For packages with large LazyData databases
|
||||
without specifying LazyDataCompression, there is a reference to
|
||||
the code given in 'Writing R Extensions' SS1.1.6 to test the
|
||||
choice of compression (as in all the CRAN packages tested a
|
||||
non-default method was preferred).
|
||||
|
||||
* R CMD build removes LazyData and LazyDataCompression fields from
|
||||
the DESCRIPTION file of packages without a data directory.
|
||||
|
||||
ENCODING-RELATED CHANGES:
|
||||
|
||||
* The parser now treats \Unnnnnnnn escapes larger than the upper
|
||||
limit for Unicode points (\U10FFFF) as an error as they cannot be
|
||||
represented by valid UTF-8.
|
||||
|
||||
Where such escapes are used for outputting non-printable
|
||||
(including unassigned) characters, 6 hex digits are used (rather
|
||||
than 8 with leading zeros). For clarity, braces are used, for
|
||||
example \U{0effff}.
|
||||
|
||||
* The parser now looks for non-ASCII spaces on Solaris (as
|
||||
previously on most other OSes).
|
||||
|
||||
* There are warnings (including from the parser) on the use of
|
||||
unpaired surrogate Unicode points such as \uD834. (These cannot
|
||||
be converted to valid UTF-8.)
|
||||
|
||||
* Functions nchar(), tolower(), toupper() and chartr() and those
|
||||
using regular expressions have more support for inputs with a
|
||||
marked Latin-1 encoding.
|
||||
|
||||
* The character-classification functions used (by default) to
|
||||
replace the system iswxxxxx functions on Windows, macOS and AIX
|
||||
have been updated to Unicode 13.0.0.
|
||||
|
||||
The character-width tables have been updated to include new
|
||||
assignments in Unicode 13.0.0.
|
||||
|
||||
* The code for evaluating default (extended) regular expressions
|
||||
now uses the same character-classification functions as the rest
|
||||
of R (previously they differed on Windows, macOS and AIX).
|
||||
|
||||
* There is a build-time option to replace the system's
|
||||
wide-character wctrans C function by tables shipped with R: use
|
||||
configure option --with-internal-towlower or (on Windows)
|
||||
-DUSE_RI18N_CASE in CFLAGS when building R. This may be needed
|
||||
to allow tolower() and toupper() to work with Unicode characters
|
||||
beyond the Basic Multilingual Plane where not supported by system
|
||||
functions (e.g. on Solaris where it is the new default).
|
||||
|
||||
* R is more careful when truncating UTF-8 and other multi-byte
|
||||
strings that are too long to be printed, passed to the system or
|
||||
libraries or placed into an internal buffer. Truncation will no
|
||||
longer produce incomplete multibyte characters.
|
||||
|
||||
DEPRECATED AND DEFUNCT:
|
||||
|
||||
* Function plclust() from the package stats and
|
||||
package.dependencies(), pkgDepends(), getDepList(),
|
||||
installFoundDepends(), and vignetteDepends() from package tools
|
||||
are defunct.
|
||||
|
||||
* Defunct functions checkNEWS() and readNEWS() from package tools
|
||||
and CRAN.packages() from utils have been removed.
|
||||
|
||||
* R CMD config CXXCPP is defunct (it was deprecated in R 3.6.2).
|
||||
|
||||
* parallel::detectCores() drops support for Irix (retired in 2013).
|
||||
|
||||
* The LINPACK argument to chol.default(), chol2inv(),
|
||||
solve.default() and svd() has been defunct since R 3.1.0. It was
|
||||
silently ignored up to R 4.0.3 but now gives an error.
|
||||
|
||||
* Subsetting/indexing, such as ddd[*] or ddd$x on a DOTSXP
|
||||
(dot-dot-dot) object ddd has been disabled; it worked by accident
|
||||
only and was undocumented.
|
||||
|
||||
BUG FIXES:
|
||||
|
||||
* Many more C-level allocations (mainly by malloc and strdup) are
|
||||
checked for success with suitable alternative actions.
|
||||
|
||||
* Bug fix for replayPlot(); this was turning off graphics engine
|
||||
display list recording if a recorded plot was replayed in the
|
||||
same session. The impact of the bug became visible if resize the
|
||||
device after replay OR if attempted another savePlot() after
|
||||
replay (empty display list means empty screen on resize or empty
|
||||
saved plot).
|
||||
|
||||
* R CMD check etc now warn when a package exports non-existing S4
|
||||
classes or methods, also in case of no "methods" presence.
|
||||
(Reported by Alex Bertram; reproducible example and patch by
|
||||
Sebastian Meyer in PR#16662.)
|
||||
|
||||
* boxplot() now also accepts calls for labels such as ylab, the
|
||||
same as plot(). (Reported by Marius Hofert.)
|
||||
|
||||
* The help page for xtabs() now correctly states that addNA is
|
||||
setting na.action = na.pass among others. (Reported as PR#17770
|
||||
by Thomas Soeiro.)
|
||||
|
||||
* The R CMD check <pkg> gives a longer and more comprehensible
|
||||
message when DESCRIPTION misses dependencies, e.g., in Imports:.
|
||||
(Thanks to the contributors of PR#17179.)
|
||||
|
||||
* update.default() now calls the generic update() on the formula to
|
||||
work correctly for models with extended formulas. (As reported
|
||||
and suggested by Neal Fultz in PR#17865.)
|
||||
|
||||
* The horizontal position of leaves in a dendrogram is now correct
|
||||
also with center = FALSE. (PR#14938, patch from Sebastian
|
||||
Meyer.)
|
||||
|
||||
* all.equal.POSIXt() no longer warns about and subsequently ignores
|
||||
inconsistent "tzone" attributes, but describes the difference in
|
||||
its return value (PR#17277). This check can be disabled _via_
|
||||
the new argument check.tzone = FALSE as suggested by Sebastian
|
||||
Meyer.
|
||||
|
||||
* as.POSIXct() now populates the "tzone" attribute from its tz
|
||||
argument when x is a logical vector consisting entirely of NA
|
||||
values.
|
||||
|
||||
* x[[2^31]] <- v now works. (Thanks to the report and patch by
|
||||
Suharto Anggono in PR#17330.)
|
||||
|
||||
* In log-scale graphics, axis() ticks and label positions are now
|
||||
computed more carefully and symmetrically in their range,
|
||||
typically providing _more_ ticks, fulfilling wishes in PR#17936.
|
||||
The change really corresponds to an improved axisTicks() (package
|
||||
grDevices), potentially influencing grid and lattice, for
|
||||
example.
|
||||
|
||||
* qnorm(<very large negative>, log.p=TRUE) is now correct to at
|
||||
least five digits where it was catastrophically wrong,
|
||||
previously.
|
||||
|
||||
* sum(df) and similar "Summary"- and "Math"-group member functions
|
||||
now work for data frames df with logical columns, notably also of
|
||||
zero rows. (Reported to R-devel by Martin "b706".)
|
||||
|
||||
* unsplit() had trouble with tibbles due to unsound use of rep(NA,
|
||||
len)-indexing, which should use NA_integer_ (Reported to R-devel
|
||||
by Mario Annau.)
|
||||
|
||||
* pnorm(x, log.p = TRUE) underflows to -Inf slightly later.
|
||||
|
||||
* show(<hidden S4 generic>) prints better and without quotes for
|
||||
non-hidden S4 generics.
|
||||
|
||||
* read.table() and relatives treated an "NA" column name as missing
|
||||
when check.names = FALSE PR#18007.
|
||||
|
||||
* Parsing strings containing UTF-16 surrogate pairs such as
|
||||
"\uD834\uDD1E" works better on some (uncommon) platforms.
|
||||
sprintf("%X", utf8ToInt("\uD834\uDD1E")) should now give "1D11E"
|
||||
on all platforms.
|
||||
|
||||
* identical(x,y) is no longer true for differing DOTSXP objects,
|
||||
fixing PR#18032.
|
||||
|
||||
* str() now works correctly for DOTSXP and related exotics, even
|
||||
when these are doomed.
|
||||
|
||||
Additionally, it no longer fails for lists with a class and
|
||||
"irregular" method definitions such that e.g. lapply(*) will
|
||||
necessarily fail, as currently for different igraph objects.
|
||||
|
||||
* Too long lines in environment files (e.g. Renviron) no longer
|
||||
crash R. This limit has been increased to 100,000 bytes.
|
||||
(PR#18001.)
|
||||
|
||||
* There is a further workaround for FreeType giving incorrect
|
||||
italic font faces with cairo-based graphics devices on macOS.
|
||||
|
||||
* add_datalist(*, force = TRUE) (from package tools) now actually
|
||||
updates an existing data/datalist file for new content. (Thanks
|
||||
to a report and patch by Sebastian Meyer in PR#18048.)
|
||||
|
||||
* cut.Date() and cut.POSIXt() could produce an empty last interval
|
||||
for breaks = "months" or breaks = "years". (Reported as PR#18053
|
||||
by Christopher Carbone.)
|
||||
|
||||
* Detection of the encoding of 'regular' macOS locales such as
|
||||
en_US (which is UTF-8) had been broken by a macOS change:
|
||||
fortunately these are now rarely used with en_US.UTF-8 being
|
||||
preferred.
|
||||
|
||||
* sub() and gsub(pattern, repl, x, *) now keep attributes of x such
|
||||
as names() also when pattern is NA (PR#18079).
|
||||
|
||||
* Time differences ("difftime" objects) get a replacement and a
|
||||
rep() method to keep "units" consistent. (Thanks to a report and
|
||||
patch by Nicolas Bennett in PR#18066.)
|
||||
|
||||
* The \RdOpts macro, setting defaults for \Sexpr options in an Rd
|
||||
file, had been ineffective since R 2.12.0: it now works again.
|
||||
(Thanks to a report and patch by Sebastian Meyer in PR#18073.)
|
||||
|
||||
* mclapply and pvec no longer accidentally terminate parallel
|
||||
processes started before by mcparallel or related calls in
|
||||
package parallel (PR#18078).
|
||||
|
||||
* grep and other functions for evaluating (extended) regular
|
||||
expressions handle in Unicode also strings not explicitly flagged
|
||||
UTF-8, but flagged native when running in UTF-8 locale.
|
||||
|
||||
* Fixed a crash in fifo implementation on Windows (PR#18031).
|
||||
|
||||
* Binary mode in fifo on Windows is now properly detected from
|
||||
argument open (PR#15600, PR#18031).
|
||||
|
||||
|
||||
-------------------------------------------------------------------
|
||||
Tue May 18 13:10:15 UTC 2021 - Detlef Steuer <detlef.steuer@gmx.de>
|
||||
|
||||
|
90
R-base.spec
90
R-base.spec
@@ -25,7 +25,7 @@
|
||||
%define release 1
|
||||
|
||||
Name: R-base
|
||||
Version: 4.0.5
|
||||
Version: 4.1.0
|
||||
Release: %release
|
||||
%define Rversion %{version}
|
||||
Source0: R-%{version}.tar.bz2
|
||||
@@ -57,9 +57,11 @@ BuildRequires: perl
|
||||
BuildRequires: readline-devel
|
||||
BuildRequires: shadow
|
||||
BuildRequires: tcl-devel
|
||||
BuildRequires: texlive-ae
|
||||
BuildRequires: texlive-bibtex
|
||||
BuildRequires: texlive-cm-super
|
||||
BuildRequires: texlive-dvips
|
||||
BuildRequires: texlive-fancyvrb
|
||||
BuildRequires: texlive-helvetic
|
||||
BuildRequires: texlive-latex
|
||||
BuildRequires: texlive-makeindex
|
||||
@@ -263,6 +265,9 @@ This package provides the core of R, i.e. all that is in base.
|
||||
%lang(ko) %{_libdir}/R/library/translations/ko/LC_MESSAGES/R.mo
|
||||
%lang(ko) %{_libdir}/R/library/translations/ko/LC_MESSAGES/RGui.mo
|
||||
|
||||
%dir %{_libdir}/R/library/translations/lt/
|
||||
%dir %{_libdir}/R/library/translations/lt/LC_MESSAGES/
|
||||
|
||||
%dir %{_libdir}/R/library/translations/nn
|
||||
%dir %{_libdir}/R/library/translations/nn/LC_MESSAGES
|
||||
%lang(nn) %{_libdir}/R/library/translations/nn/LC_MESSAGES/R-base.mo
|
||||
@@ -847,6 +852,7 @@ This package provides R-stats, one of R-core packages.
|
||||
%license %{_libdir}/R/library/stats/COPYRIGHTS.modreg
|
||||
%{_libdir}/R/library/stats/demo/
|
||||
%{_libdir}/R/library/stats/DESCRIPTION
|
||||
%{_libdir}/R/library/stats/doc/
|
||||
%{_libdir}/R/library/stats/help/
|
||||
%{_libdir}/R/library/stats/html/
|
||||
%{_libdir}/R/library/stats/INDEX
|
||||
@@ -864,21 +870,74 @@ This package provides R-stats, one of R-core packages.
|
||||
%lang(en) %{_libdir}/R/library/translations/en@quot/LC_MESSAGES/stats.mo
|
||||
%lang(fr) %{_libdir}/R/library/translations/fr/LC_MESSAGES/R-stats.mo
|
||||
%lang(fr) %{_libdir}/R/library/translations/fr/LC_MESSAGES/stats.mo
|
||||
%lang(fr) %{_libdir}/R/library/translations/fr/LC_MESSAGES/utils.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-compiler.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-grid.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-methods.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-parallel.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-splines.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-utils.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/methods.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/parallel.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/splines.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/tcltk.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/utils.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/R-stats.mo
|
||||
%lang(it) %{_libdir}/R/library/translations/it/LC_MESSAGES/stats.mo
|
||||
%lang(ja) %{_libdir}/R/library/translations/ja/LC_MESSAGES/R-stats.mo
|
||||
%lang(ja) %{_libdir}/R/library/translations/ja/LC_MESSAGES/stats.mo
|
||||
%lang(ko) %{_libdir}/R/library/translations/ko/LC_MESSAGES/R-stats.mo
|
||||
%lang(ko) %{_libdir}/R/library/translations/ko/LC_MESSAGES/stats.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-base.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-compiler.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-grDevices.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-graphics.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-grid.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-parallel.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-stats4.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-tcltk.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R-utils.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/R.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/RGui.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/grDevices.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/graphics.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/grid.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/methods.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/parallel.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/splines.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/stats.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/tcltk.mo
|
||||
%lang(lt) %{_libdir}/R/library/translations/lt/LC_MESSAGES/utils.mo
|
||||
%lang(pl) %{_libdir}/R/library/translations/pl/LC_MESSAGES/R-stats.mo
|
||||
%lang(pl) %{_libdir}/R/library/translations/pl/LC_MESSAGES/stats.mo
|
||||
%lang(pt_BR) %{_libdir}/R/library/translations/pt_BR/LC_MESSAGES/R-stats.mo
|
||||
%lang(pt_BR) %{_libdir}/R/library/translations/pt_BR/LC_MESSAGES/stats.mo
|
||||
%lang(ru) %{_libdir}/R/library/translations/ru/LC_MESSAGES/R-stats.mo
|
||||
%lang(ru) %{_libdir}/R/library/translations/ru/LC_MESSAGES/stats.mo
|
||||
%lang(ru) %{_libdir}/R/library/translations/ru/LC_MESSAGES/utils.mo
|
||||
%lang(tr) %{_libdir}/R/library/translations/tr/LC_MESSAGES/R-stats.mo
|
||||
%lang(zh_CN) %{_libdir}/R/library/translations/zh_CN/LC_MESSAGES/R-stats.mo
|
||||
%lang(zh_CN) %{_libdir}/R/library/translations/zh_CN/LC_MESSAGES/stats.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-base.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-compiler.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-grDevices.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-graphics.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-grid.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-parallel.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-splines.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-stats.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-stats4.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-tcltk.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/R-utils.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/grDevices.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/grid.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/methods.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/parallel.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/splines.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/stats.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/tcltk.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/tools.mo
|
||||
%lang(zh_TW) %{_libdir}/R/library/translations/zh_TW/LC_MESSAGES/utils.mo
|
||||
|
||||
# stats4
|
||||
%package -n R-stats4
|
||||
@@ -1077,7 +1136,7 @@ Metapackage, Requires: all recommended Packages
|
||||
|
||||
%package -n R-boot
|
||||
Summary: Package provides recommended R-boot
|
||||
Version: 1.3.27
|
||||
Version: 1.3.28
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1109,7 +1168,7 @@ This packages provides R-boot, one of the recommended packages.
|
||||
|
||||
%package -n R-class
|
||||
Summary: Package provides recommended R-class
|
||||
Version: 7.3.18
|
||||
Version: 7.3.19
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1141,7 +1200,7 @@ This packages provides R-class, one of the recommended packages.
|
||||
|
||||
%package -n R-cluster
|
||||
Summary: Package provides recommended R-cluster
|
||||
Version: 2.1.1
|
||||
Version: 2.1.2
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1170,6 +1229,7 @@ This packages provides R-cluster, one of the recommended packages.
|
||||
%lang(fr) %{_libdir}/R/library/cluster/po/fr/
|
||||
%lang(ko) %{_libdir}/R/library/cluster/po/it/
|
||||
%lang(ko) %{_libdir}/R/library/cluster/po/ko/
|
||||
%lang(ko) %{_libdir}/R/library/cluster/po/lt/
|
||||
%lang(pl) %{_libdir}/R/library/cluster/po/pl/
|
||||
|
||||
%package -n R-codetools
|
||||
@@ -1225,7 +1285,7 @@ This packages provides R-foreign, one of the recommended packages.
|
||||
|
||||
%package -n R-KernSmooth
|
||||
Summary: Package provides recommended R-KernSmooth
|
||||
Version: 2.23.18
|
||||
Version: 2.23.20
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1254,7 +1314,7 @@ This packages provides R-KernSmooth, one of the recommended packages.
|
||||
|
||||
%package -n R-lattice
|
||||
Summary: Package provides recommended R-lattice
|
||||
Version: 0.20.41
|
||||
Version: 0.20.44
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1280,13 +1340,14 @@ This packages provides R-lattice, one of the recommended packages.
|
||||
%lang(de) %{_libdir}/R/library/lattice/po/de/
|
||||
%lang(en) %{_libdir}/R/library/lattice/po/en*/
|
||||
%lang(fr) %{_libdir}/R/library/lattice/po/fr/
|
||||
%lang(ko) %{_libdir}/R/library/lattice/po/it/
|
||||
%lang(ko) %{_libdir}/R/library/lattice/po/ko/
|
||||
%lang(pl) %{_libdir}/R/library/lattice/po/pl/
|
||||
%{_libdir}/R/library/lattice/R/
|
||||
|
||||
%package -n R-MASS
|
||||
Summary: Package provides recommended R-MASS
|
||||
Version: 7.3.53.1
|
||||
Version: 7.3.54
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1319,10 +1380,10 @@ This packages provides R-MASS, one of the recommended packages.
|
||||
|
||||
%package -n R-Matrix
|
||||
Summary: Package provides recommended R-Matrix
|
||||
Version: 1.3.2
|
||||
Version: 1.3.3
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
Obsoletes: R-Matrix-devel
|
||||
Obsoletes: R-Matrix-devel < 1.3.3
|
||||
Provides: R-Matrix-devel
|
||||
# This is for backwards-compatibility only. Nothind *should*
|
||||
# (Build)Require R-Matrix-devel
|
||||
@@ -1352,7 +1413,9 @@ This packages provides R-Matrix, one of the recommended packages.
|
||||
%lang(de) %{_libdir}/R/library/Matrix/po/de/
|
||||
%lang(en) %{_libdir}/R/library/Matrix/po/en*/
|
||||
%lang(fr) %{_libdir}/R/library/Matrix/po/fr/
|
||||
%lang(ko) %{_libdir}/R/library/Matrix/po/it/
|
||||
%lang(ko) %{_libdir}/R/library/Matrix/po/ko/
|
||||
%lang(ko) %{_libdir}/R/library/Matrix/po/lt/
|
||||
%lang(pl) %{_libdir}/R/library/Matrix/po/pl/
|
||||
%{_libdir}/R/library/Matrix/R/
|
||||
%{_libdir}/R/library/Matrix/test-tools.R
|
||||
@@ -1383,7 +1446,7 @@ This packages provides R-Matrix, one of the recommended packages.
|
||||
|
||||
%package -n R-mgcv
|
||||
Summary: Package provides recommended R-mgcv
|
||||
Version: 1.8.34
|
||||
Version: 1.8.35
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1408,6 +1471,7 @@ This packages provides R-mgcv, one of the recommended packages.
|
||||
%lang(de) %{_libdir}/R/library/mgcv/po/de/
|
||||
%lang(en) %{_libdir}/R/library/mgcv/po/en*/
|
||||
%lang(fr) %{_libdir}/R/library/mgcv/po/fr/
|
||||
%lang(ko) %{_libdir}/R/library/mgcv/po/it/
|
||||
%lang(ko) %{_libdir}/R/library/mgcv/po/ko/
|
||||
%lang(pl) %{_libdir}/R/library/mgcv/po/pl/
|
||||
|
||||
@@ -1446,7 +1510,7 @@ This packages provides R-nlme, one of the recommended packages.
|
||||
|
||||
%package -n R-nnet
|
||||
Summary: Package provides recommended R-nnet
|
||||
Version: 7.3.15
|
||||
Version: 7.3.16
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1509,7 +1573,7 @@ This packages provides R-rpart, one of the recommended packages.
|
||||
|
||||
%package -n R-spatial
|
||||
Summary: Package provides recommended R-spatial
|
||||
Version: 7.3.13
|
||||
Version: 7.3.14
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
@@ -1542,7 +1606,7 @@ This packages provides R-spatial, one of the recommended packages.
|
||||
|
||||
%package -n R-survival
|
||||
Summary: Package provides recommended R-survival
|
||||
Version: 3.2.10
|
||||
Version: 3.2.11
|
||||
Release: %release
|
||||
Requires: R-base
|
||||
|
||||
|
Reference in New Issue
Block a user