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% -*- coding: utf-8 -*-\newcommand{\Rlogo}{\if{html}{\figure{../../html/Rlogo.svg}{options: class="toplogo" alt="[R logo]"}}\if{latex}{\figure{Rlogo.pdf}{options: width=0.5in}}}\name{NEWS}\title{R News}\encoding{UTF-8}\section{\Rlogo CHANGES IN R-devel}{\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item .}}\subsection{NEW FEATURES}{\itemize{\item .}}\subsection{INSTALLATION}{\itemize{\item .}}\subsection{PACKAGE INSTALLATION}{\itemize{\item .}}\subsection{C-LEVEL FACILITIES}{\itemize{\item \code{Rboolean} has been replaced by \code{bool} in header\file{R_ext/Boolean.h}. As \code{bool} is usually stored in onebyte and \code{Rboolean} in four, this is likely to necessitate acomplete re-install (of \R, packages with compiled code andalternative front-ends).To ease detection of which version is in use, this one defines\code{R_NEW-RBOOLEAN}.}}}\section{\Rlogo CHANGES IN R 4.5.0}{%% \subsection{SIGNIFICANT USER-VISIBLE CHANGES}{%% \itemize{%% \item .%% }%% }\subsection{NEW FEATURES}{\itemize{\item \code{as.integer(rl)} and hence \code{as.raw(rl)} now work fora \code{list} of \code{raw(1)} elements, as proposed by \I{MichaelChirico}'s \PR{18696}.\item \pkg{graphics}' \code{grid()} gains optional argument\code{nintLog}.\item New functions \code{check_package_urls()} and\code{check_package_dois()} in package \pkg{tools} for checkingURLs and \abbr{DOI}s in package sources.\item New \code{head()} and \code{tail()} methods for class\code{"ts"} time series, proposed by Spencer Graves on R-devel.\item New \code{qr.influence()} function, a \dQuote{bare bones}interface to the \code{lm.influence()} leave-one-out diagnosticscomputations; wished for in \PR{18739}.\item Package \code{citation()} results auto-generated from thepackage metadata now also provide package \abbr{DOI}s for CRAN andBioconductor packages.\item New function \code{grepv()} identical to \code{grep()} exceptfor the default \code{value = TRUE}.\item \code{methods(<pkg>:::<genfun>)} now does report methods whenneither the generic nor the methods have been exported.\item \code{pdf()} gains an \code{author} argument to set thecorresponding metadata field, and logical arguments\code{timestamp} and \code{producer} to optionally omit therespective metadata.(Thanks to \I{Edzer Pebesma}.)\item \code{grDevices::glyphInfo()} gains a \code{rot} argumentto allow per-glyph rotation.(Thanks to \I{Daniel Sabanes Bove}.)\item Package \pkg{tools} now exports functions\code{CRAN_current_db()}, \code{CRAN_aliases_db()},\code{CRAN_rdxrefs_db()}, \code{CRAN_archive_db()}, and\code{CRAN_authors_db()}.\item Package \pkg{tools} now exports functions\code{R()} and \code{parse_URI_reference()}.\item Package \pkg{tools} now exports functions\code{base_aliases_db()} and \code{base_rdxrefs_db()}.\item It is now possible to set the background color for row andcolumn names in the data editor on Windows (\command{Rgui}).\item \command{Rterm} on Windows now accepts input lines of unlimitedlength.\item \code{file.info()} on Windows now provides file owner name anddomain.\item \code{Sys.info()} on Windows now provides current user domain.\item \code{findInterval()} gets new arguments \code{checkSorted}and \code{checkNA} which allow skipping relatively costly checks;related to \PR{16567}.\item \code{pnorm(x)} underflows more gracefully.\item \code{get(nam, env)} now signals a \emph{classed} error,\code{"getMissingError"}, as \dQuote{subclass} of\code{"missingArgError"} where the latter is used also in similarsituations, e.g., \code{f <- function(x) exp(x); try(f())} .\item The set operations now avoid the \code{as.vector()}transformation for same-kind apparently vector-like operands.\item \code{md5sum()} can be used to compute an MD5 hash of a rawvector of bytes by using the \code{bytes=} argument insteadof \code{files=}. The two arguments are mutually exclusive.\item Added function \code{sha256sum()} in package \pkg{tools}analogous to \code{md5sum()} implementing the \abbr{SHA}-256 hashingalgorithm.\item The \code{xtfrm()} method for class \code{"AsIs"} is nowconsiderably faster thanks to a patch provided by \I{Ivan Krylov}.\item The \code{merge()} method for data frames will no longerconvert row names used for indexing using \code{I()}, which willlead to faster execution in cases where \code{sort = TRUE} and\code{all.x} and/or \code{all.y} are set to \code{TRUE}.\item The \pkg{methods} package internal function\code{.requirePackage()} now calls \code{requireNamespace(p)}instead of \code{require(p)}, hence no longer adding packages tothe \code{search()} path in cases methods or class definitions areneeded. Consequently, previous workflows relying on the oldbehaviour will have to be amended by adding corresponding\code{library(p)} calls.\item More \R-level messages use a common format containing\code{"character string"} for more consistency and lesstranslation work.\item \code{available.packages()} and \code{install.packages()} getan optional switch \code{cache_user_dir}, somewhat experimentally.\item The \code{sunspot.month} data have been updated to Oct 2024;because of recalibration also historical numbers are changed, and wekeep the previous data as \code{sunspot.m2014} forreproducibility.\item The \code{quartz()} device now supports alpha masks. Thanksto \I{George Stagg}, \I{Gwynn Gebeyhu}, \I{Heather Turner}, and\I{Tomek Gieorgijewski}.\item The \code{print()} method for date-time objects (\code{POSIX.t})gets an optional \code{digits} argument for \emph{fractional}seconds, passed to improved \code{format.POSIXlt()}; consequently,\code{print(<date.time>, digits = n)} allows to print fractions ofseconds.\item \code{install.packages()} and \code{download.packages()}download packages simultaneously using \code{libcurl}, significantlyreducing download times when installing or downloading multiplepackages.\item Status reporting in \code{download.file()} has been extended toreport the outcome for individual files in simultaneous downloads.\item The Rd \verb{\link} macro now allows markup in the link textwhen the topic is given by the optional argument, e.g.,\samp{\link[=gamma]{\eqn{\Gamma(x)}}}.\item If \code{La_library()} is empty, \code{sessionInfo()} stillreports \code{La_version()} when available.\item \code{seq.int(from, to, by, ....)} when \eqn{|by| = 1} nowbehaves as if \code{by} was omitted, and hence returns \code{from:to},possibly integer.\item \code{seq.Date(from, to, by, ....)} and \code{seq.POSIXt(..)}now also work when \code{from} is missing and sufficient furtherarguments are provided, thanks to \I{Michael Chirico}'s report, patchproposal in \PR{17672} and \sQuote{\I{R Dev Day}} contributions.The \code{Date} method also works for \code{seq(from, to)}, when\code{by} is missing and now defaults to \code{"1 days"}.It is now documented (and tested) that the \code{by} string may be\emph{abbreviated} in both \code{seq} methods.Both methods return or keep internal type \code{"integer"} moreconsistently now. Also, \code{as.POSIXct({})} is internally integer.\item \code{duplicated()}, \code{unique()}, and \code{anyDuplicated()}now also work for class \code{expression} vectors.\item New function \code{use()} to use packages in R scripts withfull control over what gets added to the search path. (Actuallyalready available since \R 4.4.0.)\item There is some support for \command{zstd} compression oftarballs in \code{tar()} and \code{untar()}. (This depends on OSsupport of \code{libzstd} or by \command{tar}.)\item \code{print(summary(<numbers>))} gets new optional argument\code{zdigits} to allow more flexible and consistent (double)rounding. The current default \code{zdigits = 4L} is somewhatexperimental. Specifying both \code{digits = *, zdigits = *} allowsbehaviour independent of the global \code{digits} option.\item The \code{format()} method for \code{"difftime"} objects gets anew back compatible option \code{with.units}.\item A \code{summary()} method for \code{"difftime"} objects whichprints nicely, similar to those for \code{"Date"} and \code{"POSIXct"}.\item \code{unique()}'s default method now also deals with\code{"difftime"} objects.\item \code{optimize(f, *)} when \code{f(x)} is not finite saysmore about the value in its \code{warning} message. It no longerreplaces \code{-Inf} by the largest \emph{positive} finite number.\item The documentation of \code{gamma()} and \code{is.numeric()}is more specific, thanks to the contributors of \PR{18677}.\item New dataset \code{gait} thanks to \I{Heather Turner} and\I{Ella Kaye}, used in examples.\item New datasets \code{penguins} and \code{penguins_raw} thanks to\I{Ella Kaye}, \I{Heather Turner}, and \I{Kristen Gorman}.}}\subsection{BLAS and LAPACK}{\itemize{\item The bundled BLAS and LAPACK sources have been updated tothose shipped as part of January 2025's LAPACK 3.12.1.\item It is intended that this will be the last update to BLAS andLAPACK in the \R sources. Those building \R from source areencouraged to use external BLAS and LAPACK and this will be required infuture.\item This update was mainly bug fixes but contained a barelydocumented major change. The set of BLAS routines has beenunchanged since 1988, so throughout \R's history. This updateintroduced new BLAS routines \code{dgemmtr} and \code{zgemmtr}which are now used by LAPACK routines. This means that BLASimplementations are no longer interchangeable.\item To work around this, \R can be configured with option\option{--with-2025blas} which arranges for the 2025 BLASadditions to be compiled into \code{libRlapack} (the internalLAPACK, not built if an external LAPACK is used).This option allows the continuation of the practice of swappingthe BLAS in use by \I{symlinking} \file{lib/libRblas.*}. It hasthe disadvantage of using the reference BLAS version of the 2025routines whereas an enhanced BLAS might have an optimized version(\I{OpenBLAS} does as from version 0.3.29).\item Windows builds currently use the internal LAPACK and bydefault the internal BLAS: notes on how to swap the latter\emph{via} \file{Rblas.dll} are in file\file{src/extra/blas/Makefile.win}.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item A C23 compiler (if available) is now selected by default forcompilation of \R and packages. \R builds can opt out \emph{via} the\command{configure} flag \option{--without-C23}, unless thespecified or default (usually \command{gcc}) compiler defaults to C23:\command{gcc}\sspace{}15 does.%% GCC 13 was released in 2023-04, LLVM 18 was 2024-03, 15 was 2022-09%% Apple clang 14.0.3 was too old: 15 is the earliest that can be%% installed on macOS 15.3%% https://en.cppreference.com/w/c/23A C23 compiler is known to be selected with\command{gcc}\sspace{}13--15 (as used on Windows),\I{LLVM} \command{clang}\sspace{}18--20 (and 15 should),Apple \command{clang}\sspace{}15--16 andIntel\sspace{}2024.2 (and 2022.2 should).Current binary distributions on macOS use Apple\command{clang}\sspace{}14 and so do not use C23.\item The minimum \command{autoconf} requirement for a maintainerbuild has been increased to \command{autoconf}\sspace{}2.72.\item Building the HTML and Info versions of the R manuals nowrequires \command{texi2any} from \I{Texinfo} 6.1 or later.\item Failures in building the manuals under \file{doc} now abortthe installation, removing any file which caused the failure.\item Control of symbol visibility is now supported on macOS (theprevious check only worked on ELF platforms).\item There is now support for installing the debug symbols forrecommended packages on macOS: see \samp{REC_INSTALL_OPT} in file\file{config.site}.\item \command{configure} is now able to find an external\code{libintl} on macOS (the code from an older GNU \I{gettext}distribution failed to try linking with the macOS Core Foundationframework).}}\subsection{INSTALLATION on WINDOWS}{\itemize{\item Both building \R and installing packages use the C compilerin C23 mode.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item \code{is.R()} is defunct. Environment variable\env{_R_DEPRECATED_IS_R_} no longer has any effect.\item Deprecated (for more than 9 years!) functions\code{linearizeMlist}, \code{listFromMlist}, and \code{showMlist} andthe \code{"MethodsList"} class for S4 method handling were removedfrom package \pkg{methods}.Deprecated functions \code{balanceMethodsList}, \code{emptyMethodsList},\code{inheritedSubMethodLists}, \code{insertMethod},\code{insertMethodInEmptyList}, \code{makeMethodsList},\code{mergeMethods}, \code{MethodsList}, \code{MethodsListSelect}, and\code{SignatureMethod} were made defunct, as were the\code{"MethodsList"} branches of functions \code{assignMethodsMetaData},\code{finalDefaultMethod}, and \code{MethodAddCoerce}.\item \code{getMethods(*, table = TRUE)} is deprecated.\item Building with the bundled (and old) version of\code{libintl} is deprecated and now gives a \command{configure}warning. This should be selected only if neither the OS's\code{libc} (as on GNU Linux) nor an external \code{libintl}library (as on Alpine Linux) provide suitable functions.Instead install \code{libintl} from a recent version of GNU\I{gettext} or use \command{configure} option\option{--disable-nls}.\item The deprecated \code{xfig()} graphics device has been removed.}}\subsection{PACKAGE INSTALLATION}{\itemize{\item Packages are now installed using C23 where supported by theOS and \R build.Packages using \R's compiler settings can ask \strong{not} to use C23\emph{via} including \code{USE_C17} in \code{SystemRequirements}or can be installed by \command{R CMD INSTALL --use-C17}.(Some packages ignore these settings in their \command{configure}script or when compiling in sub-directories of \file{src}, aswill those using a \file{src/Makefile}.)\item Source installs now report the package version in the log.\item There is preliminary support for C++26 with GCC \eqn{>=} 14, Apple\command{clang++} \eqn{>=} 16 and \I{LLVM} \command{clang++} \eqn{>=} 17.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The non-API and hidden entry points \code{Rf_setIVector},\code{Rf_setRVector} and \code{Rf_setSVector} have been removed.\item The internal code for changing the parent of an environmentnow signals an error if the new parent is not an environment or ifthe change would create a cycle in the parent chain.\item \code{SET_TYPEOF} now signals an error unless the old andnew types have compatible memory structure and content. Use of\code{SET_TYPE} in package C code should be avoided and may bedeprecated in the near future. It is better to allocate an objectof the desired type in the first place.\item The set of LAPACK (double and complex) routines declared inthe headers \file{R_ext/Lapack.h} and \file{R_ext/Applic.h} hasbeen extended, mostly to routines actually in use by packages.\item Memory allocation messages now use the (non-SI notation)\code{"Mb"}, \code{"Gb"} , \dots, and \code{"Mbytes"} strings as\emph{arguments} instead of as part of the (translatable format)string. This is one step for \PR{18297}; from \I{Henrik Bengtsson}.\item Header \file{R_ext/Constants.h} (included by \file{R.h}) nowalways includes header \file{float.h} or \file{cfloat} forconstants such as \code{DBL_MAX}.\item Strict R headers are now the default. This removes thelegacy definitions of \code{PI}, \code{Calloc}, \code{Realloc} and\code{Free}: use \code{M_PI}, \code{R_Calloc}, \code{R_Realloc} or\code{R_Free} instead.\item The deprecated and seemingly never-used S-compatibilitymacros \code{F77_COM} and \code{F77_COMDECL} have been removedfrom header \file{R_ext/RS.h}.\item The \code{enum} \code{Rboolean} defined in header\file{R_ext/Boolean.h} now has a fixed underlying type of\code{int} on platforms whose C compiler supports this.This is a C23 feature (taken from C++11) and also supported in allC standards by some versions of \code{clang} (from \I{LLVM} andApple) and (with a warning when using \option{-pedantic}) by GCCwhen in C17 mode.A fair amount of code has assumed this: it may be changed to asmaller type in future. In particular, as standard compilers donot check the validity of assignment to an \code{enum}, it has beenpossible to assign \code{NA_INTEGER} to an \code{Rboolean}variable, coerce it to \code{int} and recover the value.%% There are claims that the Green Hills compiler can.%% In C++ rhis was confirmed as undefined behaviour in%% https://cplusplus.github.io/CWG/issues/1766.html%% Some versiins of UBSAN caan check it with -fsanitize=enumIf there were a platform which used an underlying type of adifferent size this would be an \abbr{ABI}-breaking change (but we areunaware of any such platform).\item Header \file{R_ext/Boolean.h} now ensures that a \code{bool}type is available either as a keyword (C23 and C++) or byincluding the C99 header \file{stdbool.h}. This is being usedinternally in \R to replace \code{Rboolean} by \code{bool}.\item There are a new functions \code{asRboolean} and\code{asBool}, variants of \code{asLogical} more suited toconverting logical arguments to \code{Rboolean} or to\code{bool}. They require a length-one input and throw an error ifthat evaluates to \code{NA}.\item Header \file{R_exts/Error.h} now ensures that\code{Rf_error} and similar are given a \code{noreturn}attribute when used from C++ under all compilers.\item Header \file{R_exts/Utils.h} no longer contains adeclaration for \code{77_SUB(interv)}. This is intended to becalled from Fortran and was wrongly declared: \code{LOGICAL} inFortran corresponds to \code{int *} not \code{Rboolean *}.}}\subsection{C-LEVEL API}{\itemize{\item The \sQuote{Writing R Extensions} \I{Texinfo} source nowcontains very experimental annotations for more clearlyidentifying the API status of C entry points. These annotationsare used to produce indices for API, experimental API, andembedded API entry points in the rendered versions. This is verypreliminary and may be dropped if a better approach emerges.Also now for Fortran-callable entry points which are part of the API.\item \sQuote{Writing R Extensions} has a new section\sQuote{Moving into C API compliance} to help package authors moveaway from using non-API endpoints. This section will continue tobe updated as work on clarifying and tightening the C APIcontinues.\item New API function \code{R_mkClosure}. This checks that itsarguments are valid and should be used instead of\code{allocSExp(CLOSXP} followed by \code{SET_FORMALS},\code{SET_BODY}, and \code{SET_CLOENV}.\item New API functions \code{R_ClosureFormals},\code{R_ClosureBody}, and \code{R_ClosureEnv} for extractingclosure components. The existing functions \code{R_ClosureExpr}and \code{R_BytecodeExpr} have also been added to the API.\item New API function \code{R_ParentEnv} corresponding to \R's\code{parent.env()}.\item Further non-API entry points have been added to those reportedby \command{R CMD check}: \code{COMPLEX0}, \code{ddfind},\code{DDVAL}, \code{ENSURE_NAMEDMAX}, \code{ENVFLAGS},\code{FRAME}, \code{HASHTAB}, \code{INTERNAL}, \code{IS_ASCII},\code{IS_UTF8}, \code{LEVELS}, \code{NAMED}, \code{PRSEEN},\code{RDEBUG}, \code{REAL0}, \code{Rf_findVarInFrame3},\code{SET_BODY}, \code{SET_CLOENV}, \code{SET_FORMALS},\code{SET_PRSEEN}, \code{SET_RDEBUG}, \code{STRING_PTR},\code{SYMVALUE}, and \code{VECTOR_PTR}. Any declarations for thesein public header files will be removed in the near future, andthey will be hidden where possible.\item Some \command{R CMD check} \samp{NOTE}s on the use ofnon-API entry points have been upgraded to \samp{WARNING}s inpreparation for removing declarations and, where possible, hidingthese entry points.\item Additional non-API entry points have been added to thosereported by \command{R CMD check}: \code{IS_LONG_VEC},\code{PRCODE}, \code{PRENV}, \code{PRVALUE}, \code{R_nchar},\code{Rf_NonNullStringMatch}, \code{R_shallow_duplicate_attr},\code{Rf_StringBlank}, \code{SET_TYPEOF}, \code{TRUELENGTH},\code{XLENGTH_EX}, and \code{XTRUELENGTH}.\item Enable defining \env{R_NO_REMAP_RMATH} and calling\code{Rf_*()} as has been documented in\sQuote{Writing R Extensions} for a while, fixing \PR{18800}thanks to \I{Mikael Jagan} and \I{Suharto Anggono}.\item \code{R_GetCurrentSrcref(skip)} now skips calls ratherthan \code{srcref}s, consistent with counting items in the\code{traceback()} display. If \code{skip == NA_INTEGER},it searches for the first \code{srcref}, starting atthe current evaluation state and proceeding through thecall stack; otherwise, it returns the \code{srcref}of the requested entry from the call stack.}}\subsection{UTILITIES}{\itemize{\item \command{R CMD INSTALL} (and hence \command{check}) nowcompile C++ code with \code{-DR_NO_REMAP}.\sQuote{Writing R Extensions} has been revised to describe the remappedentry points, for with the \code{Rf_} prefix remains optional whenused from C code (but is recommended for new C code).\item \command{R CMD check --as-cran} notes bad parts in the\file{DESCRIPTION} file's URL fields.\item \command{R CMD check} now reports more warnings onlong-deprecated/obsolete Fortran features reported by\command{gfortran -Wall}. For hints on how to modernize these,see\url{https://fortranwiki.org/fortran/show/Modernizing+Old+Fortran}.\item Since almost all supported \R versions now use UTF-8,\command{R CMD check} no longer by default reports on markedUTF-8 or Latin-1 strings in character data. Set environmentvariable \env{_R_CHECK_PACKAGE_DATASETS_SUPPRESS_NOTES_} to afalse value for the previous behaviour.\item \code{tools::checkDocFiles()} notes more cases ofusage documentation without corresponding \verb{\alias}.\item \code{R CMD check} with a true value for environment variable\env{_R_CHECK_BASHISMS_} checks more thoroughly, including for\command{bash} scripts and bashisms in components of\command{autoconf}-generated \command{configure} scripts.\item \command{R CMD check} gains option \option{--run-demo} tocheck demo scripts analogously to tests.\item \code{R CMD build} now supports \option{--compression=zstd}on platforms with sufficient support for \command{zstd}.\item \code{tools::texi2pdf(..., texinputs=\var{paths})} now\emph{pre}pends the specified \var{paths} to \env{TEXINPUTS}.When building \R itself (\file{doc/NEWS.pdf} and base vignettes)or package manuals using \command{R CMD Rd2pdf}, it is ensuredthat this \R's \file{Rd.sty} takes precedence over any other(incompatible) versions in default \I{\dQuote{texmf trees}}.\item \code{tools::Rd2latex()} no longer outputs an\samp{\\inputencoding{utf8}} line by default;such a declaration is obsolete since \LaTeX 2018-04-01.}}\subsection{BUG FIXES}{\itemize{\item \code{update_pkg_po()} now copies \file{.mo} files to the\pkg{translation} package even if a \file{DESCRIPTION} fileexists, thanks to \I{Michael Chirico} fixing \PR{18694}.\item Auto-generated \code{citation()} entries no longer include(additional) URLs in the \samp{note} field (\PR{18547}).\item \code{as.data.frame.list()} gets a new option \code{new.names}and now preserves \code{NA} names, thus fixing the \code{format()}method for data frames, and also bug \PR{18745}.\I{Relatedly}, the \code{format()} method gets an option \code{cut.names}.\item \code{stem()} formats correctly also in cases where roundingup, e.g., from 9.96 to 10 needs more digits; thanks to \I{EllaKaye} and \I{Kelly Bodwin}, fixing \PR{8934} during \sQuote{\I{RDev Day}} at \I{useR!2024}.Additionally, \code{stem(x)} now works normally also when\code{length(x) == 1}.\item \pkg{tools}' \code{toTitleCase()} now works better, fixing\PR{18674}, thanks to \I{Shannon Pileggi}, \I{Sarah Zeller},\I{Reiko Okamoto}, and \I{Hugo Gruson}'s \sQuote{\I{R Dev Day}}effort.\item Printing matrices (typically with many rows and or columns)now also omits columns when desirable according to option\code{max.print}, or argument \code{max}, respectively.This is primarily the work of \I{Lorena Abad},\I{Ekaterina Akimova}, \I{Hanne Oberman}, \I{Abhishek Ulayil},and \I{Lionel Henry} at the \sQuote{\I{R Dev Day}}, thus fixing\PR{15027}.\item \code{Sys.setLanguage()} now works in an \command{LC_ALL=C R} sessionon some platforms, warns about \emph{some} failures to change thelanguage and gets an option related to these warning messages.\item Printing \code{ls.str()} now shows \code{"<missing>"} even when\R's language setting is not English.\item \code{xyTable()} now handles and reports \code{NA}sfixing \PR{18654}.Thanks to \I{Heather Turner} and \I{Zhian Kamvar} for report and patch.\item \code{as(*, "raw")} now works as documented, thanks to \I{MikaelJagan}'s \PR{18795}.\item Informational messages of e.g., \code{print(1:1e4, max=1000)},now correctly mention \code{max} in addition to\code{getOption("max.print")}.\item \code{rowSums(A, dims = dd)}, \code{colMeans(..)}, etc, give amore helpful error message when \code{dd} is not of length one,thanks to \I{Michael Chirico}'s \PR{18811}.\item \code{seq.Date()} no longer explicitly coerces results frominteger to double, analogously with \code{seq.default()},\code{seq.int()} and \code{seq.POSIXt()}, resolving a \emph{modified}\PR{18782}.\item \code{axisTicks(usr, ...)} documentation clarification for\code{log = TRUE}, fixing bug \PR{18821} thanks to \I{Duncan Murdoch}.\item \code{debug()} and \code{debugonce(fun)} now also accept astring \code{fun} when it names an S4 generic, fixing \PR{18822}thanks to \I{Mikael Jagan}.\item \code{debugonce(<S4-simple-body>, signature=*)} now workscorrectly when \dQuote{called twice}, fixing \PR{18824} thanks to\I{Mikael Jagan}.\item \code{format(dtime, digits=* / format=*)} is more consistentwhen the \code{POSIXt} date-time object \code{dtime} has fractional(non integer) seconds. Fixes \PR{17350}, thanks to new contributionsby \I{LatinR}'s \sQuote{\I{R Dev Day}} participants, \I{HeatherTurner} and \I{Dirk Eddelbuettel}; also fixes more cases, notablywhen \code{format} contains "%OS<nodigit>".\item \code{options(scipen = NULL)} and other invalid values nowsignal an error instead of invalidating ops relying on a finiteinteger value. Values outside the range -9 .. 9999 are now warnedabout and set to a boundary or to the default \code{0}, e.g., incase of an \code{NA}.\item \code{cbind()} could segfault with \code{NULL} inputs.(Seen when \R was built with \command{gcc-14}, \abbr{LTO} and C99inlining semantics.)\item Fix segfault on \code{quartz()} from \code{grid.glyph()}call with \code{glyphInfo()} that describes non-existent font(\PR{18784}). Thanks to \I{Tomek Gieorgijewski}.\item \code{format()} etc, using \code{decimal.mark = s}, by defaultgetting \code{s <- getOption("OutDec")}, signals a warning (to becomean error in the future) when \code{s} is not a string with exactlyone character.\item When \code{s <- getOption("OutDec")} is not a string of onecharacter, a warning is signalled now whenever it is used in internalC code, notably when calling the default methods of \code{format()}.\item \code{pwilcox()} and \code{qwilcox()} now check for userinterrupt less frequently.\item \code{summary(<stl>)} (which prints directly) finally gets thesame \code{digits} default as the formatting printing of default\code{summary()} method results, and it is documented explicitly.\item \code{options(show.error.locations = TRUE)} onceagain shows the most recent known location when anerror is reported. Setting its value to \code{"bottom"}is no longer supported. Numerical values are convertedto logical.\item C API function \code{R_GetCurrentSrcref(skip)} nowreturns \code{srcref} entries correctly. (Note that thereis also a change to the interpretation of \code{skip};see the C-LEVEL API entry above.)\item \code{tools::Rd2latex()} now removes leading and trailingspaces from \verb{\alias} entries as documented, fixing indexingand linking hiccups in some PDF manuals.\item \command{R CMD Rd2pdf} can now render the package manual froma \option{--latex} installation also when the help contains figures.\item The argument of \code{as.environment()} is now named \code{x},not \code{object}, as was always documented and shown whenprinting it; thanks to \I{Gael Millot}'s \PR{18849}.\item When \command{R CMD check} aims at getting the time+date from aworld clock, it is more robust against unexpected non-error results,thanks to \I{Michael Chirico}'s \PR{18852}.\item The \code{tools::parseLatex()} parser made several parsingerrors (\PR{18855}).\item Error messages produced by \code{tools::parseLatex()} arenow more readable (\PR{18855}).\item \command{R CMD build <pkg>} excludes more file patternswhen it tars the <pkg> directory, fixing both \PR{18432} and\PR{18434}, for \command{vim} and \command{GNU Global}\command{emacs} users, thanks to \I{Dirk Eddelbuettel}'s patch.\item \code{quantile()}'s default method gets an option \code{fuzz}to protect against floating point inaccuracy before rounding, thusfixing \PR{15811} and, \I{en passant}, \PR{17683}.\item Printing arrays now also omits columns, rows and slices whendesirable according to option \code{max.print}, or argument\code{max}, respectively, addressing most of the remaining part of\PR{15027}, thanks to \I{Sherry Zhang}'s patch.\item \code{drop.terms(y ~ w, 1)} and similar now work, thanks to\I{Benjamin Sommer}'s report in \PR{18861} and collaboration with\I{Heather Turner} improving \code{reformulate()}.\item Many arguments which should be length-1 logical are checkedmore thoroughly. The most commonly seen errors are in\code{unlink(, recursive)}, \code{tempdir()} and the \code{na.rm}arguments of \code{max()}, \code{min()}, \code{sum()}, \dots.\code{grep()}, \code{strsplit()} and similar tooknon-\code{TRUE}/\code{FALSE}values of their logical arguments as \code{FALSE}, but these werealmost always mismatches to unnamed arguments and are now reportedas \code{NA}.\item \code{vignette("reshape")} is now also available on Windows.}}}\section{\Rlogo CHANGES IN R 4.4.3}{\subsection{INSTALLATION}{\itemize{\item \R can be installed using C23 (for example with\option{-std=gnu23} or \option{-std=gnu2x}) with recent compilersincluding \command{gcc} 12--14, Apple \command{clang} 15--16, \I{LLVM}\command{clang} 17--20 and Intel \command{icx} 2024.2.It can be installed with the upcoming (at the time of writing)\command{gcc} 15, which defaults to C23.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The functions \code{R_strtod} and \code{R_atof} now allowhexadecimal constants without an exponent, for compatibility withtheir C99 versions (\PR{18805}).}}\subsection{UTILITIES}{\itemize{\item \command{R CMD build} and \command{R CMD check} now allowreference output for demo scripts (\file{demo/\var{demo}.Rout.save}files) to be shipped with the package, as proposed by\I{Torsten Hothorn} in \PR{18816}.}}\subsection{BUG FIXES}{\itemize{\item \code{kappa(A, exact=TRUE)} for singular \code{A} returns\code{Inf} more generally, fixing \PR{18817} reported by\I{Mikael Jagan}.\item Fixed URLs of the sun spots (\code{sunspot.month} etc) datasets and mention future changes due to recalibration.\item The parser now accepts hexadecimal constants with a decimalpoint without an exponent (taken as \code{p0}) as documented in\code{?NumericConstants} (\PR{18819}).\item \code{rbind()} now works correctly when inputs include a rawvector and a logical, integer or double vector -- previously theinclusion of the latter was garbled.\item \code{smooth.spline()} checks validity of its arguments\code{df.offset} and \code{penalty}: it could segfault if theywere \code{NULL}.\item \code{isGeneric(<primitive>, fdef=*, getName=TRUE)} now alsoreturns the name instead of just \code{TRUE}, fixing \PR{18829}reported by \I{Mikael Jagan}.\item \code{isGeneric(fdef = print)} now works, fixing \PR{18369}thanks to \I{Mikael Jagan}.\item \code{sort(x, method = "qsort")} made illegal accesses when\code{x} has length 0.\item \code{dir.create()} is protected against being passed anempty string as its \code{path} argument.\item Silent integer overflow could occur in the\sQuote{exact} computations for \code{fisher.test()} forunrealistic inputs: this is now an error.\item Some invalid C-level memory accesses are avoided for\code{loglin(, margin = NULL)}.\code{loglin(, param = TRUE)} no longer gives an error in cornercases such as a one-dimensional input.\item \code{dev.capabilities() $ events} now reports \code{"Idle"} ifthe device provides it, fixing \PR{18836}, thanks to \I{Trevor Davis}.\item \code{arima(.., seasonal = <wrong-vector>)} correctly errorsnow, ditto for \code{arima0()}, thanks to \I{Norbert Kuder}'s reporton the R-devel list.\item \code{binomial(<link>)$linkinv(eta)} and \code{.. $mu.eta(eta)}now also work for \code{"logit"} link when \code{is.integer(eta)}.\item \code{as.roman(x)} now should work platform independently,also for, e.g., \code{x = "IIIII"} (= V) and \code{x = "IIIIII"}(= VI).\item \command{R CMD Rd2pdf} works again on an installed packagedirectory containing \LaTeX help (from option \option{--latex}),thanks to a report by \I{Peter Ruckdeschel}.}}}\section{\Rlogo CHANGES IN R 4.4.2}{\subsection{C-LEVEL FACILITIES}{\itemize{\item The S-compatibility macros \code{F77_COM} and\code{F77_COMDECL} defined in header \file{R_ext/RS.h} aredeprecated and will be removed shortly. We could find no recordof their use.}}\subsection{BUG FIXES}{\itemize{\item \I{Mathlib} function \code{lgammacor(x)} no longer warns aboutunderflow to zero for large \code{x}.\item Text widths and heights were incorrectly reported by theQuartz device if the drawing context didn't exist yet (typicallywhen drawing off-screen to a window that is yet to appear, see\PR{18591}).\item The Quartz device could segfault in cases where paths withspaces are used in the new glyph drawing API.Thanks to \I{Tomek Gieorgijewski} (\PR{18758}).\item On macOS in R CRAN builds, it is again possible to readlittle-endian UTF-16 text with a \abbr{BOM} from a connection using\code{encoding="UTF-16"}. Users building R from source should avoidusing the system \code{libiconv} in macOS 14.1 and later.\item \pkg{methods}' internal \code{.requirePackage()} now re-enablesprimitive method dispatch when needed; thanks to \I{Ivan Krylov}for demystifying CRAN package check failures on the R-devel mailinglist.}}}\section{\Rlogo CHANGES IN R 4.4.1}{\subsection{C-LEVEL FACILITIES}{\itemize{\item Functions \code{R_atof} and \code{R_strtod} declared inheader \file{R_ext/Utils.h} are now documented in\sQuote{Writing R Extensions} and so formally part of the API.\item The non-API entry points \code{Rf_setSVector},\code{Rf_StringFalse}, \code{Rf_StringTrue} and\code{Rf_isBlankString} have been added to those reported by\command{R CMD check}.\item The new function \code{Rf_allocLang} is now available. Thisprovides an alternative to the idiom of calling\code{Rf_allocList} followed by \code{SET_TYPEOF}.}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check} now reports as warnings what\command{gfortran} calls \sQuote{Fortran 2018 deleted features}, allof which have long been marked as \sQuote{obsolescent} and some ofwhich were deleted in Fortran 2008 or earlier. Fortran compilersare no longer required to support these.}}\subsection{BUG FIXES}{\itemize{\item \code{as.numeric()}, \code{scan()}, \code{type.convert()}and other places which use the internal C function \code{R_strtod} nowrequire a \emph{non-empty} digit sequence in a decimal or binaryexponent. This aligns with the C/POSIX standard for \code{strtod} andwith \code{?NumericConstants}.\item \code{as.data.frame(m, make.names=NA)} now works correctly fora matrix \code{m} with \code{NA}'s in row names.\item The error message from \code{<POSIXlt>[["hour"]]} and similarnow mentions \code{*[[, "hour"]]}, as wished for in \PR{17409} andproposed by \I{Michael Chirico}.\item \code{qbinom()} and potentially \code{qpois()}, \code{qnbinom()},no longer sometimes fail accurate inversion (of \code{pbinom()},etc), thanks to Christopher Chang's report and patch in \PR{18711}.\item The internal help server on Windows can again serve requestssent in quick succession, fixing a regression in \R 4.4.0.\item \code{debugcall(\var{S3Generic}())} now also works when acorresponding S4-generic version is in the \pkg{methods} cache(\PR{18143}).\item Package \pkg{tools}' \code{toTitleCase(ch0)} now returns\code{character(0)} when \code{ch0} is of zero length; fixing\PR{18724}, reported by David Hugh Jones.\item \command{R CMD check} is no longer broken (without a checkresult and no explanation in \file{00check.log}) for a packagewhich declares an invalid \code{VignetteBuilder} in\file{DESCRIPTION} but has no vignettes.}}}\section{\Rlogo CHANGES IN R 4.4.0}{\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item Startup banners, \command{R --version}, \code{sessionInfo()}and \command{R CMD check} no longer report \code{(64-bit)} as part ofthe platform as this is almost universal -- the increasingly rare32-bit platforms will still report \code{(32-bit)}.On Windows, ditto for window titles.\item \code{is.atomic(NULL)} now returns \code{FALSE}, as \code{NULL}is not an atomic vector. Strict back-compatibility wouldreplace \code{is.atomic(foo)} by \code{(is.null(foo) || is.atomic(foo))}but should happen only sparingly.}}\subsection{NEW FEATURES}{\itemize{\item The \code{confint()} methods for \code{"glm"} and\code{"nls"} objects have been copied to the \pkg{stats}package. Previously, they were stubs which called versions inpackage \pkg{MASS}. The \pkg{MASS} namespace is no longer loadedif you invoke (say) \code{confint(glmfit)}. Further, the\code{"glm"} method for \code{profile()} and the \code{plot()}and \code{pairs()} methods for class \code{"profile"} have beencopied from \pkg{MASS} to \pkg{stats}. (\code{profile.nls()} and\code{plot.profile.nls()} were already in \code{stats}.)\item The \code{confint()} and \code{profile} methods for\code{"glm"} objects have gained a possibility to do profilingbased on the \I{Rao} Score statistic in addition to the defaultLikelihood Ratio. This is controlled by a new \code{test =}argument.\item The \code{pairs()} method for \code{"profile"} objects hasbeen extended with a \code{which =} argument to allow plotting onlya subset of the parameters.\item The \code{"glm"} method for \code{anova()} computes teststatistics and p-values by default, using a chi-squared test oran F test depending on whether the dispersion is fixed orfree. Test statistics can be suppressed by giving argument\code{test} a false logical value.\item In \code{setRepositories()} the repositories can be setusing their names via \code{name =} instead of index \code{ind =}.\item \code{methods()} and \code{.S3methods()} gain a\code{all.names} option for the (rare) case where functions startingwith a \samp{.} should be included.\item Serializations can now be interrupted (e.g., by \kbd{Ctrl-C} ona Unix-alike) if they take too long, e.g., from \code{save.image()},thanks to suggestions by \I{Ivan Krylov} and others on R-devel.\item New startup option \option{--max-connections} to set themaximum number of simultaneous connections for the session.Defaults to 128 as before: allowed values up to 4096 (but resourcelimits may in practice restrict to smaller values).\item \R on Windows (since Windows 10 2004) now uses the new SegmentHeap allocator. This may improve performance of some memory-intensiveapplications.\item When \R packages are built, typically by \command{R CMD build <pkg>},the new \command{--user=<build_user>} option overrides the(internally determined) user name, currently \code{Sys.info()["user"]}or \env{LOGNAME}. This is a (modified) fulfillment of Will Landau'ssuggestion in \PR{17530}.\item \code{tools::testInstalledBasic()} gets new optionalarguments \code{outDir} and \code{testSrcdir}, e.g., allowing to useit in a \code{\var{builddir} != \var{srcdir}} setup, and in standard\dQuote{binary} Windows installation \bold{if} a source \file{tests/}folder is present.\item \code{range(<DT_with_Inf>, finite = TRUE)} now work for objectsof class \code{"Date"}, \code{"POSIXct"}, and \code{"POSIXlt"} withinfinite entries, analogously to \code{range.default()}, as proposedby Davis Vaughan on R-devel. Other \code{range()}-methods can makeuse of new function \code{.rangeNum()}.\item New \code{.internalGenerics} object complementing\code{.S3PrimitiveGenerics}, for documentation and low-levelbook-keeping.\item \code{grid()} now invisibly returns the x- and y- coordinatesat which the grid-lines were drawn.\item \code{norm(., type)} now also works for complex matrices.\item \code{kappa(., exact = TRUE, norm = *)} now works for allnorms and also for complex matrices. In symmetric / triangularcases, the new argument \code{uplo = "U" | "L"} allows theupper or lower triangular part to be specified.\item \code{memDecompress(type = "unknown")} recognizes compressionin the default \sQuote{\I{zlib}} format as used by\code{memCompress(type = "gzip")}.\item \code{memCompress()} and \code{memDecompress()} will use the\code{libdeflate} library(\url{https://github.com/ebiggers/libdeflate}) if installed. Thisuses the same type of compression for \code{type = "gzip"} but is1.5-2x faster than the system \code{libz} library on somecommon platforms: the speed-up may depend on the library version.%% libdeflate 1.13 claims significant improvements in%% decompression speed.\item \code{diff()} for objects of class \code{"Date"},\code{"POSIXct"}, and \code{"POSIXlt"} accepts a \code{units}argument passed via \code{...}.\item Dynamic help now does a much better job of rendering package\file{DESCRIPTION} metadata.\item \code{Rprof()} gains an \code{event} argument and supportfor elapsed (real) time profiling on Unix (\PR{18076}).\item \code{filled.contour()} gains a \code{key.border} argument.\item \code{tools::update_pkg_po()} gets arguments \code{pot_make}and \code{mo_make} for \emph{not} re-making the correspondingfiles, and additionally a \code{verbose} argument.\item Hexadecimal string colour specifications are now acceptedin short form, so, for example, we can use \code{"#123"}, which isequivalent to \code{"#112233"}.Thanks to \I{MikeFC} for the original idea and \I{Ella Kaye},\I{Malcolm Barrett}, \I{George Stagg}, and \I{Hanne Oberman} forthe patch.\item Plain-text help shows \verb{\var} markup by angle brackets.\item The new experimental primitive function \code{declare()} isintended to eventually allow information about \R{} code to becommunicated to the interpreter, compiler, and code analysistools. The syntax for declarations is still being developed.\item Functions \code{psmirnov()}, \code{qsmirnov()} and\code{rsmirnov()} in package \pkg{stats} have had argument\code{two.sided} renamed to \code{alternative}, to take intoaccount that the permutation distributions of the one-sidedstatistics can be different in the case of ties. Consequence of\PR{18582}.\item \code{sort()} is now an implicit S4 generic in \pkg{methods}.\item Formatting and printing, \code{format(z), print(z)}, ofcomplex vectors \code{z} no longer zap relatively small real orimaginary parts to zero, fixing \PR{16752}. This is an APIchange, as it was documented previously to round real andimaginary parts together on purpose, producing nicer lookingoutput. As mentioned, e.g.\sspace{}in the PR, this change iscompatible with many other \dQuote{\R-like} programmingenvironments.We have simplified the internal code and now basically format thereal and imaginary parts independently of each other.\item New experimental functions \code{Tailcall()} and\code{Exec()} to support writing stack-space-efficient recursivefunctions.\item Where characters are attempted to be plotted by\code{pdf()}, \code{postscript()} and \code{xfig()} which arenot in the selected 8-bit character set (most often Latin-1) andthe \R session is using a UTF-8 locale, the warning messages willshow the UTF-8 character rather than its bytes and one dot will besubstituted per character rather than per byte. (Platforms whose\code{iconv()} does transliteration silently plot thetransliteration.)In a UTF-8 locale some transliterations are now done with awarning (e.g., dashes and Unicode minus to hyphen, ligatures areexpanded, \I{permille} (\samp{‰}) is replaced by \samp{o/oo}),although the OS may have got there first. These are warnings asthey will continue to be replaced by dots in earlier versions of\R.\item The matrix multiplication functions \code{crossprod()} and\code{tcrossprod()} are now also primitive and S3 generic, as\code{\%*\%} had become in \R 4.3.0.\item \code{source()} and \code{example()} have a new optionalargument \code{catch.aborts} which allows continued evaluation ofthe \R code after an error.\item The non-Quartz \code{tiff()} devices allow additional typesof compression if supported by the platform's \samp{libtiff} library.\item The list of base and recommended package names is now provided by\code{tools::standard_package_names()}.\item \code{cairo_pdf()} and \code{cairo_ps()} default to\code{onefile = TRUE} to closer match \code{pdf()} and\code{postscript()}.\item New option \code{catch.script.errors} provides a documented wayto catch errors and then continue in non-interactive use.\item \code{L \%||\% R} newly in \pkg{base} is an expressive idiomfor the phrases \code{if(!is.null(L)) L else R} or\code{if(is.null(L)) R else L}.\item The return value from \code{warnings()} now always inheritsfrom \code{"warnings"} as documented, now also in the case of nowarnings where it previously returned \code{NULL}.\item \code{as.complex("1i")} now returns \code{0 + 1i} instead of\code{NA} with a warning.\item \code{z <- c(NA, 1i)} now keeps the imaginary part\code{Im(z[1]) == 0}, no longer coercing to \code{NA_complex_}.Similarly, \code{cumsum(z)} correctly sums real and imaginary partsseparately, i.e., without \dQuote{crosstalk} in case of \code{NA}s.\item On Alpine Linux \code{iconv()} now maps \code{"latin2"},\code{"latin-2"}, \code{"latin9"} and \code{"latin-9"} to encodingnames the OS knows about (case-insensitively).\item \code{iconv(sub = "Unicode")} now always zero-pads to four(hex) digits, rather than to 4 or 8. (This seems to have becomethe convention once Unicode restricted the number of Unicodepoints to \eqn{2^{21} - 1}{2^21 - 1} and so will never need morethan 6 digits.)\item \code{NCOL(NULL)} now returns 0 instead of 1, forconsistency with \code{cbind()}.\item The information for the Euro glyph missing from the Adobe\file{.afm} files for the Courier, Helvetica and Times familieshas been copied from their URW equivalents -- this willimprove vertical centring in the \code{pdf()} and\code{postscript()} devices.\item The included BLAS sources have been updated to those shippedwith LAPACK version 3.12.0. The changes are almost entirely cosmetic.\item The included LAPACK sources have been updated to version3.12.0 and some further double-complex routines added.\item There are new font families for the 2014--5 URW 2.0 fonts(see \code{?pdf}) which are included in recent versions ofGhostscript. These have font widths for most Greek glyphs and afew others which were missing from the original versions (whosefont families remain available for reproducibility, althoughGhostscript-based viewers will render using the 2.0 versions).\item Improve the large-n efficiency of \code{as.matrix(<dist>)},thanks an R contributors effort, notably by Tim Taylor andHeather Turner, see \PR{18660}.\item The default and \code{numeric} methods of \code{all.equal()}get a \code{check.class} option.\item \code{zapsmall()} gets new optional arguments, function\code{mFUN} and \code{min.d}, for extra flexibility; fulfills awish in \PR{18199}. Also, it is now an implicit S4 generic inpackage \pkg{methods}.\item The Rd filter for \code{aspell()} gains an \code{ignore}argument.\item New generic function \code{sort_by()}, primarily useful forthe \code{data.frame} method which can be used to sort rows of adata frame by one or more columns.\item The licence headers for the \abbr{RPC} code in\file{src/extra/xdr} have been updated to use the GPL-compatiblelicence published by Oracle America in 2010.\item New function \code{pkg2HTML()} in \pkg{tools} to createsingle-page HTML reference manuals for R packages.\item The byte code evaluator now uses less C stack space forrecursive calls to byte-compiled functions. It also makes more ofan effort to avoid allocations for scalar return values.\item New completion option \code{backtick} (disabled by default)allows non-syntactic completions to be wrapped in backquotes. Thisis currently only useful for \I{Jupyter} notebooks via the\pkg{IRkernel} package, and may cause problems for other backends.\item The numeric version creators now stop on invalidnon-character version specifications.}}\subsection{INSTALLATION}{\itemize{\item The parser has been updated to work with \command{bison} 3.8.2,which is now used for the pre-generated parsers in \file{gram.c},\code{file.c}, and \file{gramRd.c}. A few parser error messageshave changed, which may affect code that relies on exact messages.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item System \I{valgrind} headers are now required to use\command{configure} option \option{--with-valgrind-instrumentation}with value \code{1} or \code{2}.\item \command{configure} will warn if it encounters a 32-bitbuild, as that is nowadays almost untested.\item Environment variable \env{R_SYSTEM_ABI} is no longer used andso no longer recorded in \file{etc/Renviron} (it was not on Windowsand was only ever used when preparing package \pkg{tools}).\item If the \code{libdeflate} library and headers are available,\code{libdeflate} rather than \code{libz} is used to (de)compress\R objects in lazy-load databases. Typically tasks spend up to 5\% oftheir time on such operations, although creating lazy-datadatabases is one of the exceptions.This can be suppressed if the library is available by the\command{configure} option\option{--without-libdeflate-compression}.\item \command{configure} option \option{--enable-lto=check} hasnot worked reliably since 2019 and has been removed.\item The minimum \command{autoconf} requirement for a maintainerbuild has been increased to \command{autoconf}\sspace{}2.71.It is intended to increase this to 2.72 for \R 4.5.0: thedistributed \file{configure} file was generated using 2.72.\item The minimum version requirement for an external LAPACK hasbeen reduced to 3.9.0.\item No default C++ compiler is set if no C++17 compiler isdetected: there is no longer an automatic fallback to C++14 orC++11.Compilers from the last five years should have sufficientsupport: for others macros \code{CXX} and \code{CXXSTD} can be setin file \file{config.site} to provide a fallback if needed.The Objective-C++ compiler now by default uses the standardselected by \R for C++ (currently C++17) rather than the defaultstandard for the C++ compiler (which on macOS is still C++98).}}\subsection{INSTALLATION on macOS}{\itemize{\item A new \command{configure} option \option{--with-newAccelerate}makes use of Apple's \sQuote{new} BLAS / LAPACK interfaces in theirAccelerate framework. Those interfaces are only available in macOS13.3 or later, and building requires \abbr{SDK} 13.3 or later (from theCommand Line Tools or \I{Xcode} 14.3 or later).By default the option uses new Accelerate for BLAS calls: to alsouse it for LAPACK use option \option{--with-newAccelerate=lapack}. Thelater interfaces provide LAPACK 3.9.1 rather than 3.2.1: 3.9.1 isfrom 2021-04 and does not include the improved algorithmsintroduced in LAPACK 3.10.0 (including for BLAS calls).}}\subsection{INSTALLATION on WINDOWS}{\itemize{\item The makefiles and installer scripts for Windows have beentailored to \I{Rtools44}, an update of the \I{Rtools43} toolchain. Itis based on GCC 13 and newer versions of \I{MinGW-W64}, \I{binutils}and libraries (targeting 64-bit Intel CPUs). R-devel can no longer bebuilt using \I{Rtools43} without changes.\item \I{Rtools44} has experimental support for 64-bit ARM(\code{aarch64}) CPUs \emph{via} the \I{LLVM} 17 toolchain using\command{lld}, \command{clang}/\command{flang-new} and \code{libc++}.}}%% \subsection{PACKAGE INSTALLATION}{%% \itemize{%% \item .%% }%% }\subsection{UTILITIES}{\itemize{\item \command{R CMD check} notes when S4-style exports are usedwithout declaring a strong dependence on package \pkg{methods}.\item \code{tools::checkRd()} (used by \command{R CMD check})detects more problems with \verb{\Sexpr}-based dynamic content,including bad nesting of \verb{\Sexpr}s and invalid arguments.\item \code{tools::checkRd()} now reports Rd titles and sectionnames ending in a period; this is ignored by \command{R CMD check}unless environment variable \env{_R_CHECK_RD_CHECKRD_MINLEVEL_} isset to -5 or smaller.\item \command{R CMD check} now notes Rd files without an\verb{\alias}, as long documented in \sQuote{Writing R Extensions}§1.3.1.The check for a missing \verb{\description} has been moved from\code{tools::checkRd()} to \code{tools::checkRdContents()}.\item \command{R CMD check} now visits \file{inst/NEWS.Rd}and OS-specific \file{man} subdirectories when checking Rd files.\item \code{tools::checkDocFiles()} and\code{tools::checkRdContents()} now also check internal Rd filesby default, but \dQuote{specially} (ignoring missing documentationof arguments).\item \command{R CMD Rdiff} gets option \option{--useEx}.\item \command{R CMD check} now warns on non-portable uses ofFortran \code{KIND} such as \code{INTEGER(KIND=4)} and\code{REAL(KIND=8)}.To see the failing lines set environment variable\env{_R_CHECK_FORTRAN_KIND_DETAILS_} to a true value.\item When checking Rd files, \command{R CMD check} nownotes some of the \dQuote{lost braces} that\code{tools::checkRd()} finds. Typical problems are Rd macrosmissing the initial backslash (e.g., \samp{code{...}}), in-textset notation (e.g., \samp{{1, 2}}, where the braces needescaping), and \verb{\itemize} lists with \verb{\describe}-styleentries of the form \verb{\item{label}{description}}.\item \command{R CMD INSTALL} (and hence \command{check}) willcompile C++ code with \code{-DR_NO_REMAP} if environment variable\env{_R_CXX_USE_NO_REMAP_} is set to a true value. It is plannedthat this will in future become the default for compiling C++.%% E.g. become part of \code{check --no-cran} for R 4.5.0.\item The new built-in Rd macro \verb{\dontdiff\{\}} can be usedto mark example code whose output should be ignored when comparingcheck output to reference output(\file{tests/Examples/\var{pkg}-Ex.Rout.save}).The \verb{\dontdiff} tag, like \verb{\donttest}, is \emph{not}shown on the rendered help page, so provides a clean alternativeto \samp{## IGNORE_RDIFF_(BEGIN|END)} comments.\item \command{R CMD build} when there is no \file{NAMESPACE}, nowuses the recommended \code{exportPattern("^[^.]")}, instead ofexporting everything.\item \command{R CMD check} now warns about non-ASCII charactersin the \file{NAMESPACE} file (in addition to \R files). Suchpackages are not portable and may fail to install on some platforms.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item Headers \file{R_ext/Applic.h} and \file{R-ext/Linpack.h}used to include \file{R_ext/BLAS.h} although this was undocumented andunneeded by their documented entry points. They no longer do so.\item New function \code{R_missing()}, factored out from\code{do_missing()}, used to fix \PR{18579}.\item \code{SEXP} type \code{S4SXP} has been renamed to \code{OBJSXP}to support experimenting with alternative object systems. The\code{S4SXP} value can still be used in \code{C} code but is nowdeprecated. Based on contributions from the R Consortium'sObject-Oriented Programming Working Group.\item New function \code{pow1p(x,y)} for accurate \code{(1+x)^y}.\item \code{mkCharLenCE} was incorrectly documented to take a\code{size_t} length but was implemented with \code{int} (andcharacter strings in \R are limited to \eqn{2^{31} - 1}{2^31 - 1} bytes).}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item \code{data()} no longer handles zipped data fromlong-defunct (since \R\sspace{}2.13.0) \option{--use-zip-data}installations.\item The legacy graphics devices \code{pictex()} and\code{xfig()} are now deprecated. They do not support recentgraphics enhancements and their font handling is rudimentary. Theintention is to retain them for historical interest as long asthey remain somewhat functional.\item Support for \code{encoding = "MacRoman"} has been removedfrom the \code{pdf()} and \code{postscript()} devices -- this wasa legacy encoding supporting classic macOS up to 2001 and nolonger has universal \code{libiconv} support.%% e.g. not supported in musl\item \code{is.R()} is deprecated as no other S dialect is knownto be in use (and this could only identify historical dialects,not future ones).Further information on calls can be obtained by setting theenvironment variable \env{_R_DEPRECATED_IS_R_} to \samp{error}which turns the deprecation warning into an error and so bydefault gives a traceback. (This is done by \command{R CMD check--as-cran}.)\item \code{UseMethod()} no longer forwards local variablesassigned in the generic function into method call environmentsbefore evaluating the method body. This makes method calls behavemore like standard function calls and makes method code easier toanalyze correctly.\item The twelve \code{as.data.frame.<class>()} methods which weredeprecated only via \env{_R_CHECK_AS_DATA_FRAME_EXPLICIT_METHOD_} andin \command{R CMD check --as-cran} are formally deprecated now infavour of calling \code{as.data.frame()} or \code{as.data.frame.vector()}.The deprecation \dQuote{check} now works also when \code{as.data.frame()}is S4 generic thanks to \I{Ivan Krylov}.\item The default method for the directional comparison operators\code{<}, \code{>}, \code{<=}, and \code{>=} now signals an errorwhen one of the operands is a language object, i.e. a symbol or acall.\item For \code{terms.formula()}, deprecate \code{abb} and \code{neg.out}arguments \emph{formally} in addition to just documenting it.}}\subsection{BUG FIXES}{\itemize{\item The \pkg{methods} package is more robust to not being attached tothe search path. More work needs to be done.\item \code{pairwise.t.test()} misbehaved when subgroups had 0 \abbr{DF}for variance, even with \code{pool.sd = TRUE}. (\PR{18594} byJack Berry).\item Probability distribution functions \code{[dpq]<distrib>(x, *)},but also \code{bessel[IKJY](x, .)} now consistently preserve\code{attributes(x)} when \code{length(x) == 0}, e.g., for a\eqn{2 \times 0}{2 x 0} matrix, thanks to \I{Karolis Koncevičius}'report \PR{18509}.\item Group \dQuote{Summary} computations such as\code{sum(1:3, 4, na.rm = 5, NA, 7, na.rm = LL)} now give an errorinstead of either \code{17} or \code{NN} for \code{LL} true or false,as proposed by \I{Ivan Krylov} on the R-devel mailing list. (Thisalso means it is now an error to specify \code{na.rm} more than once.)\item \code{as.complex(x)} now returns \code{complex(real = x,imaginary = 0)} for \emph{all} numerical and logical \code{x},notably also for \code{NA} or \code{NA_integer_}.\item Directories are now omitted by\code{file.copy(, recursive = FALSE)} and in \code{file.append()}(\PR{17337}).\item \code{gsub()} and \code{sub()} are now more robust to integeroverflow when reporting errors caused by too large input strings(\PR{18346}).\item Top-level handlers are now more robust to attempts to remove ahandler whilst handlers are running (\PR{18508}).\item The handling of \code{Alt+F4} in \I{dialogs} created on Windows using\I{GraphApp} has been fixed (\PR{13870}).\item \code{density()} more consistently computes grid values for theFFT-based convolution, following \I{Robert Schlicht}'s analysis andproposal in \PR{18337}, correcting density values typically by afactor of about 0.999. Argument \code{old.coords = TRUE} providesback compatibility.\item \code{palette.colors()} gains a \code{name} argument thatdefaults to \code{FALSE} controlling whether the vector of coloursthat is returned has names (where possible). \PR{18529}.\item \code{tools::xgettext()} no longer extracts the(non-translatable) class names from \code{warningCondition} and\code{errorCondition} calls.\item \code{S3method(<gen>, <class>, <func>)} in the \file{NAMESPACE}file now works (again) when \code{<func>} is visible from thenamespace, e.g., imported, or in base.\item \code{getParseData(f)} now also works for a function definedin the first of several \file{<pkg>/R/*.R} source files, thanks to\I{Kirill Müller}'s report and Duncan Murdoch's patch in \PR{16756}.\item Rd \verb{\Sexpr} macros with nested \verb{#ifdef}conditionals were not processed.\item A non-blocking connection with non-default encoding (such asa socket) now correctly returns from \code{readLines()} after newdata has arrived also when its \abbr{EOF} had been reachedpreviously. Thanks to \I{Peter Meilstrup}'s report on R-devel and\I{Ivan Krylov}'s report and patch proposal in \PR{18555}.\item \code{tools::checkRdContents()} failed to detect emptyargument descriptions when they spanned multiple lines,including those generated by \code{prompt()}.These cases are now noted by \command{R CMD check}.\item Plain-text help no longer outputs spurious colons in thearguments list (for multi-line \verb{\item} labels in the Rd source).\item \code{kappa()} and \code{rcond()} work correctly in more cases;\code{kappa(., norm = "2")} now warns that it computes the 1-norm with(default) \code{exact = FALSE}; prompted by \I{Mikael Jagan}'s quitecomprehensive \PR{18543}.\item Rd skeletons generated by \code{prompt()} or\code{promptData()} now use a dummy title (so \command{R CMDbuild} works). \code{tools::checkRdContents()} has been updatedto detect such template leftovers, including from\code{promptPackage()}.\item When S4 method dispatch fails because no method was found, theerror message now includes the signature argument names; thanks toMichael Chirico's proposal on the R-devel list.\item \code{withAutoprint({ .. })} now preserves \code{srcref}spreviously lost, thanks to Andrew Simmons' report plus fix in\PR{18572}.\item \code{transform.data.frame()} no longer adjusts names;in particular, untransformed variables are kept as-is,including those with syntactically invalid names (\PR{17890}).\item The \code{keep.source} option for Rd \verb{\Sexpr} blocks isno longer ignored.\item The \code{formula} methods for \code{t.test()} and\code{wilcox.test()} now catch when \code{paired} is passed,addressing \PR{14359}; use \code{Pair(x1, x2) ~ 1} for a paired test.\item The level reported in the \code{browser} prompt was often toolarge. It now shows the number of browser contexts on the stack.\item For \code{cbind()} and \code{rbind()}, the optional\code{deparse.level} argument is now properly passed to methods,thanks to \I{Mikael Jagan}'s \PR{18579} and comments there.\item Some error and warning messages for large (\sQuote{longvector}) \code{matrix(v, nr, nc)} and \code{dim(m) <- d} are nowcorrect about sizes, using \code{long long} formatting, fixing\PR{18612} (and more) reported by \I{Mikael Jagan}.\item \code{readChar(useBytes = TRUE)} now terminates strings even whenthe underlying connection uses extra spaces in the input buffer. Thisfixes problems with extra garbage seen with \command{gzip}connections, \PR{18605}.\item Named capture in PCRE regular expressions now works also withmore than 127 named groups (\PR{18588}).\item Datetime functions are now robust against long jumps whendealing with internal time zone changes. This avoids confusingwarnings about an invalid time zone, previously triggered by turningwarnings into errors or handling them via \code{tryCatch} (\PR{17966},\PR{17780}).\item Datetime functions now restore even an empty \env{TZ}environment variable after internal time zone changes (\PR{17724}).This makes results of datetime functions with this (typicallyunintentional) setting more predictable.\item \code{drop.terms(*)} now drops response as by default,\code{keep.response = FALSE}, fixing \PR{18564} thanks to \I{Mikael Jagan}.\item \code{dummy.coef(.)} now also works for \code{lm()}-models with\code{character} categorical predictor variables rather than\code{factor} ones, fixing \PR{18635} reported by \I{Jinsong Zhao}.\item \code{formals(f) <- formals(f)} now also works for a functionw/o arguments and atomic \emph{constant} \code{body(f)}.\item Correct \code{as.function(<invalid list>, .)}'s error message.\item \code{removeSource()} is yet more thorough in finding andremoving \code{"srcref"} and the other source references from parsed\R language chunks, fixing \PR{18638} thanks to Andrew Simmons.\item \code{dgeom()} is more accurate now, notably when its result isvery small, fixing \PR{18642} thanks to the proposal of \I{Morten Welinder},also improving other instances where C level \code{binom_raw(x, n, ..)}has \code{x == 0} or \code{x== n}.\item \code{warning()} with \code{options(warn = 1)} has improvedoutput for multi-line messages.\item \code{axis.Date()} and \code{axis.POSIXct()} now respect the\code{par("lab")} setting for the number of \code{pretty()} intervals.\item Comparisons for language objects (which are based ondeparsing) are now more careful about using accurate deparsedresults (\PR{18676}).\item Plain-text help (\code{Rd2txt}) now correctly preservesblank lines following single-line \verb{\dontrun} code.\item \code{<POSIXlt>[*]} no longer sets wrong \code{"balanced"}attribute, fixing \PR{18681} thanks to \I{Mikael Jagan}.\item \code{str(<classed-call>)} now deparses the call as expected,fixing \PR{18684}, reported by \I{Dave Slager}.\item In Rd examples, code following the closing brace of a\verb{\dontrun}, \verb{\dontshow} or \verb{\donttest} tagon the same line is no longer skipped when \command{R CMD check}runs the examples.\item \code{as.data.frame(matrix(*, ncol=0))} now gets valid\code{names()} and \code{colnames()}; reported by \I{Davis Vaughan}on the R-devel list.\item Internal \I{Mathlib} function \code{stirlerr(n)} is now almostfully (52-bit) accurate for all \eqn{n >= ~5.9} and more accuratealso in the range \eqn{1 -- 5.9}. This entails small (\dQuote{after\I{12th} decimal}) changes in density functions, e.g., \code{dgamma()}in \emph{some} regions of their support. The fix was partlyprompted by \I{Morten Welinder}'s \PR{18640}.\item Numbers like \code{9876543.2} are now considered non-integer by\I{Mathlib} internal \code{R_nonint()}, amending original fix of \PR{15734}.\item Rd comment lines no longer cause broken paragraphs in therendered PDF and plain-text help. In code blocks, pure commentlines (starting with \samp{\%}) no longer produce an empty line.\item \code{xtabs(Freq ~ .)} now consistently defaults to\code{na.action = na.pass}, using \code{na.rm = FALSE} (added as anargument) when summing over \code{Freq} (\PR{17770}).\item \code{tools::testInstalledPackage()} is no longer silentabout failures from running examples or tests and its return codeno longer ignores failures from checking vignettes.}}}\section{\Rlogo CHANGES IN R 4.3.3}{\subsection{NEW FEATURES}{\itemize{\item \code{iconv()} now fixes up variant encoding names such as\code{"utf8"} case-insensitively.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item The legacy \code{encoding = "MacRoman"} is deprecated in\code{pdf()} and \code{postscript()}: support was incomplete inearlier versions of \R.}}\subsection{BUG FIXES}{\itemize{\item Arguments are now properly forwarded to methods on S4 genericswith \dots{} in the middle of their formal arguments. This wasbroken for the case when a method introduced an argument but didnot include \dots{} in its own formals. Thanks to \I{Hervé Pagès} forthe report \PR{18538}.\item Some invalid \code{file} arguments to \code{pictex()},\code{postscript()} and \code{xfig()} opened a file called\samp{NA} rather than throw an error. These included\code{postscript(NULL)} (which some people expected to work like\code{pdf(NULL)}).\item Passing \code{filename = NA} to \code{svg()}, \code{cairo_pdf()},\code{cairo_ps()} or the Cairo-based bitmap devices opened a filecalled \samp{NA}: it now throws an error.\item \code{quartz(file = NA)} opened a file called \samp{NA}, includingwhen used as a Quartz-based bitmap device. It now gives an error.\item \code{rank(<long vector>)} now works, fixing \PR{18617}, thanks to\I{Ilia Kats}.\item \code{seq.int()} did not adequately check its\code{length.out} argument.\item \code{match(<POSIXct>, .)} is correct again for differing timezones, ditto for \code{"POSIXlt"}, fixing \PR{18618} reported by\I{Bastian Klein}.\item \code{drop.terms(*, dropx = <0-length>)} now works, fixing\PR{18563} as proposed by \I{Mikael Jagan}.\item \code{drop.terms(*)} keeps \code{ + offset(.)} terms when it should,\PR{18565}, and \code{drop.terms()} no longer makes up a response,\PR{18566}, fixing both bugs thanks to \I{Mikael Jagan}.\item \code{getS3method("t", "test")} no longer finds the\code{t.test()} function, fixing \PR{18627}.\item \code{pdf()} and \code{postscript()} support for the documentedAdobe encodings \code{"Greek"} and \code{"Cyrilllic"} was missing(although the corresponding Windows' codepages could be used).\item Computations of glyph metric information for \code{pdf()}and \code{postscript()} did not take into account thattransliteration could replace one character by two or more (onlyseen on macOS 14) and typically warned that the information wasnot known.\item \code{rank(x)} no longer overflows during integer addition, whencomputing rank average for largish but not-yet long vector \code{x},fixing \PR{18630}, thanks to \I{Ilia Kats}.\item \code{list.files()} on Windows now returns also files with nameslonger that 260 bytes (the Windows limit is 260 characters).Previously, some file names particularly with \sQuote{East Asian}characters were omitted.\item \code{cov2cor(<0 x 0>)} now works, fixing \PR{18423} thanks to\I{Mikael Jagan} and \I{Elin Waring}.\item \code{cov2cor(<negative diagonal>)} and similar now give onewarning instead of two, with better wording, fixing \PR{18424} thanksto \I{Mikael Jagan}.\item \pkg{tools}\code{:: startDynamicHelp()} now ensures \code{port}is in proper range, fixing \PR{18645}.\item \code{pbeta(x, a,b)} is correct now for \code{x}=0 or 1 in theboundary cases where \code{a} or \code{b} or both are 0, fixing\PR{18672} thanks to Michael Fay.\item \code{pmatch(x, table)} for large \code{table}, also called fordata frame row selection, \code{dfrm[nm, ]}, is now interruptible,fixing \PR{18656}.\item \code{predict(<rank-deficient lm>, newdata=*)} fix computing of\code{nbasis}, see \I{Russ Lenth}'s comment 29 in \PR{16158}.\item Added a work-around for a bug in macOS 14.3.1 and higher whichprevents R plots in the Quartz Cocoa device from updating on screen.}}}\section{\Rlogo CHANGES IN R 4.3.2}{\subsection{NEW FEATURES}{\itemize{\item The default initialization of the \code{"repos"} optionfrom the \file{repositories} file at startup can be skipped bysetting environment variable \env{R_REPOSITORIES} to \code{NULL}such that \code{getOption("repos")} is empty if not set elsewhere.\item \code{qr.X()} is now an implicit S4 generic in \pkg{methods}.\item \code{iconv(to = "ASCII//TRANSLIT")} is emulated usingsubstitution on platforms which do not support it (notably AlpineLinux). This should give a human-readable conversion in ASCII onall platforms (rather than \code{NA_character_}).\item \code{trans3d()} gains options \code{continuous} and\code{verbose} addressing the problem of possible \dQuote{wraparound} when projecting too long curves, as reported by \I{AchimZeileis} in \PR{18537}.\item \code{tools::showNonASCII()} has been rewritten to workbetter on macOS 14 (which has a changed implementation of\code{iconv()}).\item \code{tiff(type = "quartz")} (the default on macOS) now warnsif \code{compression} is specified: it continues to be ignored.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item There is some support for building with Intel's \I{LLVM}-basedcompilers on \samp{x86_64} Linux, such as (C) \command{icx}, (C++)\command{ipcx} and (Fortran) \command{ifx} from \I{oneAPI} 2023.x.y.\item There is support for using \I{LLVM}'s \command{flang-new} as theFortran compiler from \I{LLVM} 16.0.x (preferably 17.0.0or later).}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check} reports the use of the Fortran 90 randomnumber generator \code{RANDOM_NUMBER()} and the subroutines toinitialize it.\sQuote{Writing R Extensions} has example code to use \R{}'s \abbr{RNG}sfrom Fortran.}}\subsection{BUG FIXES}{\itemize{\item \code{substr(x, n, L) <- cc} now works (more) correctly formultibyte UTF-8 strings \code{x} when \code{L > nchar(x)}, thanks toa report and patch by \sQuote{Architect 95}.\item \code{contrib.url(character())} now returns 0-length\code{character()} as documented, which also avoids spuriouswarnings from \code{available.packages()} \abbr{et al.}\sspace{}in theedge case of an empty vector of repository URLs.\item \code{readChar(., 4e8)} no longer fails, thanks to \I{Kodi Arfer}'sreport (\PR{18557}).\item \code{lapply(<list>, as.data.frame)} no longer warns falsely forsome base vector components.\item Communication between parent and child processes in the\code{multicore} part of \code{parallel} could fail on platformsthat do not support an arbitrarily large payload in systemfunctions \code{read()}/\code{write()} on pipes (seen on macOSwhere a restriction to \code{INT_MAX} bytes is documented, withoutdoing a partial read unlike Linux). The payload is now split into1\abbr{Gb} chunks to avoid that problem. (\PR{18571})\item \code{qqplot(x,y, conf.level=.)} gives better confidence boundswhen \code{length(x) != length(y)}, thanks to \I{Alexander Ploner}'sreport and patch proposal (\PR{18557}).\item \code{norm(<0-length>, "2")} now gives zero instead of anerror, as all the other norm types, thanks to \I{Mikael Jagan}'s \PR{18542}.\item Build-stage Rd macros \verb{\packageAuthor} and\verb{\packageMaintainer} now process \samp{Authors@R},fixing \samp{NA} results when the package \file{DESCRIPTION} omits\samp{Author} and \samp{Maintainer} fields.\item Formatting and printing complex numbers could give thingslike \samp{0.1683-0i} because of rounding error: \samp{-0i} is nowreplaced by \samp{+0i}.\item \code{postscript()} refused to accept a \code{title} commentcontaining the letter \dQuote{W} (\PR{18599}).\item \code{isoreg(c(1,Inf))} signals an error instead ofsegfaulting, fixing \PR{18603}.\item \code{tiff(type = "Xlib")} was only outputting the last pageof multi-page plots.\item \code{tools::latexToUtf8()} again knows about \samp{\\~{n}}and other letters with tilde, fixing a regression in \R 4.3.0,and about \samp{\\^{i}} as an alternative to \samp{\\^{\\i}}(similarly with other accents).Furthermore, \LaTeX codes for accented I letters are nowcorrectly converted, also fixing related mistakes in\code{tools::encoded_text_to_latex()}.\item \code{tar(*, tar = "internal")} no longer creates out-of-spectar files in the very rare case of user or group names longer than32 bytes, fixing \PR{17871} with thanks to \I{Ivan Krylov}.\item When using the \dQuote{internal} timezone datetime code, addinga fraction of a second no longer adds one second, fixing \PR{16856}from a patch by \I{Ivan Krylov}.\item \code{tools::checkRd()} no longer produces spurious notesabout \dQuote{unnecessary braces} from multi-line Rd results of\verb{\Sexpr} macros.}}}\section{\Rlogo CHANGES IN R 4.3.1}{\subsection{C-LEVEL FACILITIES}{\itemize{\item The C-level API version of \R's \code{integrate()},\code{Rdqags()} in \file{Applic.h}, now returns the correct number ofintegrand evaluations \code{neval}, fixing \PR{18515} reported anddiagnosed by Stephen Wade.\item The C prototypes for LAPACK calls \code{dspgv} and \code{dtptrs}in \file{R_ext/Lapack.h} had one too many and one too fewcharacter length arguments --- but this has not caused any knownissues. To get the corrected prototypes, include\preformatted{#include <Rconfig.h> // for PR18534fixed#ifdef PR18534fixed# define usePR18534fix 1#endif#include <R_ext/Lapack.h>}in your C/C++ code (\PR{18534}).}}\subsection{INSTALLATION}{\itemize{\item Many of the checks of esoteric Internet operations and thoseusing unreliable external sites have been moved to a new targetthat is not run by default and primarily intended for the coredevelopers. To run them use\preformatted{cd tests; make test-Internet-dev}}}\subsection{BUG FIXES}{\itemize{\item \code{.S3methods()}, typically called from \code{methods()},again marks methods from package \pkg{base} as \code{visible}.Also, the visibility of non-\pkg{base} methods is again determined bythe method's presence in \code{search()}.\item \code{tools::Rdiff()} is now more robust against invalidstrings, fixing installation tests on Windows without \I{Rtools}installed (\PR{18530}).\item Fix (new) bug in \code{hcl.colors(2, *)}, by \I{Achim Zeileis} (\PR{18523}).\item \code{head(., <illegal>)} and \code{tail(..)} now producemore useful \code{"Error in ...."} error messages, fixing \PR{18362}.\item Package code syntax on Windows is checked in UTF-8 when UTF-8 isthe native encoding.\item \code{na.contiguous(x)} now also returns the first run, when itis at the beginning and there is a later one of the same length;reported to R-devel, including a fix, by \I{Georgi Boshnakov}.Further, by default, it modifies only an existing\code{attr(*,"tsp")} but otherwise no longer sets one.\item \code{chol(<not pos.def>, pivot = <T|F>)} now gives a correcterror or warning message (depending on \code{pivot}), thanks to\I{Mikael Jagan}'s (\PR{18541}).}}}\section{\Rlogo CHANGES IN R 4.3.0}{\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item Calling \code{&&} or \code{||} with LHS or (if evaluated) RHS oflength greater than one is now always an error, with a report ofthe form\preformatted{ 'length = 4' in coercion to 'logical(1)'}Environment variable \env{_R_CHECK_LENGTH_1_LOGIC2_} no longer hasany effect.}}\subsection{NEW FEATURES}{\itemize{\item The included BLAS sources have been updated to those shippedwith LAPACK version 3.10.1. (This caused some platform-dependentchanges to package check output.) And then to the sources fromLAPACK version 3.11.0 (with changes only to double complexsubroutines).\item The included LAPACK sources have been updated to include thefour Fortran 90 routines rather than their Fortran 77predecessors. This may give some different signs in \abbr{SVD}s oreigendecompositions.. (This completes the transition to LAPACK3.10.x begun in \R 4.2.0.)\item The LAPACK sources have been updated to version 3.11.0. (Nonew subroutines have been added, so this almost entirely bugfixes: Those fixes do affect some computations with \code{NaN}s,including \R's \code{NA}.)\item The parser now signals \emph{classed} errors, notably incase of the pipe operator \code{|>}. The error object andmessage now give line and column numbers, mostly as proposed andprovided by Duncan Murdoch in \PR{18328}.\item \code{toeplitz()} is now generalized for asymmetric cases,with a \code{toeplitz2()} variant.\item \code{xy.coords()} and \code{xyz.coords()} and consequently,e.g., \code{plot(x,y, log = "y")} now signal a \emph{classed} warningabout negative values of y (where \code{log(.)} is \code{NA}).Such a warning can be specifically suppressed or caught otherwise.\item Regular expression functions now check more thoroughly whethertheir inputs are valid strings (in their encoding, e.g.\sspace{}in UTF-8).\item The performance of \code{grep()}, \code{sub()},\code{gsub()} and \code{strsplit()} has been improved,particularly with \code{perl = TRUE} and \code{fixed = TRUE}. Useof \code{useBytes = TRUE} for performance reasons should no longerbe needed and is discouraged: it may lead to incorrect results.\item \code{apropos()} gains an argument \code{dot_internals} whichis used by the completion (\code{help(rcompgen)}) engine to alsosee \pkg{base} internals such as \code{.POSIXct()}.\item Support in \code{tools::Rdiff()} for comparing uncompressedPDF files is further reduced -- see its help page.\item \code{qqplot(x, y, ...)} gains \code{conf.level} and\code{conf.args} arguments for computing and plotting a confidenceband for the treatment function transforming the distribution of\code{x} into the distribution of \code{y } (\I{Switzer}, 1976,\emph{\I{Biometrika}}). Contributed by \I{Torsten Hothorn}.\item Performance of \code{package_dependencies()} has been improvedfor cases when the number of dependencies is large.\item Strings newly created by \code{gsub()}, \code{sub()} and\code{strsplit()}, when any of the inputs is marked as \code{"bytes"},are also marked as \code{"bytes"}. This reduces the risk of creatinginvalid strings and accidental substitution of bytes deemed invalid.\item Support for \code{readLines(encoding = "bytes")} has been added toallow processing special text files byte-by-byte, without creatinginvalid strings.\item \code{iconv(from = "")} now takes into account any declaredencoding of the input elements and uses it in preference to the nativeencoding. This reduces the risk of accidental creation of invalidstrings, particularly when different elements of the input havedifferent encoding (including \code{"bytes"}).\item Package repositories in \code{getOption("repos")} are nowinitialized from the \file{repositories} file when \pkg{utils} isloaded (if not already set, e.g., in \file{.Rprofile}).(From a report and patch proposal by Gabriel Becker in \PR{18405}.)\item \code{compactPDF()} gets a \code{verbose} option.\item \code{type.convert()} and hence \code{read.table()} get newoption \code{tryLogical = TRUE} with back compatible default. Whenset to false, converts \code{"F"} or \code{"T"} columns to character.\item Added new unit prefixes \code{"R"} and \code{"Q"} forabbreviating (unrealistically large) sizes beyond \eqn{10^{27}} in\code{standard = "SI"}, thanks to \I{Henrik Bengtsson}'s \PR{18435}.\item \code{as.data.frame()}'s default method now also works finewith atomic objects inheriting from classes such as \code{"roman"},\code{"octmode"} and \code{"hexmode"}, thus fulfilling the wish of\PR{18421}, by \I{Benjamin Feakins}.\item The \code{as.data.frame.vector()} utility now errors forwrong-length \code{row.names}. It warned for almost six years, with\dQuote{Will be an error!}.\item \code{sessionInfo()} now also contains \code{La_version()} andreports codepage and timezone when relevant, in both \code{print()}and \code{toLatex()} methods which also get new option \code{tzone}for displaying timezone information when \code{locale = FALSE}.\item New function \code{R_compiled_by()} reports the C andFortran compilers used to build \R, if known.\item \code{predict(<lm>, newdata = *)} no longer unnecessarily createsan \code{offset} of all \code{0}s.\item \code{solve()} for complex inputs now uses argument \code{tol}and by default checks for \sQuote{computational singularity} (asit long has done for numeric inputs).\item \code{predict(<rank-deficient lm>, newdata=*)} now obeys a newargument \code{rankdeficient}, with new default \code{"warnif"},warning only if there are non-estimable cases in \code{newdata}.Other options include \code{rankdeficient = "NA"}, predicting \code{NA}for non-estimable \code{newdata} cases.This addresses \PR{15072} by \I{Russ Lenth} and is based on his originalproposal and discussions in \PR{16158} also by \I{David Firth} and \I{Elin Waring}.Still somewhat experimental.\item \command{Rgui} console implementation now works better with the\code{NVDA} screen reader when the full blinking cursor is selected.The underlying improvements in cursor handling may help also otherscreen readers on Windows.\item The drop-field control in \I{GraphApp} can now be left with the TABkey and all controls can be navigated in the reverse order using theShift+TAB key, improving accessibility of the \command{Rgui}configuration editor.\item \code{qnorm(<very large negative>, log.p=TRUE)} is now fullyaccurate (instead of to \dQuote{only} minimally five digits).\item \code{demo(error.catching)} now also shows off\code{withWarnings()} and \code{tryCatchWEMs()}.\item As an experimental feature the placeholder \code{_} can nowalso be used in the \code{rhs} of a forward pipe \code{|>}expression as the first argument in an extraction call, such as\code{_$coef}. More generally, it can be used as the head of achain of extractions, such as \code{_$coef[[2]]}.\item Spaces in the environment variable used to choose the \Rsession's temporary directory (\env{TMPDIR}, \env{TMP} and\env{TEMP} are tried in turn) are now fatal. (On Windows the\sQuote{short path} version of the path is tried and used if thatdoes not contain a space.)\item \code{all.equal.numeric()} gets a new optional switch\code{giveErr} to return the numeric error as attribute. \I{Relatedly},\code{stopifnot(all.equal<some>(a, b, ..))} is as \dQuote{smart} now,as \code{stopifnot(all.equal(....))} has been already, thus allowingcustomized \code{all.equal<Some>()} wrappers.\item \R on Windows is now able to work with path names longer than260 characters when these are enabled in the system (requires at leastWindows 10 version 1607). Packages should be updated to work withlong paths as well, instead of assuming \code{PATH_MAX} to be themaximum length. Custom front-ends and applications embedding \R needto update their manifests if they wish to allow this feature. See\url{https://blog.r-project.org/2023/03/07/path-length-limit-on-windows}for more information.\item \sQuote{Object not found} and \sQuote{Missing argument}errors now give a more accurate error context. Patch provided byLionel Henry in \PR{18241}.\item The \code{@} operator is now an S3 generic. Based oncontributions by \I{Tomasz Kalinowski} in \PR{18482}.\item New generic \code{chooseOpsMethod()} provides a mechanismfor objects to resolve cases where two suitable methods are foundfor an Ops Group Generic. This supports experimenting withalternative object systems.Based on contributions by \I{Tomasz Kalinowski} in \PR{18484}.\item \code{inherits(x, what)} now accepts values other than asimple character vector for argument \code{what}. A new generic,\code{nameOfClass()}, is called to resolve the class name from\code{what}. This supports experimenting with alternative objectsystems.Based on contributions by \I{Tomasz Kalinowski} in \PR{18485}.\item Detection of BLAS/LAPACK in use (\code{sessionInfo()}) with\I{FlexiBLAS} now reports the current backend.\item The \code{"data.frame"} method for \code{subset()} now warnsabout extraneous arguments, typically catching the use of \samp{=}instead of \samp{==} in the \code{subset} expression.\item Calling \code{a:b} when numeric \code{a} or \code{b} is longerthan one may now be made into an error by setting environment variable\env{_R_CHECK_LENGTH_COLON_} to a true value, along the proposal in\PR{18419} by \I{Henrik Bengtsson}.\item \code{density(x, weights = *)} now warns if automatic bandwidthselection happens without using \code{weights}; new optional\code{warnWbw} may suppress the warning. Prompted by \I{ChristophDalitz}' \PR{18490} and its discussants.\item \code{rm(list = *)} is faster and more readable thanks to\I{Kevin Ushey}'s \PR{18492}.\item The \code{plot.lm()} function no longer produces a normalQ-Q plot for GLMs. Instead it plots a half-normal Q-Q plot of theabsolute value of the standardized deviance residuals.\item The \code{print()} method for class \code{"summary.glm"} nolonger shows summary statistics for the deviance residuals bydefault. Its optional argument \code{show.residuals} can be usedto show them if required.\item The \code{tapply()} function now accepts a data frame as its\code{X} argument, and allows \code{INDEX} to be a formula in thatcase. \code{by.data.frame()} similarly allows \code{INDICES} to bea formula.\item The performance of \code{df[j] <- value} (including formissing \code{j}) and \code{write.table(df)} has been improved fordata frames \code{df} with a large number of columns. (Thanks toGabriel Becker's \PR{18500}, \PR{18503} and discussants, promptedby a report from Toby Dylan Hocking on the R-devel mailing list.)\item The matrix multiply operator \code{\%*\%} is now an S3 generic,belonging to new group generic \code{matrixOps}.From \I{Tomasz Kalinowski}'s contribution in \PR{18483}.\item New function \code{array2DF()} to convert arrays to dataframes, particularly useful for the list arrays created by\code{tapply()}.}}\subsection{DATES and TIMES}{\itemize{\item On platforms where (non-UTC) datetimes before 1902 (orbefore 1900 as with system functions on recent macOS) are guessedby extrapolating time zones from 1902-2037, there is a warning atthe first use of extrapolation in a session. (As all time zonespost 2037 are extrapolation, we do not warn on those.)\item (Platforms using \option{--with-internal-tzone}, includingWindows and by default macOS). How years are printed in dates ordate-times can be controlled by environment variable\env{R_PAD_YEARS_BY_ZERO}. The default remains to pad to 4 digitsby zeroes, but setting value \samp{no} gives no padding (as usedby default by \code{glibc}).\item \code{strftime()} tries harder to determine the offset forthe \code{"\%z"} format, and succeeds on the mainstream \R platforms.\item \code{strftime()} has a limit of 2048 bytes on the stringproduced -- attempting to exceed this is an error. (Previously itsilently truncated at 255 bytes.)\item \code{sessionInfo()} records (and by default prints) thesystem time zone as part of the locale information. Also, thesource (system/internal) of the date-time conversion and printingfunctions.\item Objects of class \code{"POSIXlt"} created in this version of\R always have 11 components: component \code{zone} is always set,and component \code{gmtoff} is set for times in UTC and usuallyset on the (almost all) platforms which have C-level support,otherwise is \code{NA}.\item There are comprehensive validity checks on the structure ofobjects of class \code{"POSIXlt"} when converting (includingformatting and printing). (This avoids mis-conversions ofhand-crafted objects.)\item There is some support for using the native date-timeroutines on macOS: this is only viable on recent versions(e.g.\sspace{}12.6 and 13) and does get wrong some historical changes(before 1900, during WWII). Use of \option{--with-internal-tzone}remains the default.\item \code{as.POSIXct(<numeric>)} and \code{as.POSIXlt(.)} (withoutspecifying \code{origin}) now work.So does \code{as.Date(<numeric>)}.\item \code{as.Date.POSIXct(., tz)} now treats several \code{tz}values, notably \code{"GMT"} as equivalent to \code{"UTC"}, proposedand improved by \I{Michael Chirico} and \I{Joshua Ulrich} in \PR{17674}.\item Experimental \code{balancePOSIXlt()} utility allows using\dQuote{ragged} and or out-of-range \code{"POSIXlt"} objects morecorrectly, e.g., in subsetting and \I{subassignment}s. Such objectsare now documented.Complemented by the low-level \code{unCfillPOSIXlt()} utility.More experimentally, a \code{"POSIXlt"} object may have an attribute\code{"balanced"} indicating if it is known to be filled or fullybalanced.\item Functions \code{axis.Date()} and \code{axis.POSIXct()} arerewritten to gain better default tick locations and better defaultformats via the corresponding \code{pretty()} methods.Thanks to \I{Swetlana Herbrandt}.\item The mapping of Windows' names for time zones to \abbr{IANA}'s\sQuote{Olson} names has been updated. When ICU is available (it isby default), it is used to get a mapping for the current region set inWindows. This can be overridden by setting environment variable\env{TZ} to the desired Olson name --- see \code{OlsonNames()} forthose currently available.}}\subsection{GRAPHICS}{\itemize{\item The graphics engine version, \code{R_GE_version}, has beenbumped to \code{16} and so packages that provide graphics devicesshould be reinstalled.\item The \pkg{grDevices} and \pkg{grid} packages have newfunctions for rendering typeset glyphs, primarily:\code{grDevices::glyphInfo()} and \code{grid::grid.glyph()}.Rendering of typeset glyphs is only supported so far on theCairo-based graphics devices and on the \code{pdf()} and\code{quartz()} devices.\item The defined behaviour for \code{"clear"} and \code{"source"}compositing operators (via \code{grid::grid.group()}) has beenchanged (to align better withsimple interpretation of original Porter-Duff definitions).\item Support for gradients, patterns, clipping paths, masks,groups, compositing operators, and affine transformations hasbeen added to the \code{quartz()} device.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item A system installation of generic LAPACK 3.10.0 or later willbe preferred to the version in the \R sources.\command{configure} option \option{--with-lapack=no} (equivalently\option{--without-lapack}) forces compilation of the internalLAPACK sources.If \option{--with-lapack} is not specified, a system\code{liblapack} is looked for and used if it reports version3.10.0 or later and does not contain BLAS routines.Packages using LAPACK will need to be reinstalled if this changesto using an external library.\item On \samp{aarch64} Linux platforms using GCC,\command{configure} now defaults to \option{-fPIC} (instead of\option{-fpic}), as desired in \PR{18326}.\item \command{configure} now checks conversion of datetimesbetween \code{POSIXlt} and \code{POSIXct} around year 2020. Failure(which has been seen on platforms missing \code{tzdata}) is fatal.\item If \command{configure} option\option{--with-valgrind-instrumentation} is given value \code{1}or \code{2}, option \option{--with-system-valgrind-headers} is nowthe default and ignored (with a warning). It is highlyrecommended that the system headers are installed alongside\command{valgrind}: they are part of its packaging on some Linuxdistributions and packaged separately (e.g.\sspace{}in the\file{valgrind-devel} RPM) on others. \command{configure} willgive a warning if they are not found.The system headers will be required in a future release of \Rto build with \command{valgrind} instrumentation.\item \code{libcurl} 8.x is now accepted by \command{configure}:despite a change in major version number it changes neither APInor \abbr{ABI}.}}\subsection{INSTALLATION on WINDOWS}{\itemize{\item The makefiles and installer scripts for Windows have beentailored to \I{Rtools43}, an update of the \I{Rtools42}toolchain. It is based on GCC 12 and newer versions of\I{MinGW-W64}, \I{binutils} and libraries. At this time R-devel can stillbe built using \I{Rtools42} without changes, but when R-devel isinstalled via the installer, it will by default look for \I{Rtools43}.\item Old make targets \code{rsync-extsoft} and 32-bit ones thatare no longer needed have been removed.\item Default builds (including for packages) no longer selectC99. Thus the C standard used is the default for the compiler,which for the toolchain in \file{Rtools43} is C17. (This isconsistent with Unix builds.)}}\subsection{PACKAGE INSTALLATION}{\itemize{\item The default C++ standard has been changed to C++17 whereavailable (which it is on all currently checked platforms): if notC++14 or C++11 is used if available otherwise C++ is not supported.\item \code{USE_FC_LEN_T} is the default: this uses thecorrect (compiler-dependent) prototypes for Fortran BLAS/LAPACKroutines called from C/C++, and requires adjustment of many suchcalls -- see \sQuote{Writing R Extensions} §6.6.1.%% g++ 11 supported c++23.%% 2022-09 Recent \I{LLVM} (>= 13?) and Apple (>= 13?) clang support c++2b.\item There is initial support for C++23 as several compilers arenow supporting \code{-std=c++23} or \code{-std=c++2b} or similar.As for C++20, there no additional \command{configure} checks forC++23 features beyond a check that the compiler reports a\code{__cplusplus} value greater than that in the C++20 standard.C++ feature tests should be used.\item There is support for a package to indicate the version ofthe C standard which should be used to compile it, and for theinstalling user to specify this. In most cases \R defaults to theC compiler's default standard which is C17 (a `bug-fix' of C11) --earlier versions of \R or compilers may have defaulted to C99.Current options are:\describe{\item{USE_C17}{Use a standard that is at most C17. Theintention is to allow legacy packages to still be installed whenlater C standards become the default, including packagesusing new keywords as identifiers or with K&R-style functiondeclarations. This will use C17 if available, falling backto C11.}\item{USE_C90}{Use the C90 (aka C89) standard. (As that standarddid not require compilers to identify that version, all we canverify is that the compiler does not claim to be using a laterstandard. It may accept C99 features -- for example\command{clang} accepts // to make comments.)}\item{USE_C99}{Use the C99 standard. This should be rarelyneeded -- it avoids the few new features of C11/C17 which canbe useful if a package assumes them if C17 is specified andthey are not implemented.}\item{USE_C23}{Use C23 (or in future, later). Compiler/librarysupport for C23 is still being implemented, but \I{LLVM} clangfrom 15.0.0 and GCC from 13 have quite extensive support.}}These can be specified as part of the \samp{SystemRequirements}field in the package's \file{DESCRIPTION} file or \emph{via}options \option{--use-C17} and so on of \command{R CMD INSTALL}and \command{R CMD SHLIB}.For further details see \dQuote{Writing R Extensions} §1.2.5.\item (Windows) A \file{src/Makefile.ucrt} or\file{src/Makefile.win} file is now included after\file{\var{R_HOME}/etc\var{R_ARCH}/Makeconf} and so no longerneeds to include that file itself. Installation of a package withsuch a file now uses a site \file{Makevars} file in the same wayas a package with a \file{src/Makevars.win} file would.\item \command{configure} is now passed crucial variables such as\env{CC} and \env{CFLAGS} in its environment, as many packageswere not setting them (as documented in \sQuote{Writing RExtensions} §1.2).This has most effect where \command{configure} is used to compileparts of the package -- most often by \command{cmake} or\command{libtool} which obfuscate the actual compile commandsused.Also used for \command{configure.win} and \command{configure.ucrt}on Windows.}}\subsection{FORTRAN FLAGS}{\itemize{\item The flag \option{-fno-optimize-sibling-calls} is no longerforced for \command{gfortran} 7 and later. It should no longer beneeded now using \sQuote{hidden} character-length arguments whencalling BLAS/LAPACK routines from C/C++ is the default even forpackages. (Unless perhaps packages call Fortran code from C/C++without using \R{}'s headers and without allowing for thesearguments.)}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The deprecated S-compatibility macros \code{DOUBLE_*} in\file{R_ext/Constants.h} (included by \file{R.h}) have beenremoved.\item The deprecated legacy typedefs of \code{Sint} and\code{Sfloat} in header \file{R.h} are no longer defined, and thatheader no longer includes header \file{limits.h} from C nor\file{climits} from C++.\item New macro \code{CAD5R()} is provided in \file{Rinternals.h}and used in a few places in the \R sources.\item \I{ALTREP} now supports \code{VECSXP} vectors. Contributed by\I{Gabor Csardi} in \PR{17620}.\item The \code{Rcomplex} definition (in header\file{R_ext/Complex.h}) has been extended to prevent possiblemis-compilation when interfacing with Fortran (\PR{18430}). Thenew definition causes compiler warnings with static initializerssuch as \code{\{1, 2\}}, which can be changed to \code{\{.r=1,.i=2\}}.Using the new definition from C++ depends on compiler extensionssupporting C features that have not been incorporated into the C++standards but are available in \command{g++} and\command{clang++}: this may result in C++ compiler warnings butthese have been worked around for recent versions of commoncompilers (GCC, Apple/\I{LLVM} clang, Intel).It is intended to change the inclusion of header\file{R_ext/Complex.h} by other \R{} headers, so C/C++ code fileswhich make use of \code{Rcomplex} should include that headerexplicitly.}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check} does more checking of package \file{.Rd}files, warning about invalid email addresses and (some) invalid\abbr{URI}s and noting empty \samp{\item} labels in description lists.\item \command{R CMD check} now also reports problems when readingpackage news in \abbr{md} (file \file{NEWS.md}) and (optionally) plaintext (file \file{NEWS}) formats.\item \env{_R_CHECK_TIMINGS_} defaults to a value from theenvironment even for \command{R CMD check --as-cran}; this allowsfor exceptionally fast or slow platforms.It now applies to checking PDF and HTML versions of the manuals,and \sQuote{checking CRAN incoming feasibility}.\item \command{R CMD check} can optionally (but included in\option{--as-cran}) check whether HTML math rendering \emph{via}\I{KaTeX} works for the package \file{.Rd} files.\item Non-interactive debugger invocations can be trapped bysetting the environment variable\env{_R_CHECK_BROWSER_NONINTERACTIVE_} to a true value. This isenabled by \command{R CMD check --as-cran} to detect the use ofleftover \code{browser()} statements in the package.\item The use of \code{sprintf} and \code{vsprintf} from C/C++ hasbeen deprecated in macOS 13 and is a known security risk.\command{R CMD check} now reports (on all platforms) if their useis found in compiled code: replace by \code{snprintf} or\code{vsnprintf} respectively. [\bold{NB:} whether such calls getcompiled into the package is platform-dependent.]\item Where recorded at installation, \command{R CMD check}reports the C and Fortran compilers used to build \R.It reports the OS in use (if known, as given by\code{osVersion}) as well as that \R was built for.It notes if a C++ standard was specified which is older than thecurrent default: many packages have used C++11 to mean \sQuote{notC++98} --- as C++11 is the minimum supported since \R 4.0.0, thatspecification can probably be removed.\item \command{R CMD INSTALL} reports the compilers (and onmacOS, the \abbr{SDK}) used, and this is copied to the output of\command{R CMD check}.Where a C++ standard is specified, it is reported.\item \command{R CMD check}'s\sQuote{\I{checking compilation flags in Makevars}}has been relaxed to accept the use of flags such as\option{-std=f2008} in \samp{PKG_FFLAGS}.\item \code{tools::buildVignettes()} has a new argument \code{skip},which is used by \command{R CMD check} to skip (and note)vignettes with unavailable \samp{\VignetteDepends} (\PR{18318}).\item New generic \code{.AtNames()} added to enable class-specificcompletions after \code{@}. The formerly internal function\code{findMatches()} is now exported, mainly for use in methodsfor \code{.DollarNames()} and \code{.AtNames()}.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item \code{default.stringsAsFactors()} is defunct.\item Calling \code{as.data.frame.<class>()} directly (for 12 atomicclasses) is going to be formally deprecated, currently activated bysetting the environment variable\env{_R_CHECK_AS_DATA_FRAME_EXPLICIT_METHOD_} to non-empty, whichalso happens in \command{R CMD check --as-cran}.}}\subsection{BUG FIXES}{\itemize{\item Hashed \code{environment}s with sizes less than 5 can now grow.(Reported to R-devel by \I{Duncan Garmonsway}.)\item \code{as.character(<Rd>, deparse = TRUE)} failed tore-escape curly braces in LaTeX-like text.(Reported by \I{Hadley Wickham} in \PR{18324}.)\item \code{library()} now passes its \code{lib.loc} argument whenrequiring \code{Depends} packages; reported (with fix) in \PR{18331}by \I{Mikael Jagan}.\item \command{R CMD Stangle}: improved message about \sQuote{Output}files.\item \code{head(x, n)} and \code{tail(x, n)} now signal an error if\code{n} is not numeric, instead of incidentally \dQuote{working}sometimes returning all of \code{x}. Reported and discussed by ColinFay, in \PR{18357}.\item The \code{"lm"} method for \code{summary()} now gives thecorrect F-statistic when the model contains an offset. Reported in\PR{18008}.\item \code{C()} and \code{`contrasts<-`()} now preserve factorlevel names when given a function object (as opposed a functionname which did preserve names). Reported in \PR{17616}.\item \code{c(a = 1, 2)[[]]} no longer matches \code{2} but rathersignals a \emph{classed} error. Reported and analysed by Davis Vaughan in\PR{18367}, a duplicate of \PR{18004}, by \I{Jan Meis} \abbr{et al.}For consistency, \code{NULL[[]]} is also erroneous now.\code{x[[]] <- v} gives an error of the same class \code{"MissingSubscriptError"}.\item The \code{relist()} function of \pkg{utils} now supports\code{NULL} elements in the skeleton (\PR{15854}).\item \code{ordered(levels = *)} (missing \code{x}) now worksanalogously to \code{factor(, ordered=TRUE)}; reported (with fix)by \I{Achim Zeileis} in \PR{18389}.\item User-defined Rd macro definitions can now span multiple lines,thanks to a patch from Duncan Murdoch. Previously, the Rd parsersilently ignored everything after the first line.\item Plain-text help (\code{tools::Rd2txt()}) now preserves aninitial blank line for text following description list items.\item \code{tools::Rd2HTML()} and \code{tools::Rd2latex()} nolonger split \verb{\arguments} and \verb{\value} lists at Rd comments.\item \code{tools::Rd2latex()} now correctly handles optional textoutside \verb{\item}s of argument lists as well as bracketed textat the beginning of sections, e.g., \verb{\value{[NULL]}}.\item \code{as.character(<POSIXt>)} now behaves more in line with themethods for atomic vectors such as numbers, and is no longerinfluenced by \code{options()}.Ditto for \code{as.character(<Date>)}.The \code{as.character()} method gets arguments \code{digits} and \code{OutDec}with defaults \emph{not} depending on \code{options()}.Use of \code{as.character(*, format = .)} now warns.\item Similarly, the \code{as.character.hexmode()} and\code{*.octmode()} methods also behave as \code{good citizen}methods and back compatibility option \code{keepStr = TRUE}.\item The \code{as.POSIXlt(<POSIXlt>)} and\code{as.POSIXct(<POSIXct>)} default methods now do obey their\code{tz} argument, also in this case.\item \code{as.POSIXlt(<Date>)} now does apply a \code{tz} (timezone) argument, as does \code{as.POSIXct()}; partly suggested by\I{Roland Fuß} on the R-devel mailing list.\item \code{as.Date.POSIXlt(x)} now also works when the list componentsare of unequal length, aka \dQuote{partially filled} or \dQuote{ragged}.\item \code{expand.model.frame()} looked up variables in the wrongenvironment when applied to models fitted without \code{data}.Reported in \PR{18414}.\item \code{time()} now (also) uses the\code{ts.eps = getOption("ts.eps")}argument and thus by default rounds values very close to the start (orend) of a year. Based on a proposal by \I{Andreï V. Kostyrka} on R-help.\item Printing of a \code{factanal()} result with just one factor and\code{sort = TRUE} now works regularly, fixing \PR{17863} by TimothyBates, thanks to the \sQuote{R Contributors} working group.\item Printing 0-length objects of class\code{"factor"}, \code{"roman"}, \code{"hexmode"},\code{"octmode"}, \code{"person"}, \code{"bibentry"}, or\code{"citation"} now prints something better, oneof which fixes \PR{18422}, reported by \I{Benjamin Feakins}.\item \code{Sys.timezone()} queries \command{timedatectl} only if\command{systemd} is loaded; addressing a report by \I{Jan Gorecki} in\PR{17421}.\item The formula method of \code{cor.test()} had scoping problemswhen \code{environment(formula)} was not the calling environment;reported with a patch proposal by \I{Mao Kobayashi} in \PR{18439}.\item \code{attach()} of an environment with active bindings nowpreserves the active bindings. Reported by \I{Kevin Ushey} in\PR{18425}.\item BLAS detection now works also with system-provided libraries notavailable as regular files. This fixes detection of the Accelerateframework on macOS since \I{Big Sur}. Reported by \I{David Novgorodsky}.\item \code{download.file()} gives a helpful error message in case ofan invalid \code{download.file.method} option, thanks to Colin Fay'sreport in \PR{18455}.\item Sporadic crashes of \command{Rterm} when using completion havebeen fixed.\item \code{Rprof()} is now more reliable. A livelock in threadinitialization with too short sampling interval has been fixed onmacOS. A deadlock in using the C runtime has been fixed on Windows.A potential deadlock has been prevented on Unix.\item Cursor placement in \command{Rgui} now works even after afixed-width font is selected.\item Mandatory options (\code{options()}) are now set on startup sothat saving and restoring them always works (\PR{18372}).\item Package installation, \command{R CMD INSTALL} or \code{install.packages(*)},now parses each of the \file{<pkg>/R/*.R} files individually insteadof first concatenating and then \I{\code{parse()}ing} the large resultingfile. This allows parser or syntax errors to be diagnosed withcorrect file names and line numbers, thanks to \I{Simon Dedman}'s reportand Bill Dunlap's patch in \PR{17859}.This \emph{does} require syntactically self contained R sourcefiles now, fixing another inadvertent bug.\item \code{predict.lm(<model with offset>)} now finds the offset inthe correct environment, thanks to \I{André Gillibert}'s report and patchin \PR{18456}.\item \code{getInitial(<formula>)} now finds the \code{selfStart}model in the correct environment.(Reported by \I{Ivan Krylov} in \PR{18368}.)\item Fix for possible segfault when using recently-added graphicsfeatures, such as gradients, clipping paths, masks, and groups with\code{pdf(file=NULL)}.\item \code{class(m) <- class(m)} no longer changes a matrix \code{m}by adding a class \emph{attribute}.\item \code{packageDate(pkg)} now only warns once if there is no \code{pkg}.\item When \code{ts()} creates a multivariate time series,\code{"mts"}, it also inherits from \code{"array"} now, and\code{is.mts()} is documented \emph{and} stricter.\item \code{Rd2txt()} now preserves line breaks of \verb{\verb} Rdcontent and from duplicated \verb{\cr}. The former alsofixes the rendering of verbatim output from Rd\verb{\Sexpr} in plain-text help.\item \code{uniroot(f, interval)} should no longer wrongly converge\emph{outside} the interval in some cases where \code{abs(f(x)) == Inf}for an \code{x} at the interval boundary, thanks to posts by\I{Ben Bolker} and \I{Serguei Sokol} on R-devel.\item Vectorized alpha handling in palette functions such as in\code{gray()}, \code{rainbow()}, or \code{hcl.colors()} workscorrectly now, thanks to \I{Achim Zeileis}' report and patch in\PR{18476}.\item Formatting and \I{\code{print()}ing} of \code{bibentry} objects hasdropped the deprecated \code{citation.bibtex.max} argument, such thatthe \code{bibtex} argument's default for \code{print.bibentry()}depends directly on the \code{citation.bibtex.max} option, whereas in\code{format.bibentry()} the option no longer applies.\item Attempting to use a character string naming a foreignfunction entry point in a foreign function call in a package willnow signal an error if the packages has called\code{R_forceSymbols} to specify that symbols must beused.\item An error in \code{table()} could permanently set\code{options(warn=2)} promoting all subsequent warnings to errors.\item The \code{sigma()} function gave misleading results forbinary GLMs. A new method for objects of class \code{"glm"} returns thesquare root of the estimate of the dispersion parameter using thesame calculation as \code{summary.glm()}.\item \code{bs()} and \code{ns()} in the (typical) case of automaticknot construction, when some of the supposedly inner knots coincidewith boundary knots, now moves them inside (with a warning), buildingon \PR{18442} by \I{Ben Bolker}.\item \command{R CMD} on Windows now skips the site profile with\option{--no-site-file} and \option{--vanilla} even when\env{R_PROFILE} is set (\PR{18512}, from \I{Kevin Ushey}).}}}\section{\Rlogo CHANGES IN R 4.2.3}{\subsection{C-LEVEL FACILITIES}{\itemize{\item The definition of \code{DL_FUNC} in \file{R_ext/Rdynload.h}has been changed to be fully C-compliant. This means thatfunctions loaded \emph{via} for example \code{R_GetCCallable} needto be cast to an appropriate type if they have any arguments.\item \code{.Machine} has a new element \code{sizeof.time_t} toidentify old systems with a 32-bit type and hence a limited rangeof date-times (and limited support for dates millions of yearsfrom present).}}\subsection{PACKAGE INSTALLATION}{\itemize{\item (Windows) The default C++ standard had accidentally beenleft at C++11 when it was changed to C++14 on Unix.}}\subsection{BUG FIXES}{\itemize{\item As \code{"POSIXlt"} objects may be \dQuote{partially filled}and their list components meant to be recycled, \code{length()} nowis the length of the longest component.\item \code{as.POSIXlt.Date()} could underflow for dates in thefar past (more than half a million years \abbr{BCE}).\item \code{as.Date.POSIXlt(x)} would return \code{"1970-01-01"}instead of \code{NA} in R 4.2.2, e.g., for \preformatted{x <- as.POSIXlt(c("2019-01-30","2001-1-1"))x$mon <- c(0L, NA); as.Date(x)}\item \command{R CMD check} failed to apply enabled\env{_R_CHECK_SUGGESTS_ONLY_} to examples and vignettes(regression in \R 4.2.0).\item \command{R CMD check} did not re-build vignettes inseparate processes by default (regression in \R 4.2.0).\item Running examples from HTML documentation now restoresprevious \pkg{knitr} settings and options (\PR{18420}).\item Quartz: fonts are now located using Core Graphics APIinstead of deprecated ATS which is no longer supported in themacOS 13 \abbr{SDK} (\PR{18426}). This also addresses an issue wherethe currently used font in the Quartz device context was notcorrectly retained.\item (Windows) Math symbols in text drawing functions are againrendered correctly (\PR{18440}). This fixes a regression in \R 4.2.1caused by a fix in \PR{18382} which uncovered an issue in \I{GraphApp}due to which the symbol \abbr{charset} was not used with \I{TT Symbol} font face.\item (Windows) Installing a package with a\file{src/Makefile.\{win,ucrt\}} file includes\file{~/.R/Makevars.win64} in the search for user \I{makevars}, asdocumented in \dQuote{R Installation and Administration} and donefor packages with a \file{src/Makevars.\{win,ucrt\}} file.\item \code{format(<POSIXlt_w/_unbalanced_sec>, "....\%OS<n>")} with\eqn{n > 0} no longer accidentally uses the unbalanced seconds,thanks to \I{Suharto Anggono}'s report (including patch) in \PR{18448}.\item \code{solve.default(a, b)} works around issues withsome versions of LAPACK when \code{a} contains \code{NA} or\code{NaN} values.\item When \code{UseMethod()} cannot dispatch, it no longer segfaultsproducing the error message in case of a long \code{class()}, thanks to\I{Joris Vankerschaver}'s report (including patch) in \PR{18447}.\item When \code{example(foo, ..)} produces graphics on an interactivedevice it needs to open itself, it now leaves \code{devAskNewPage()}unchanged even when it was \code{FALSE}, thus fixing a 14 years old\sQuote{\I{FIXME}}.\item \code{packageDescription()} again catches errors from encodingconversions. This also fixes broken \code{packageVersion()} inC locale on systems where \code{iconv} does not support transliteration.}}}\section{\Rlogo CHANGES IN R 4.2.2}{\subsection{NEW FEATURES}{\itemize{\item \code{tools::Rdiff(useDiff = TRUE)} checks for the presenceof an external \command{diff} command and switches to\code{useDiff = FALSE} if none is found.This allows \command{R CMD Rdiff} to always work.\item On Windows, environment variable\env{R_LIBCURL_SSL_REVOKE_BEST_EFFORT} can be used to switch toonly \sQuote{best-effort} \abbr{SSL} certificate revocation checks withthe default \code{"libcurl"} download method. This reducessecurity, but may be needed for downloads to work with \abbr{MITM}proxies (\PR{18379}).\item (macOS) The run-time check for libraries from \I{XQuartz} forX11 and Tcl/Tk no longer uses \code{otool} from the AppleDeveloper Tools (PR#18400).\item The \LaTeX style for producing the PDF manuals, \file{Rd.sty},now loads the standard \samp{amsmath}, \samp{amsfonts} and\samp{amssymb} packages for greater coverage of math commands inthe Rd \verb{\eqn} and \verb{\deqn} macros.The \verb{\mathscr} \LaTeX command is also provided (via the\samp{mathrsfs} package, if available, or the \samp{amsfonts}bundle otherwise), fulfilling the wish of \PR{18398}.\item (Windows) The default format of \code{readClipboard()} and\code{writeClipboard()} has been changed to \code{13}(\code{CF_UNICODETEXT}).}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item The PDF manuals (if built) can be compacted by the newtarget \command{make compact-pdf} (at the top level or indirectory \file{doc/manual}).\item There is now \command{configure} support for \I{LLVM} clang 15on Linux, which defaults to position-independent (PIE) executableswhereas \command{gfortran} does not.\item Many small changes to ease compilation (and suppresswarnings) with \I{LLVM} \command{clang} 15.}}\subsection{BUG FIXES}{\itemize{\item \code{Rscript -e} would fail if \file{stdin} were closed(Reported by \I{Henrik Bengtsson}.)\item \code{qt(*, log.p=TRUE)} in outer tails no longer produces\code{NaN} in its final steps, thus fixing \PR{18360}.\item \code{tools::Rd2latex()} now escapes hashes and ampersandswhen writing URLs, fixing LaTeX errors with such URLs in \verb{\tabular}.\item When \code{isGeneric(f, fdef=*)} is used with mismatchingnames, the warning is better understandable; reported (with fix) in\PR{18370} by \I{Gabe Becker}.\item \code{poly(x, n)} now works again (and is now documented)when \code{x} is a \code{"Date"} or \code{"POSIXct"} object, or ofanother class while fulfilling \code{mode(x) == "numeric"}. Thisalso enables \code{poly(x, *, raw=TRUE)} for such variables.Reported by Michael Chirico to R-devel.\item \code{write.table()}, \code{write.csv()} and\code{write.csv2()} restore their numerical precision (internalequivalent of \code{digits = 15}) after an interrupt (\PR{18384}).\item One can now read also byte \code{FF} from a clipboard connection(\PR{18385}).\item \code{source("")} and \code{source(character())} now give morehelpful error messages.\item \command{R CMD check --as-cran} set \env{_R_CHECK_TIMINGS_}too late to have the intended effect.\item \code{as.POSIXlt(x)} now also works with very large dates\code{x}, fixing \PR{18401} reported by \I{Hannes Mühleisen}.\item Files can now be extracted even from very large zip archives(\PR{18390}, thanks to \I{Martin Jakt}).\item Non-finite objects of class \code{"POSIXlt"} are nowcorrectly coerced to classes \code{"Date"} and \code{"POSIXct"};following up on the extension to \code{format()} them correctly.\item Added methods for \code{is.finite()}, \code{is.infinite()}and \code{is.nan()} for \code{"POSIXlt"} date-time objects.}}\subsection{BUG FIXES on Windows}{\itemize{\item Non-ASCII characters are now properly displayed on Windowsin windows created using \I{GraphApp} viae.g.\sspace{}\code{winDialogString} thanks to a workaround for anat least surprising Windows behavior with UTF-8 as the systemencoding (\PR{18382}).\item Find and replace operations work again in the script editor in\command{Rgui} on Windows.\item Computation of window size based on requested client size in\I{GraphApp} when running in a multi-byte locale on Windows has been fixed(regression in \R 4.2.0 for users of systems where \R 4.1 used asingle-byte locale). \command{Rgui} again respects the number ofconsole rows and columns given in \file{Rconsole} file.\item \command{Rterm} support for \code{Alt+xxx} sequences has beenfixed to produce the corresponding character (only) once. This fixespasting text with tilde on Italian keyboard (PR#18391).}}}\section{\Rlogo CHANGES IN R 4.2.1}{\subsection{NEW FEATURES}{\itemize{\item New function \code{utils::findCRANmirror()} to find out if a\abbr{CRAN} mirror has been selected, otherwise fallback tothe main site. This behaves in the same way as\code{tools::CRAN_package_db()} and is intended for packageswishing to access \abbr{CRAN} for purposes other thaninstalling packages.The need for this was shown by a day when the main \abbr{CRAN}website was offline and a dozen or so packages which had its URLhardcoded failed their checks.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item The libraries searched for by \option{--with-blas} (withouta value) now include \I{BLIS} (after \I{OpenBLAS} but before ATLAS). Andon macOS, the Accelerate framework (after ATLAS). (This ispatterned after the \code{AX_BLAS} macro from the \I{Autoconf} Archive.)\item The included LAPACK sources have been updated to 3.10.1.}}\subsection{UTILITIES}{\itemize{\item The (full path to) the command \command{tidy} to be used forHTML validation can be set by environment variable \env{R_TIDYCMD}.\item Setting environment variable\env{_R_CHECK_RD_VALIDATE_RD2HTML_} to a false value will override\command{R CMD check --as-cran} and turn off HTML validation.This provides a way to circumvent a problematic \command{tidy}.The 2006 version that ships with macOS is always skipped.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The undocumented legacy declarations of \code{Sint},\code{Sfloat}, \code{SINT_MAX} and \code{SINT_MIN} in header\file{R.h} are deprecated.}}\subsection{BUG FIXES}{\itemize{\item \code{fisher.test(d)} no longer segfaults for \dQuote{large}\code{d}; fixing \PR{18336} by preventing/detecting an integeroverflow reliably.\item \code{tar(., files=*)} now produces correctly the warningabout invalid \abbr{UID} or \abbr{GID} of files, fixing \PR{18344}, reported byMartin Morgan.\item \code{tk_choose.files()} with \code{multi = FALSE}misbehaved on paths containing spaces (\PR{18334}) (regressionintroduced in \R 4.0.0).\item \code{sort(x, partial = ind, *)} now works correctly notably forthe non-default \code{na.last = FALSE} or \code{TRUE}, fixing\PR{18335} reported by James Edwards.\item Environment variable \env{_R_CHECK_XREFS_REPOSITORIES_} isonly used for checking \file{.Rd} cross-references in \command{RCMD check} (as documented) and not for other uses looking for a\abbr{CRAN} mirror.\item The search for a \abbr{CRAN} mirror when checkingpackages now uses \code{getOption("repos")} if that specifies a\abbr{CRAN} mirror, even when it does not also specify all threeBioconductor repositories (as was previously required).\item The \acronym{HTML} code generated by \code{tools::Rd2HTML()}has been improved to pass \command{tidy} 5.8.0.}}\subsection{BUG FIXES on Windows}{\itemize{\item Writing to a clipboard connection works again, fixing aregression in \R 4.2.0 (\PR{18332}). Re-using a closed clipboardconnection no longer issues a spurious warning about an ignoredencoding argument.\item C function \code{getlocale} no longer attempts to query anunsupported category from the OS, even when requested at R level,which may cause crashes when \R 4.2.0 (which uses \abbr{UCRT}) isembedded (reported by \I{Kevin Ushey}).\item Accent keys now work in \I{GraphApp} Unicode windows, which areused by \command{Rgui} whenever running in a multibyte locale (soalso in UTF-8, hence fixing a regression in \R 4.2.0 for users ofsystems where \R 4.1 used a single-byte locale).\item Completion in \command{Rgui} now works also withnon-ASCII characters.\item \command{Rgui} no longer truncates usage information with\option{--help}.\item Text injection from external applications via\code{SendInput} now works in \I{GraphApp} Unicode windows, fixing aregression in \R 4.2.0 for \command{Rgui} users of systems where\R 4.1 used a single-byte locale but \R 4.2.0 uses UTF-8.\item Performance of \code{txtProgressBar()} in \command{Rgui} whenrunning in a multi-byte locale has been improved (fixing aperformance regression in \R 4.2.0 for users of systems where \R4.1 used a single-byte locale).\item The script editor in \command{Rgui} now works also onsystems using UTF-8 as the native encoding. Users of the scripteditor have to convert their scripts with non-ASCII characters toUTF-8 before reading them in \R 4.2.1 or newer (on recent Windowswhere UTF-8 is used). This fixes a regression in \R 4.2.0, whichprevented some operations with scripts when they containednon-ASCII characters.}}}\section{\Rlogo CHANGES IN R 4.2.0}{\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item The \code{formula} method of \code{aggregate()} now matchesthe generic in naming its first argument \code{x} (resolving\PR{18299} by \I{Thomas Soeiro}).This means that calling \code{aggregate()} with a formula as anamed first argument requires name \code{formula} in earlierversions of \R and name \code{x} now, so portable code should notname the argument (code in many packages did).\item Calling \code{&&} or \code{||} with either argument oflength greater than one now gives a warning (which it is intendedwill become an error).\item Calling \code{if()} or \code{while()} with a condition oflength greater than one gives an error rather than a warning.Consequently, environment variable\env{_R_CHECK_LENGTH_1_CONDITION_} no longer has any effect.\item Windows users should consult the WINDOWS section below forsome profound changes including\itemize{\item Support for 32-bit builds has been dropped.\item UTF-8 locales are used where available.\item The default locations for the \R installation and personallibrary folder have been changed.}Thanks to \I{Tomas Kalibera} for months of work on the Windows portfor this release.}}\subsection{NEW FEATURES}{\itemize{\item \code{matrix(x, n, m)} now warns in more cases where\code{length(x)} differs from \code{n * m}, as suggested by\I{Abby Spurdle} and \I{Wolfgang Huber} in Feb 2021 on the R-develmailing list.This warning can be turned into an error by setting environmentvariable \env{_R_CHECK_MATRIX_DATA_} to \samp{TRUE}: \command{RCMD check --as-cran} does so unless it is already set.\item Function \code{file_test()} in package \pkg{utils} gainstests for symlinks, readability and writability.\item \code{capabilities("libxml")} is now false.The description of \code{capabilities("http/ftp")} now reflectsthat it refers to the default method, no longer the internal one.\item \code{simplify2array()} gains an \code{except} argument forcontrolling the exceptions used by \code{sapply()}.\item Environment variables \env{R_LIBS_USER} and\env{R_LIBS_SITE} are both now set to the \R system default ifunset or empty, and can be set to \code{NULL} to indicate an emptylist of user or site library directories.\item The warning for \code{axis()}(-like) calls in cases of relativelysmall ranges (typically in log-scale situations) is slightly improved\emph{and} suppressed from explicit calls to \code{.axisPars()} ashas always been the intention.\item The \code{contrasts} setter function \code{`contrasts<-`}gains an explicit default \code{how.many = NULL} rather than justusing \code{missing(how.many)}.\item \code{grid.pretty()} gains a new optional argument \code{n = 5}.\item There is a new function \code{.pretty()} with option\code{bounds} as a technical-utility version of \code{pretty()}. Itand \code{pretty()} gain a new argument \code{f.min} with a betterthan back-compatible default.\item Function \code{grDevices::axisTicks()} and related functionssuch as \code{graphics::axis()} work better, notably for the logscale; partly because of the \code{pretty()} improvements, but alsobecause care is taken e.g., when \code{ylim} is finite but\code{diff(ylim)} is infinite.\item \code{nclass.FD()} gains a \code{digits} option.\item The R \I{Mathlib} internal C function \code{bd0()} (calledindirectly from a dozen probability density and distributionfunctions such as \code{dpois()}, \code{dbinom()},\code{dgamma()}, \code{pgamma()} \emph{etc}) has been complementedby a more sophisticated and (mostly) more accurate C function\code{ebd0()}, currently called only by internal\code{dpois_raw()} improving accuracy for \R level \code{dpois()}and potentially others calling it such as \code{dnbinom()},\code{dgamma()} or \code{pgamma()}. (Thanks to \I{Morten Welinder}'s\PR{15628}.)\item \code{write.ftable()} gains \code{sep = " "} argument assuggested by \I{Thomas Soeiro}.\item The names of the locale categories supported by \R's\code{Sys.getlocale()} and \code{Sys.setlocale()} are now providedby variable \code{.LC.categories} in the \code{base} namespace.\item The \code{Date} and \code{POSIXt} methods for \code{hist()}and the \code{histogram} method for \code{plot()} now also use thenew default \code{col = "lightgray"} in consistency with thecorresponding change to \code{hist()}'s default for \R 4.0.0.\item \code{hist.default()} gains new \code{fuzz} argument, and thehistogram \code{plot} method no longer uses fractional axis tickswhen displaying counts (\code{"Frequency"}).\item \code{mapply()} and hence \code{Map()} now also obey the\dQuote{max-or-0-if-any} recycling rule, such that, e.g.,\code{Map(`+`, 1:3, 1[0])} is valid now.\item \code{as.character(<obj>)} for \code{"hexmode"} or\code{"octmode"} objects now fulfils the important basic rule\code{as.character(x)[j] === as.character(x[j])}.\item The set utility functions, notably \code{intersect()} have beentweaked to be more consistent and symmetric in their two setarguments, also preserving a common \code{mode}.\item \code{substr(ch, start,end) <- new} now e.g., preserves\code{names(ch)}; ditto for \code{substring()}, thanks to a patchfrom \I{Brodie Gaslam}.\item \code{plot(<lm>)} gains a \code{extend.ylim.f} argument, inpartial response to \PR{15285}; further \PR{17784} is fixed thanks toseveral contributors and a patch by \I{Elin Waring}.The Cook's dist contours get customizable via \code{cook.col} and\code{cook.lty} with a different default color and their legend isnicer by default and customizable via \code{cook.legendChanges}.\item Attempting to subset an object that is not \I{subsettable} nowsignals an error of class \code{notSubsettableError}. Thenon-\I{subsettable} object is contained in the \code{object} field ofthe error condition.\item Subscript-out-of-bounds errors are now signaled as errors ofclass \code{subscriptOutOfBoundsError}.\item Stack-overflow errors are now signaled as errors inheritingfrom class \code{stackOverflowError}. See\code{?stackOverflowError} for more details.\item New partly experimental \code{Sys.setLanguage()} utility,solving the main problem of \PR{18055}.\item \code{gettext()} and \code{gettextf()} get a new option\code{trim = TRUE} which when set to false allows translations forstrings such as \code{"Execution halted\n"} typical for C code.\item An experimental implementation of hash tables is nowavailable. See \code{?hashtab} for more details.\item \code{identical()} gains a \code{extptr.as.ref} argument forrequesting that external pointer objects be compared as referenceobjects.\item \code{reorder()} gets an argument \code{decreasing} which itpasses to \code{sort()} for level creation; based on the wish andpatch by \I{Thomas Soeiro} in \PR{18243}.\item \code{as.vector()} gains a \code{data.frame} method whichreturns a simple named list, also clearing a long standing\sQuote{\I{FIXME}} to enable \code{as.vector(<data.frame>,mode="list")}. This breaks code relying on\code{as.vector(<data.frame>)} to return the unchanged data frame.\item \code{legend()} is now vectorized for arguments \code{cex},\code{x.intersp}, and \code{text.width}.The latter can now also be specified as a vector (one element foreach column of the legend) or as \code{NA} for computing a propercolumn wise maximum value of \code{strwidth(legend)}.The argument \code{y.intersp} can be specified as a vector withone entry for each row of the legend.\code{legend()} also gains new arguments \code{title.cex} and\code{title.font}.Thanks to \I{Swetlana Herbrandt}.\item Deparsing no longer remaps attribute names \code{dim},\code{dimnames}, \code{levels}, \code{names} and \code{tsp} tohistorical S-compatible names (which \code{structure()} maps back).\item \code{sample()} and \code{sample.int()} have additionalsanity checks on their \code{size} and \code{n} arguments.\code{all.equal.numeric()} gains a sanity check on its\code{tolerance} argument -- calling \code{all.equal(a, b, c)} forthree numeric vectors is a surprisingly common error.\code{mean(na.rm =)}, \code{rank(na.last =)},\code{barplot(legend.text =)}, \code{boxplot()},\code{contour(drawlabels =)}, \code{polygon(border =)} and\code{methods::is(class2 =)} have more robust sanity checks ontheir arguments.\command{R CMD Rd2pdf} (used by \command{R CMD check}) has a morerobust sanity check on the format of \code{\\alias{}} commands.\item \code{psigamma(x, deriv)} for negative \code{x} now also worksfor \code{deriv = 4} and \code{5}; their underlying C level\code{dpsifn()} is documented in \sQuote{Writing R Extensions}.\item The HTML help system now uses HTML5 (wish of \PR{18149}).\item \code{ks.test()} now provides exact p-values also with tiesand MC p-values in the two-sample (Smirnov) case.By \I{Torsten Hothorn}.\item \code{ks.test()} gains a formula interface, with \code{y ~ 1}for the one-sample (Kolmogorov) test and \code{y ~ group} for thetwo-sample (Smirnov) test. Contributed by \I{Torsten Hothorn}.\item The return value from \code{ks.test()} now has class\code{c("ks.test", "htest")} -- packages using \code{try()} needto take care to use \code{inherits()} and not \code{==} on the class.\item New functions \code{psmirnov()}, \code{qsmirnov()} and\code{rsmirnov()} in package \pkg{stats} implementing theasymptotic and exact distributions of the two-sample Smirnov statistic.\item \code{iconv()} now allows \code{sub = "c99"} to use C99-styleescapes for UTF-8 inputs which cannot be converted to encoding \code{to}.\item In a forward pipe \code{|>} expression it is now possible touse a named argument with the placeholder \code{_} inthe \code{rhs} call to specify where the \code{lhs} is to beinserted. The placeholder can only appear once on the \code{rhs}.\item The included LAPACK sources have been updated to version 3.10.0,except for the four Fortran 77 routines which 3.10.0 hasre-implemented in Fortran 90 (where the older versions have beenretained as the \R build process does not support Fortran 90).\item \code{path.expand()} and most other uses of tilde expansion nowwarn if a path would be too long if expanded. (An exception is\code{file.exists()}, which silently returns false.)\item \code{trunc(<Date>, *)} now supports \code{units = "months"}or \code{"years"} for consistency with the \code{POSIXt} method,thanks to \I{Dirk Eddelbuettel}'s proposal in \PR{18099}.\item \code{list2DF()} now checks that its arguments are of thesame length, rather than use recycling.\item The HTML help system has several new features: LaTeX-likemath can be typeset using either \href{https://katex.org/}{\I{KaTeX}}or \href{https://www.mathjax.org/}{\I{MathJax}}, usage and examplecode is highlighted using \href{https://prismjs.com}{Prism}, andfor dynamic help the output of examples and demos can be shownwithin the browser if the \CRANpkg{knitr} package isinstalled. These features can be disabled by setting theenvironment variable \code{_R_HELP_ENABLE_ENHANCED_HTML_} to afalse value.}}\subsection{GRAPHICS}{\itemize{\item The graphics engine version, \code{R_GE_version}, has beenbumped to \code{15} and so packages that provide graphics devicesshould be reinstalled.\item The \pkg{grid} package now allows the user to specify a\dQuote{vector} of pattern fills. The \code{fill} argumentto \code{gpar()} accepts a list of gradients and/or patterns andthe functions \code{linearGradient()}, \code{radialGradient()},and \code{pattern()} have a new \code{group} argument.Points grobs (data symbols) can now also have a pattern fill.The \code{grobCoords()} function now returns a more informativeand complex result.\item The \pkg{grid} package has new functions for drawingisolated groups: \code{grid.group()}, \code{grid.define()}, and\code{grid.use()}. These functions add compositing operators andaffine transformations to R's graphics capabilities.The \pkg{grid} package also has new functions for strokingand filling paths: \code{grid.stroke()}, \code{grid.fill()},and \code{grid.fillStroke()}.A new function \code{as.path()} allows the user to specify thefill rule for a path that is to be used for clipping, stroking, orfilling; available options are \code{"winding"} and\code{"evenodd"}. A new function \code{as.mask()} allows the userto specify the type of a mask; available options are\code{"alpha"} and \code{"luminance"}.These new features are only supported so far (at most) on theCairo-based graphics devices and on the \code{pdf()} device.\item \code{dev.capabilities()} reports on device supportfor the new features.\item \code{par()} now warns about unnamed non-character argumentsto prevent misuse such as \code{{usr <- par("usr"); par(usr)}}.}}\subsection{WINDOWS}{\itemize{\item \R uses UTF-8 as the native encoding on recent Windowssystems (at least Windows 10 version 1903, Windows Server 2022 orWindows Server 1903). As a part of this change, R uses \abbr{UCRT} asthe C runtime. \abbr{UCRT} should be installed manually on systems olderthan Windows 10 or Windows Server 2016 before installing \R.\item The default personal library on Windows, folder\file{R\\win-library\\x.y} where \file{x.y} stands for \R release\file{x.y.z}, is now a subdirectory of Local Application Datadirectory (usually a hidden directory\file{C:\\Users\\username\\AppData\\Local}). Use\code{shell.exec(.libPaths()[1])} from \R to open the personallibrary in Explorer when it is first in the list (\PR{17842}).\item \R uses a new 64-bit Tcl/Tk bundle. The previous32-bit/64-bit bundle had a different layout and can no longer beused.\item Make files and installer scripts for Windows have beentailored to \file{Rtools42}, the newly recommended 64-bit\command{gcc} 10.3 \I{MinGW-W64} \abbr{UCRT} toolchain.\item \file{Rtools42} by default uses the Windows securityfeatures \I{ASLR} and \I{DEP}; hence \abbr{CRAN} builds of \R and packages alsodo.\item \R now supports files \file{Makevars.ucrt},\file{Makefile.ucrt}, \file{configure.ucrt} and\file{cleanup.ucrt} in packages, which are used in preference tothe \file{.win} variants. This allows keeping the \file{.win}files around to support older versions of \R. This feature willbe removed in the future once support for older versions of \Rwould no longer be needed.\item \code{R.version} gains a new field \code{crt} (only onWindows) to denote the C runtime. The value is \code{"ucrt"}.\item On Windows, \code{download.file(method = "auto")} and\code{url(method = "default")} now follow Unix in using\code{"libcurl"} for all except \samp{file://} \abbr{URI}s.\item \file{Rtools42} includes an unpatched \I{Msys2} build of GNU\command{tar}. Paths including drive letters can be made to workby adding \option{--force-local} to environment variable\env{TAR_OPTIONS}. (\file{Rtools40} and earlier included apatched version which defaulted to this option.)\item Installer builds of \R automatically find the\file{Rtools42} software collection as well as the compilertoolchain. No \env{PATH} setting is required from the user.\item The default installation directory of R for a user-onlyinstallation has been changed to the User Program Files directory(usually a hidden directory\file{C:\\Users\\username\\AppData\\Local\\Programs}) to followWindows conventions. Use \code{shell.exec(R.home())} from \R{} toopen the \R installation directory in Explorer (\PR{17842}).\item \R now supports installation-time patching of packages.Patches may be installed from a supplied URL or a local directoryor disabled. Patches are included into the installed packages forreference. This experimental feature may be removed in thefuture.\item \code{libcurl} is now required for building from source.\item The clipboard connection now works also with text in otherthan the current native encoding (\PR{18267}, with\I{Hiroaki Yutani}). Text is always pasted to the clipboard inUTF16-LE and the \code{encoding} argument is ignored.\item The internal case-changing functions are now used by defaulton Windows -- this circumvents problems (for example with E acute)of the \abbr{UCRT} Windows' runtime.\item \R on Windows now uses the system memory allocator. DougLea's allocator was used since \R 1.2.0 to mitigate performancelimitations seen with system allocators on earlier versions ofWindows.\item \code{memory.limit()} and \code{memory.size()} are now stubs onWindows (as on Unix-alikes).\item Applications embedding \R on Windows can now use additionalcallbacks, which have so far only been available only on Unix(\PR{18286}).}}\subsection{INSTALLATION}{\itemize{\item Facilities for accessing \samp{ftp://} sites are no longertested (except \emph{\I{pro tem}} for \code{curlGetHeaders()}) as modernbrowsers have removed support.%% Chrome and Firefox did in early 2021: Safari and Edge never had it.\item \R can now be built with \samp{DEFS = -DSTRICT_R_HEADERS} .}}\subsection{PACKAGE INSTALLATION}{\itemize{\item \command{R CMD INSTALL} no longer tangles vignettes. Thiscompletes an \command{R CMD build} change in \R 3.0.0 and affectspackages built before \R 3.0.2. Such packages should be re-madewith \command{R CMD build} to have the tangled \R code of vignettesshipped with the tarball.\item \code{USE_FC_LEN_T} will become the default: this uses thecorrect prototypes for Fortran BLAS/LAPACK routines called fromC/C++, and requires adjustment of most such calls -- see\sQuote{Writing R Extensions} §6.6.1. (This has been supportedsince \R 3.6.2.)\item Package installation speed for packages installed with\code{keep.source} has been improved. This resolve the issuereported by \I{Ofek Shilon} in \PR{18236}.}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check} can optionally reportfiles/directories left behind in home, \file{/tmp} (even though\env{TMPDIR} is set) and other directories. See the \dQuote{RInternals} manual for details.\item \command{R CMD check} now reports byte-compilation errorsduring installation. These are not usually fatal but may resultin parts of the package not being byte-compiled.\item \env{_R_CHECK_DEPENDS_ONLY_} can be applied selectively toexamples, tests and/or vignettes in \command{R CMD check}: see the\dQuote{R Internals} manual.\item \env{_R_CHECK_SRC_MINUS_W_IMPLICIT_} now defaults to true:recent versions of Apple \command{clang} on macOS have madeimplicit function declarations in C into a compilation error.\item \command{R CMD check --as-cran} makes use of theenvironment variable \env{AUTORECONF}. See the\dQuote{R Internals} manual §8 for further details.\item \command{R CMD check --use-valgrind} also uses\command{valgrind} when re-building vignettes as some non-Sweavevignettes unhelpfully comment out all their code when\command{R CMD check} runs vignettes.\item Errors in re-building vignettes (unless there are LaTeXerrors) are reported by \command{R CMD check} as \samp{ERROR} ratherthan \samp{WARNING} when running vignettes has been skipped (as itfrequently is in \abbr{CRAN} checks and by \option{--as-cran}).\item \command{R CMD Rd2pdf} gains a \option{--quiet} option that isused by \command{R CMD build} when building the PDF package manual.\item \command{R CMD Rd2pdf} now always runs LaTeX in batch mode,consistent with \I{Texinfo} \eqn{\ge}{>=} 6.7. The \option{--batch}option is ignored.\item \command{R CMD build} and \command{R CMD check} now includethe Rd file name and line numbers in the error message of an\verb{\Sexpr} evaluation failure.\item For packages using the \verb{\doi} Rd macro (now aninstall-time \verb{\Sexpr}) but no other dynamic Rd content,\command{R CMD build} now produces a smaller tarball and isconsiderably faster -- skipping temporary package installation.\item \command{R CMD check} can optionally (but included in\option{--as-cran}) validate the HTML produced from the packages\file{.Rd} files. See\url{https://blog.r-project.org/2022/04/08/enhancements-to-html-documentation/}:this needs a fairly recent version of HTML Tidy to be available.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The non-API header \file{R_ext/R-ftp-http.h} is no longerprovided, as the entry points it covered are now all defunct.\item A number of non-API declarations and macro definitions havebeen moved from the installed header \file{Rinternals.h} to theinternal header \file{Defn.h}. Packages that only use entry pointsand definitions documented to be part of the API as specified in\sQuote{Writing R Extensions} §6 should not be affected.\item The macro \code{USE_RINTERNALS} no longer has any effectwhen compiling package code. Packages which also use\code{R_NO_REMAP} will need to ensure that the remapped names areused for calls to API functions that were formerly also madeavailable as macros.\item The deprecated legacy S-compatibility macros \code{PROBLEM},\code{MESSAGE}, \code{ERROR}, \code{WARN}, \code{WARNING},\code{RECOVER}, \dots{} are no longer defined in\file{R_ext/RS.h} (included by \file{R.h}). Replace these bycalls to \code{Rf_error} and \code{Rf_warning} (defined in header\file{R_ext/Error.h} included by \file{R.h}).Header \file{R_ext/RS.h} no longer includes \file{R_ext/Error.h}.\item Header \file{R_ext/Constants.h} (included by \file{R.h})when included from C++ now includes the C++ header \file{cfloat}rather than the C header \file{float.h} (now possible as C++11 isrequired).\item The legacy S-compatibility macros \code{DOUBLE_*} in\file{R_ext/Constants.h} (included by \file{R.h}) are deprecated.\item The deprecated S-compatibility macros \code{SINGLE_*} in\file{R_ext/Constants.h} (included by \file{R.h}) have beenremoved.\item \code{R_Calloc}, \code{R_Free} and \code{R_Realloc} arepreferred to their unprefixed forms and error messages now use theprefix. These forms were introduced in \R 3.4.0 and are availableeven when \code{STRICT_R_HEADERS} is defined.\item \code{rmultinom} has been documented in \sQuote{Writing RExtensions} §6 so is now part of the \R API.\item Similarly, \code{Rtanpi}, called from \R level \code{tanpi()}is now part of the \R API.\item The long-deprecated, undocumented and non-API entry point\code{call_R} is no longer declared in \file{R_ext/RS.h} (includedby \file{R.h}).\item The header \file{S.h} which has been unsupported since Jan2016 has been removed. Use \file{R.h} instead.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item The (non-default and deprecated) \code{method = "internal"}for \code{download.file()} and \code{url()} no longer supports\samp{http://} nor \samp{ftp://} \abbr{URI}s. (It is used only for\samp{file://} \abbr{URI}s.)On Windows, \code{download.file(method = "wininet")} no longersupports \samp{ftp://} \abbr{URI}s. (It is no longer the default method,which is \code{"libcurl"} and does.)On Windows, the deprecated \code{method = "wininet"} now gives awarning for \samp{http://} and \samp{https://} \abbr{URI}s for both\code{download.file()} and \code{url()}. (It is no longer the defaultmethod.)\item On Windows, the command-line option \option{--max-mem-size}and environment variable \env{R_MAX_MEM_SIZE} are defunct. Thememory allocation limit was important for 32-bit builds,but these are no longer supported.\item \code{default.stringsAsFactors()} is now formally deprecated,where that was only mentioned on its regular help page,previously. So it now gives a warning if called.\item \code{unix.time()} is defunct now; it had been deprecated since\R 3.4.0.}}\subsection{BUG FIXES}{\itemize{\item Setting \code{digits = 0} in \code{format()},\code{print.default()} (and hence typically \code{print()}) or\code{options()} is again invalid. Its behaviour wasplatform-dependent, and it is unclear what \dQuote{zerosignificant digits} should mean (\PR{18098}).\item Messages from C code in the \file{cairo} section of package\pkg{grDevices} are now also offered for translation, thanks toMichael Chirico's \PR{18123}.\item \code{mean(x)} with finite \code{x} now is finite also without"long.double" capability.\item \command{R CMD Rd2pdf} no longer leaves an empty builddirectory behind when it aborts due to an already existing outputfile. (Thanks to Sebastian Meyer's \PR{18141}.)\item \code{density(x, weights = w, na.rm = TRUE)} when \code{anyNA(x)}is true, now removes weights \dQuote{in parallel} to \code{x}, fixing\PR{18151}, reported by \I{Matthias Gondan}.Additionally, it gets a \code{subdensity} option.\item Conversion of \verb{\Sexpr[]{<expR>}} to LaTeX or HTML no longerproduces long blocks of empty lines when \code{<expR>} itselfcontains several lines all producing empty output. Thanks to areport and patch by \I{Ivan Krylov} posted to R-devel.\item \command{R CMD build} no longer fails if a package vignetteuses child documents and \file{inst/doc} exists. (Thanks toSebastian Meyer's \PR{18156}.)\item When an R documentation (\sQuote{help} source) file\file{man/foo.Rd} in a package has \verb{\donttest{..}} exampleswith a syntax error, it is now signalled as ERROR and with correctline numbers relating to the \file{*-Ex.R} file, thanks to DuncanMurdoch and Sebastian Meyer's reports and patch proposals in\PR{17501}.\item Improved determination of the correct translation domain innon-base packages, addressing the combination of \PR{18092} and\PR{17998} (\code{#c6}) with reports and \emph{augmented} patch#2904 by \I{Suharto Anggono}.Note that \code{"R-base"} is no longer the default domain e.g.,for top-level calls to \code{gettext()}; rather translation needsexplicit \code{domain = *} specification in such cases.\item \code{identical(attrib.as.set=FALSE)} now works correctly withdata frames with default row names (Thanks to \I{Charlie Gao}'s\PR{18179}).\item \code{txtProgressBar()} now enforces a non-zero width forargument \code{char}, without which no progress can be visible.\item \code{dimnames(table(d))} is more consistent in the case where\code{d} is a list with a single component, thanks to \I{Thomas Soeiro}'sreport to R-devel.Further, \code{table(d1, d2)} now gives an error when \code{d1} and\code{d2} are data frames as suggested by Thomas in \PR{18224}.\item Fix for drawing semi-transparent lines and fills on thenative Windows graphics device (\PR{18219} and \PR{16694}).Thanks to Nick Ray for helpful diagnosis on Bugzilla.\item The \I{deparse}r now wraps sub-expressions such as \code{if(A) .. }with parentheses when needed; thanks to Duncan Murdoch's \PR{18232}and \I{Lionel Henry}'s patches there.\item \code{remove.packages()} no longer tries to uninstall\code{Priority: base} packages, thanks to a report and suggestionsby Colin Fay in \PR{18227}.\item \code{win.metafile()} now has \code{xpinch} and\code{ypinch} arguments so that the user can override Windows'(potentially wrong) guess at device dimensions.\item \code{x[i]} and \code{x[[i]]} for non-integer \code{i}should now behave in all cases as always documented: the index used isequivalent to \code{as.integer(i)} unless that would overflow where\code{trunc(i)} is used instead; thanks to \I{Suharto Anggono}'s reportand patch proposals in \PR{17977}.\item \code{asOneSidedFormula()} now associates the resultingformula with the global environment rather than the evaluationenvironment created for the call.\item \code{<bibentry>$name} now matches the field namecase-insensitively, consistent with \code{bibentry()} creation andthe replacement method.\item \code{cbind()} failed to detect some length mismatches witha mixture of time-series and non-time-series inputs.\item The default LaTeX style file \file{Sweave.sty} used by the\code{RweaveLatex} driver no longer loads the obsolete \samp{ae}package; thanks to a report by \I{Thomas Soeiro} in \PR{18271}.Furthermore, it now skips \samp{\\usepackage[T1]{fontenc}} forengines other than \I{pdfTeX} (if detected) or if the new\samp{[nofontenc]} option is used.\item \code{smooth.spline()} now stores its logical \code{cv}argument more safely, fixing a rare bug when printing, and alsostores \code{n}.\item \code{smooth.spline(x,y,*)} now computes the \code{cv.crit}statistic correctly, also when \code{is.unsorted(x)}, fixing\PR{18294}.\item The \code{data.frame} method of \code{rbind()} now warnswhen binding not-wholly-recycling vectors, by analogy to the defaultmethod (for matrices).\item \code{setAs()} finds the correct class for name \code{to}when multiple packages define a class with that name. Thanks to\I{Gabor Csardi} for the report.\item Fix for detaching a package when two classes of the same nameare present in method signatures for the same generic. Thanks to\I{Gabor Csardi} for the report.\item \code{match.arg("", c("", "a", "B"))} gives a better errormessage, in part from \PR{17959}, thanks to \I{Elin Waring}.\item \command{R CMD Sweave --clean} no longer removespre-existing files or subdirectories (\PR{18242}).\item The \code{quartz()} device no longer splits polylines intosubpaths. That has caused narrowly-spaced lines with many pointsto always look solid even when dashed line type was used due todash phase restarts.\item Deparsing constructs such as \code{quote(1 + `!`(2) + 3)} worksagain as before R 3.5.0, thanks to the report and patch in \PR{18284}by \I{Suharto Anggono}.\item \code{as.list(f)} for a \code{factor} \code{f} now keeps\code{names(f)}, fixing \PR{18309}.\item \code{qbeta(.001, .9, .009)} and analogous \code{qf()} calls nowreturn a correct value instead of \code{NaN} or wrongly \code{1}, allwith a warning; thanks to the report by \I{Ludger Goeminne} in \PR{18302}.\item \code{plot.lm()} failed to produce the plot of residuals vs.factor levels (i.e., \code{which=5} when leverages are constant)for models with character predictors (\PR{17840}).\item \code{interaction.plot(..., xtick = TRUE)} misplaced thex-axis line (\PR{18305}).\item Not strictly fixing a bug, \I{\code{format()}ing} and\I{\code{print()}ing} of non-finite \code{Date} and \code{POSIXt}values \code{NaN} and \eqn{\pm}{+/-}\code{Inf} no longer show as\code{NA} but the respective string, e.g., \code{Inf}, forconsistency with numeric vector's behaviour, fulfilling the wishof \PR{18308}.\item \command{R CMD check} no longer runs test scripts generatedfrom corresponding \file{.Rin} files twice and now signals anERROR if processing an \file{.Rin} script fails.\item \code{tools::Rd2txt()} used for plain-text help pages now renders\verb{\href}s (if \code{tools::Rd2txt_options(showURLs = TRUE)})and \verb{\url}s with percent-encoding and standards-compliantdelimiting style (angle brackets and no \samp{URL: } prefix).\verb{\email} is now rendered with a \samp{mailto:} prefix.}}}\section{\Rlogo CHANGES IN R 4.1.3}{\subsection{NEW FEATURES}{\itemize{\item The default version of Bioconductor has been changed to3.14. (This is used by \code{setRepositories} and the menus inGUIs.)}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check --as-cran} has a workaround for a bugin versions of \command{file} up to at least 5.41 whichmis-identify \abbr{DBF} files last changed in 2022 as executables.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The legacy S-compatibility macros \code{SINGLE_*} in\file{R_ext/Constants.h} (included by \file{R.h}) are deprecatedand will be removed in \R 4.2.0.}}\subsection{BUG FIXES}{\itemize{\item Initialization of self-starting \code{nls()} models withinitialization functions following the pre-R-4.1.0 API(without the \code{...} argument) works again for now, with adeprecation warning.\item Fixed quoting of \code{~autodetect~} in Java setting defaultsto avoid inadvertent user lookup due to leading \code{~}, reportedin \PR{18231} by \I{Harold Gutch}.\item \code{substr(., start, stop) <- v} now treats \emph{negative}\code{stop} values correctly. Reported with a patch in \PR{18228} by\I{Brodie Gaslam}.\item Subscripting an array \code{x} without dimnames by a\code{length(dim(x))}-column character matrix gave "random"non-sense, now an error; reported in \PR{18244} by \I{Mikael Jagan}.\item \code{...names()} now matches \code{names(list(...))} closely,fixing \PR{18247}.\item \code{all.equal(*, scale = s)} now works as intended when\code{length(s) > 1}, partly thanks to Michael Chirico's \PR{18272}.\item \code{print(x)} for long vectors \code{x} now also works fornamed atomic vectors or lists and prints the correct number whenreaching the \code{getOption("max.print")} limit; partly thanks to areport and proposal by Hugh Parsonage to the R-devel list.\item \code{all.equal(<selfStart>, *)} no longer signals a deprecationwarning.\item \code{reformulate(*, response=r)} gives a helpful error messagenow when \code{length(r) > 1}, thanks to Bill Dunlap's \PR{18281}.\item Modifying \code{globalCallingHandlers} inside\code{withCallingHandlers()} now works or fails correctly, thanks to\I{Henrik Bengtsson}'s \PR{18257}.\item \code{hist(<Date>, breaks = "days")} and\code{hist(<POSIXt>, breaks = "secs")}no longer fail for inputs of length 1.\item \code{qbeta(.001, .9, .009)} and similar cases now convergecorrectly thanks to \I{Ben Bolker}'s report in \PR{17746}.\item \code{window(x, start, end)} no longer wrongly signals\dQuote{'start' cannot be after 'end'}, fixing \PR{17527} and\PR{18291}.\item \code{data()} now checks that its (rarely used) \code{list}argument is a character vector -- a couple of packages passed othertypes and gave incorrect results.\item \code{which()} now checks its \code{arr.ind} argument isTRUE rather coercing to logical and taking the first element --which gave incorrect results in package code.\item \code{model.weights()} and \code{model.offset()} more carefullyextract their model components, thanks to \I{Ben Bolker} and Tim Taylor'sR-devel post.\item \code{list.files(recursive = TRUE)} now shows all brokensymlinks (previously, some of them may have been omitted, \PR{18296}).}}}\section{\Rlogo CHANGES IN R 4.1.2}{\subsection{C-LEVEL FACILITIES}{\itemize{\item The workaround in headers \file{R.h} and \file{Rmath.h}(\code{using namespace std;}) for the Oracle Developer Studiocompiler is no longer needed now C++11 is required so has beenremoved. A couple more usages of \code{log()} (which should havebeen \code{std::log()}) with an \code{int} argument are reported onSolaris.\item The undocumented limit of 4095 bytes on messages from theS-compatibility macros \code{PROBLEM} and \code{MESSAGE} is nowdocumented and longer messages will be silently truncated ratherthan potentially causing segfaults.\item If the \code{R_NO_SEGV_HANDLER} environment variable isnon-empty, the signal handler for \I{SEGV}/ILL/BUS signals (whichoffers recovery user interface) is not set. This allows morereliable debugging of crashes that involve the console.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item The legacy S-compatibility macros \code{PROBLEM},\code{MESSAGE}, \code{ERROR}, \code{WARN}, \code{WARNING},\code{RECOVER}, \dots{} are deprecated and will be hidden in \R4.2.0. \R{}'s native interface of \code{Rf_error} and\code{Rf_warning} has long been preferred.}}\subsection{BUG FIXES}{\itemize{\item \code{.mapply(F, dots, .)} no longer segfaults when\code{dots} is not a \code{list} and uses \code{match.fun(F)} asalways documented; reported by Andrew Simmons in \PR{18164}.\item \code{hist(<Date>, ...)} and \code{hist(<POSIXt>, ...)}no longer pass arguments for \code{rect()} (such as \code{col} and\code{density}) to \code{axis()}. (Thanks to Sebastian Meyer's\PR{18171}.)\item \verb{\Sexpr{ch}} now preserves \code{Encoding(ch)}. (Thanks toreport and patch by \I{Jeroen Ooms} in \PR{18152}.)\item Setting the RNG to \code{"Marsaglia-Multicarry"} e.g., by\code{RNGkind()}, now warns in more places, thanks to\I{André Gillibert}'s report and patch in \PR{18168}.\item \code{gray(numeric(), alpha=1/2)} no longer segfaults, fixing\PR{18183}, reported by \I{Till Krenz}.\item Fixed \code{dnbinom(x, size=<very_small>, .., log=TRUE)}regression, reported by Martin Morgan.\item \code{as.Date.POSIXlt(x)} now keeps \code{names(x)}, thanks toDavis Vaughan's report and patch in \PR{18188}.\item \code{model.response()} now strips an \code{"AsIs"} class typically,thanks to Duncan Murdoch's report and other discussants in \PR{18190}.\item \code{try()} is considerably faster in case of an error andlong call, as e.g., from some \code{do.call()}. Thanks to\I{Alexander Kaever}'s suggestion posted to R-devel.\item \code{qqline(y = <object>)} such as \code{y=I(.)}, now works,see also \PR{18190}.\item Non-integer \code{mgp} \code{par()} settings are now handledcorrectly in \code{axis()} and \code{mtext()}, thanks to \I{MikaelJagan} and Duncan Murdoch's report and suggestion in \PR{18194}.\item \code{formatC(x)} returns length zero \code{character()} now,rather than \code{""} when \code{x} is of length zero, as documented,thanks to Davis Vaughan's post to R-devel.\item \code{removeSource(fn)} now retains (other) \code{attributes(fn)}.}}}\section{\Rlogo CHANGES IN R 4.1.1}{\subsection{NEW FEATURES}{\itemize{\item \code{require(\var{pkg}, quietly = TRUE)} is quieter and inparticular does not warn if the package is not found.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item Use of \samp{ftp://} \abbr{URI}s should be regarded asdeprecated, with on-going support confined to \code{method ="libcurl"} and not routinely tested. (Nowadays no major browsersupports them.)\item The non-default \code{method = "internal"} is deprecated for\samp{http://} and \samp{ftp://} \abbr{URI}s for both\code{download.file} and \code{url}.\item On Windows, \code{method = "wininet"} is deprecated for\samp{http://}, \samp{https://} and \samp{ftp://} \abbr{URI}s for both\code{download.file} and \code{url}. (A warning is only given for\samp{ftp://}.)For \samp{ftp://} \abbr{URI}s the default method is now \code{"libcurl"}if available (which it is on \abbr{CRAN} builds).\code{method = "wininet"} remains the default for \samp{http://}and \samp{https://} \abbr{URI}s but if \code{libcurl} is available, using\code{method = "libcurl"} is preferred.}}\subsection{INSTALLATION}{\itemize{\item \command{make check} now works also without a LaTeXinstallation. (Thanks to Sebastian Meyer's \PR{18103}.)}}\subsection{BUG FIXES}{\itemize{\item \command{make check-devel} works again in an \R buildconfigured with \option{--without-recommended-packages}.\item \code{qnbinom(p, size, mu)} for large \code{size/mu} is correctnow in a range of cases (\PR{18095}); similarly for the \code{(size,prob)} parametrization of the negative binomial. Also \code{qpois()}and \code{qbinom()} are better and or faster for extreme cases. Theunderlying C code has been modularized and is common to all four casesof discrete distributions.\item \code{gap.axis} is now part of the \code{axis()} arguments whichare passed from \code{bxp()}, and hence \code{boxplot()}. (Thanks toMartin Smith's report and suggestions in \PR{18109}.)\item \code{.First} and \code{.Last} can again be set from the siteprofile.\item \code{seq.int(from, to, *)} and \code{seq.default(..)} now workbetter in large range cases where \code{from-to} is infinite wherethe two boundaries are finite.\item \code{all.equal(x,y)} now returns \code{TRUE} correctly alsowhen several entries of \code{abs(x)} and \code{abs(y)} are close to\code{.Machine$double.xmax}, the largest finite \code{numeric}.\item \code{model.frame()} now clears the object bit when removing the\code{class} attribute of a value via \code{na.action} (\PR{18100}).\item \code{charClass()} now works with multi-characterstrings on Windows (\PR{18104}, fixed by Bill Dunlap).\item \code{encodeString()} on Solaris now works again in Latin-1encoding on characters represented differently in UTF-8. Support forsurrogate pairs on Solaris has been improved.\item \code{file.show()} on Windows now works with non-ASCII pathnames representable in the current native encoding (\PR{18132}).\item Embedded \R on Windows can now find \R home directory via theregistry even when installed only for the current user (\PR{18135}).\item \code{pretty(x)} with finite \code{x} now returns finite valuesalso in the case where the extreme \code{x} values are close in sizeto the maximal representable number \code{.Machine$double.xmax}.Also, it's been tweaked for very small ranges and when a boundary isclose (or equal) to zero; e.g., \code{pretty(c(0,1e-317))} no longerhas negative numbers, currently still warning about a very smallrange, and \code{pretty(2^-(1024 - 2^-1/(c(24,10))))} is more accurate.\item The error message for not finding vignette files when weavinghas correct file sizes now. (Thanks to Sebastian Meyer's \PR{18154}.)\item \code{dnbinom(20, <large>, 1)} now correctly gives 0, andsimilar cases are more accurate with underflow precaution.(Reported by \I{Francisco Vera Alcivar} in \PR{18072}.)}}}\section{\Rlogo CHANGES IN R 4.1.0}{\subsection{FUTURE DIRECTIONS}{\itemize{\item It is planned that the 4.1.x series will be the last tosupport 32-bit Windows, with production of binary packages forthat series continuing until early 2023.}}\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item Data set \code{esoph} in package \pkg{datasets} now providesthe correct numbers of controls; previously it had the numbers ofcases added to these. (Reported by Alexander Fowler in \PR{17964}.)}}\subsection{NEW FEATURES}{\itemize{\item \samp{www.omegahat.net} is no longer one of the repositoriesknown by default to \code{setRepositories()}. (Nowadays it onlyprovides source packages and is often unavailable.)%% it had one Windows binary package for 4.0, none for 3.6.\item Function \code{package_dependencies()} (in package\pkg{tools}) can now use different dependency types for direct andrecursive dependencies.\item The checking of the size of tarball in\command{R CMD check --as-cran <pkg>} may be tweaked via the newenvironment variable\env{_R_CHECK_CRAN_INCOMING_TARBALL_THRESHOLD_}, as suggested in\PR{17777} by \I{Jan Gorecki}.\item Using \code{c()} to combine a factor with other factors nowgives a factor, an ordered factor when combining ordered factorswith identical levels.\item \code{apply()} gains a \code{simplify} argument to allowdisabling of simplification of results.\item The \code{format()} method for class \code{"ftable"} gets anew option \code{justify}. (Suggested by \I{Thomas Soeiro}.)\item New \code{...names()} utility. (Proposed by \I{Neal Fultz} in\PR{17705}.)\item \code{type.convert()} now warns when its \code{as.is} argumentis not specified, as the help file always said it \emph{should}. Inthat case, the default is changed to \code{TRUE} in line with itschange in \code{read.table()} (related to \code{stringsAsFactors}) in\R 4.0.0.\item When printing list arrays, classed objects are now shown\emph{via} their \code{format()} value if this is a short enoughcharacter string, or by giving the first elements of their classvector and their length.\item \code{capabilities()} gets new entry \code{"Rprof"} which is\code{TRUE} when \R has been configured with the equivalent of\command{--enable-R-profiling} (as it is by default). (Related to\I{Michael Orlitzky}'s report \PR{17836}.)\item \code{str(xS4)} now also shows extraneous attributes of anS4 object \code{xS4}.\item Rudimentary support for vi-style tags in \code{rtags()} and\command{R CMD rtags} has been added. (Based on a patch from\I{Neal Fultz} in \PR{17214}.)\item \code{checkRdContents()} is now exported from \pkg{tools}; itand also \code{checkDocFiles()} have a new option \code{chkInternal}allowing to check Rd files marked with keyword \code{"internal"} aswell. The latter can be activated for \command{R CMD check} viaenvironment variable \env{_R_CHECK_RD_INTERNAL_TOO_}.\item New functions \code{numToBits()} and \code{numToInts()}extend the \code{raw} conversion utilities to (double precision)\code{numeric}.\item Functions \code{URLencode()} and \code{URLdecode()} inpackage \pkg{utils} now work on vectors of \abbr{URI}s.(Based on patch from \I{Bob Rudis} submitted with \PR{17873}.)\item \code{path.expand()} can expand \samp{~user} on mostUnix-alikes even when \code{readline} is not in use. It triesharder to expand \samp{~}, for example should environment variable\env{HOME} be unset.\item For HTML help (both dynamic and static), Rd file links tohelp pages in external packages are now treated as references totopics rather than file names, and fall back to a file link onlyif the topic is not found in the target package. The earlier rulewhich prioritized file names over topics can be restored bysetting the environment variable \env{_R_HELP_LINKS_TO_TOPICS_} toa false value.\item \code{c()} now removes \code{NULL} arguments beforedispatching to methods, thus simplifying the implementation of\code{c()} methods, \emph{but} for back compatibility keeps\code{NULL} when it is the first argument. (From a report andpatch proposal by Lionel Henry in \PR{17900}.)\item \code{Vectorize()}'s result function's environment no longerkeeps unneeded objects.\item Function \code{...elt()} now propagates visibilityconsistently with \code{..n}. (Thanks to Lionel Henry's\PR{17905}.)\item \code{capture.output()} no longer uses non-standardevaluation to evaluate its arguments. This makes evaluation offunctions like \code{parent.frame()} more consistent. (Thanks toLionel Henry's \PR{17907}.)\item \code{packBits(bits, type="double")} now works as inverse of\code{numToBits()}. (Thanks to Bill Dunlap's proposal in\PR{17914}.)\item \code{curlGetHeaders()} has two new arguments,\code{timeout} to specify the timeout for that call (overriding\code{getOption("timeout")}) and \code{TLS} to specify the minimum\abbr{TLS} protocol version to be used for \code{https://} \abbr{URI}s(\emph{inter alia} providing a means to check for sites usingdeprecated \abbr{TLS} versions 1.0 and 1.1).\item For \code{nls()}, an optional constant \code{scaleOffset}may be added to the denominator of the relative offset convergencetest for cases where the fit of a model is expected to be exact,thanks to a proposal by John Nash. \code{nls(*, trace=TRUE)} nowalso shows the convergence criterion.\item Numeric differentiation \emph{via} \code{numericDeriv()}gets new optional arguments \code{eps} and \code{central}, thelatter for taking central divided differences. The latter can beactivated for \code{nls()} via \code{nls.control(nDcentral =TRUE)}.\item \code{nls()} now passes the \code{trace} and \code{control}arguments to \code{getInitial()}, notably for all self-starting models,so these can also be fit in zero-noise situations via a\code{scaleOffset}. For this reason, the \code{initial} function of a\code{selfStart} model must now have \code{...} in its argument list.\item \code{bquote(splice = TRUE)} can now splice expressionvectors with attributes: this makes it possible to splice theresult of \code{parse(keep.source = TRUE)}. (Report and patchprovided by Lionel Henry in \PR{17869}.)\item \code{textConnection()} gets an optional \code{name} argument.\item \code{get()}, \code{exists()}, and \code{get0()} now signalan error if the first argument has length greater than 1.Previously additional elements were silently ignored. (Suggestedby \I{Antoine Fabri} on R-devel.)\item \R{} now provides a shorthand notation for creating functions,e.g. \code{\(x) x + 1} is parsed as \code{function(x) x + 1}.\item \R{} now provides a simple native forward pipe syntax\code{|>}. The simple form of the forward pipe inserts theleft-hand side as the first argument in the right-hand side call.The pipe implementation as a syntax transformation was motivatedby suggestions from Jim Hester and Lionel Henry.\item \code{all.equal(f, g)} for \code{function}s now by default alsocompares their \code{environment(.)}s, notably via new\code{all.equal} method for class \code{function}. Comparison of\code{nls()} fits, e.g., may now need \code{all.equal(m1, m2,check.environment = FALSE)}.\item \code{.libPaths()} gets a new option \code{include.site},allowing to \emph{not} include the site library. (Thanks to\I{Dario Strbenac}'s suggestion and \I{Gabe Becker}'s \PR{18016}.)\item Lithuanian translations are now available. (Thanks to\I{Rimantas Žakauskas}.)\item \code{names()} now works for \code{DOTSXP} objects. On theother hand, in \file{R-lang}, the R language manual, we now warnagainst relying on the structure or even existence of suchdot-dot-dot objects.\item \code{all.equal()} no longer gives an error on \code{DOTSXP}objects.%% The Homebrew arm64 libs have cairo but not cairo-xlib\item \code{capabilities("cairo")} now applies only to thefile-based devices as it is now possible (if very unusual) tobuild \R with Cairo support for those but not for \code{X11()}.\item There is optional support for tracing the progress of\code{loadNamespace()} --- see its help.\item (Not Windows.)\code{l10n_info()} reports an additional element, the name of theencoding as reported by the OS (which may differ from theencoding part (if any) of the result from\code{Sys.getlocale("LC_CTYPE")}).\item New function \code{gregexec()} which generalizes \code{regexec()}to find \emph{all} disjoint matches and all substringscorresponding to parenthesized subexpressions of the given regularexpression. (Contributed by \I{Brodie Gaslam}.)\item New function \code{charClass()} in package \pkg{utils} toquery the wide-character classification functions in use (such as\code{iswprint}).\item The names of \code{quantile()}'s result no longer depend on theglobal \code{getOption("digits")}, but \code{quantile()} gets a newoptional argument \code{digits = 7} instead.\item \code{grep()}, \code{sub()}, \code{regexp} and variants workconsiderably faster for long factors with few levels. (Thanks toMichael Chirico's \PR{18063}.)\item Provide grouping of \code{x11()} graphics windows withina window manager such as \code{Gnome} or \code{Unity}; thanks to apatch by \I{Ivan Krylov} posted to R-devel.\item The \code{split()} method for class \code{data.frame} nowallows the \code{f} argument to be specified as a formula.\item \code{sprintf} now warns on arguments unused by the formatstring.\item New palettes \code{"Rocket"} and \code{"Mako"} for\code{hcl.colors()} (approximating palettes of the same namefrom the \pkg{viridisLite} package).Contributed by \I{Achim Zeileis}.\item The base environment and its namespace are now locked (soone can no longer add bindings to these or remove from these).\item \command{Rterm} handling of multi-byte characters has beenimproved, allowing use of such characters when supported by thecurrent locale.\item \command{Rterm} now accepts \code{ALT+ +xxxxxxxx} sequences toenter Unicode characters as hex digits.\item Environment variable \env{LC_ALL} on Windows now takesprecedence over \env{LC_CTYPE} and variables for other supportedcategories, matching the POSIX behaviour.\item \code{duplicated()} and \code{anyDuplicated()} are nowoptimized for integer and real vectors that are known to be sortedvia the \I{ALTREP} framework. Contributed by Gabriel Becker via \PR{17993}.}}\subsection{GRAPHICS}{\itemize{\item The graphics engine version, \code{R_GE_version}, has beenbumped to \code{14} and so packages that provide graphics devicesshould be reinstalled.\item Graphics devices should now specify \code{deviceVersion} toindicate what version of the graphics engine they support.\item Graphics devices can now specify \code{deviceClip}. If\code{TRUE}, the graphics engine will never perform any clippingof output itself.The clipping that the graphics engine does perform (for both\code{canClip = TRUE} and \code{canClip = FALSE}) has beenimproved to avoid producing unnecessary artifacts in clippedoutput.\item The \pkg{grid} package now allows \code{gpar(fill)} to bea \code{linearGradient()}, a \code{radialGradient()}, or a\code{pattern()}. The \code{viewport(clip)} can now also bea grob, which defines a clipping path, and there is a new\code{viewport(mask)} that can also be a grob, which definesa mask.These new features are only supported so far on the Cairo-basedgraphics devices and on the \code{pdf()} device.\item (Not Windows.)A warning is given when a Cairo-based type is specified for a\code{png()}, \code{jpeg()}, \code{tiff()} or \code{bmp()}device but Cairo is unsupported (so \code{type = "Xlib"}is tried instead).\item \code{grSoftVersion()} now reports the versions of \I{FreeType}and \I{FontConfig} if they are used directly (not \emph{via} \I{Pango}),as is most commonly done on macOS.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item The \emph{standalone} \file{libRmath} math library and \R's CAPI now provide \code{log1pexp()} again as documented, and gain\code{log1mexp()}.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item \command{configure} checks for a program \command{pkgconf}if program \command{pkg-config} is not found. These are now onlylooked for on the path (like almost all other programs) so if neededspecify a full path to the command in \code{PKG_CONFIG}, for examplein file \file{config.site}.\item C99 function \code{iswblank} is required -- it was last seenmissing ca 2003 so the workaround has been removed.\item There are new \command{configure} options\option{--with-internal-iswxxxxx},\option{--with-internal-towlower} and\option{--with-internal-wcwidth} which allows the system functionsfor wide-character classification, case-switching and width(\code{wcwidth} and \code{wcswidth}) to be replaced by internalones. The first has long been used on macOS, \I{AIX} (and Windows)but this enables it to be unselected there and selected for otherplatforms (it is the new default on Solaris). The second is newin this version of \R and is selected by default on macOS andSolaris. The third has long been the default and remains so as itcontains customizations for East Asian languages.System versions of these functions are often minimally implemented(sometimes only for ASCII characters) and may not cover the fullrange of Unicode points: for example Solaris (and Windows) onlycover the Basic Multilingual Plane.\item Cairo installations without X11 are more likely to bedetected by \command{configure}, when the file-based Cairographics devices will be available but not \code{X11(type ="cairo")}.\item There is a new \command{configure} option\option{--with-static-cairo} which is the default on macOS. Thisshould be used when only static \I{cairo} (and where relevant, \I{Pango})libraries are available.\item \I{Cairo}-based graphics devices on platforms without \I{Pango} butwith \I{FreeType}/\I{FontConfig} will make use of the latter for font selection.}}\subsection{LINK-TIME OPTIMIZATION on a UNIX-ALIKE}{\itemize{\item Configuring with flag \option{--enable-lto=R} now also uses\abbr{LTO} when installing the recommended packages.\item \command{R CMD INSTALL} and \command{R CMD SHLIB} have a newflag \option{--use-LTO} to use \abbr{LTO} when compiling code, for usewith \R configured with \option{--enable-lto=R}. For \Rconfigured with \option{--enable-lto}, they have the new flag\option{--no-use-LTO}.Packages can opt in or out of \abbr{LTO} compilation \emph{via} a\samp{UseLTO} field in the \file{DESCRIPTION} file. (As usual thiscan be overridden by the command-line flags.)}}\subsection{BUILDING R on Windows}{\itemize{\item for GCC \eqn{\ge}{>=} 8, \code{FC_LEN_T} is defined in\file{config.h} and hence character lengths are passed from C toFortran in \emph{inter alia} BLAS and LAPACK calls.\item There is a new text file\file{src/gnuwin32/README.compilation}, which outlines how C/Fortrancode compilation is organized and documents new features:\itemize{\item \R can be built with Link-Time Optimization with asuitable compiler -- doing so with GCC 9.2 showed severalinconsistencies which have been corrected.\item There is support for cross-compiling the C and Fortrancode in \R and standard packages on suitable (Linux) platforms.This is mainly intended to allow developers to test laterversions of compilers -- for example using GCC 9.2 or 10.x hasdetected issues that GCC 8.3 in \I{Rtools40} does not.\item There is experimental support for cross-building \Rpackages with C, C++ and/or Fortran code.}\item The R installer can now be optionally built to support a singlearchitecture (only 64-bit or only 32-bit).}}\subsection{PACKAGE INSTALLATION}{\itemize{\item The default C++ standard has been changed to C++14 whereavailable (which it is on all currently checked platforms): if not(as before) C++11 is used if available otherwise C++ is notsupported.Packages which specify C++11 will still be installed using C++11.C++14 compilers may give deprecation warnings, most often for\code{std::random_shuffle} (deprecated in C++14 and removed inC++17). Either specify C++11 (see \sQuote{Writing R Extensions})or modernize the code and if needed specify C++14. The latter hasbeen supported since \R 3.4.0 so the package's \file{DESCRIPTION}would need to include something like\preformatted{Depends: R (>= 3.4)}}}\subsection{PACKAGE INSTALLATION on Windows}{\itemize{\item \command{R CMD INSTALL} and \command{R CMD SHLIB} make useof their flag \option{--use-LTO} when the \samp{LTO_OPT} makemacro is set in file \file{etc/$\{R_ARCH\}/Makeconf} or in apersonal/site \file{Makevars} file. (For details see\sQuote{Writing R Extensions} §4.5.)This provides a valuable check on code consistency. It does workwith GCC 8.3 as in \I{Rtools40}, but that does not detect everythingthe \abbr{CRAN} checks with current GCC do.}}\subsection{PACKAGE INSTALLATION on macOS}{\itemize{\item The default personal library directory on builds with\option{--enable-aqua} (including \abbr{CRAN} builds) nowdiffers by CPU type, one of\preformatted{~/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 \samp{x86_64} build of R is run under Rosetta emulation onan \samp{arm64} Mac, the first is used.}}\subsection{UTILITIES}{\itemize{\item \command{R CMD check} can now scan package functions forbogus \code{return} statements, which were possibly intended as\code{return()} calls (wish of \PR{17180}, patch by SebastianMeyer). This check can be activated via the new environmentvariable \env{_R_CHECK_BOGUS_RETURN_}, true for \code{--as-cran}.\item \command{R CMD build} omits tarballs and binaries ofprevious builds from the top-level package directory.(\PR{17828}, patch by Sebastian Meyer.)\item \command{R CMD check} now runs sanity checks on the use of\samp{LazyData}, for example that a \file{data} directory ispresent and that \samp{LazyDataCompression} is not specifiedwithout \samp{LazyData} and has a documented value. For packageswith large \I{LazyData} databases without specifying\samp{LazyDataCompression}, there is a reference to the code givenin \sQuote{Writing R Extensions} §1.1.6 to test the choice ofcompression (as in all the \abbr{CRAN} packages tested anon-default method was preferred).\item \command{R CMD build} removes \samp{LazyData} and\samp{LazyDataCompression} fields from the \file{DESCRIPTION} fileof packages without a \file{data} directory.}}\subsection{ENCODING-RELATED CHANGES}{\itemize{\item The parser now treats \samp{\\Unnnnnnnn} escapes larger thanthe upper limit for Unicode points (\samp{\\U10FFFF}) as an erroras 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 (ratherthan 8 with leading zeros). For clarity, braces are used, forexample \samp{\\U\{0effff\}}.\item The parser now looks for non-ASCII spaces on Solaris (aspreviously on most other OSes).\item There are warnings (including from the parser) on the use ofunpaired surrogate Unicode points such as \samp{\\uD834}. (Thesecannot be converted to valid UTF-8.)\item Functions \code{nchar()}, \code{tolower()}, \code{toupper()}and \code{chartr()} and those using regular expressions have moresupport for inputs with a marked Latin-1 encoding.\item The character-classification functions used (by default) toreplace the system \code{iswxxxxx} functions on Windows, macOS and\I{AIX} have been updated to Unicode 13.0.0.The character-width tables have been updated to include newassignments in Unicode 13.0.0. This included treating all controlcharacters as having zero width.\item The code for evaluating default (extended) regularexpressions now uses the same character-classification functionsas the rest of \R (previously they differed on Windows, macOS and\I{AIX}).\item There is a build-time option to replace the system'swide-character \code{wctrans} C function by tables shipped with\R: use \command{configure} option\option{--with-internal-towlower} or (on Windows)\samp{-DUSE_RI18N_CASE} in \samp{CFLAGS} when building \R. Thismay be needed to allow \code{tolower()} and \code{toupper()} towork with Unicode characters beyond the Basic Multilingual Planewhere not supported by system functions (e.g. on Solaris where itis the new default).\item R is more careful when truncating UTF-8 and other multi-bytestrings that are too long to be printed, passed to the system orlibraries or placed into an internal buffer. Truncation will nolonger produce incomplete multibyte characters.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item Function \code{plclust()} from the package \pkg{stats} and\code{package.dependencies()}, \code{pkgDepends()},\code{getDepList()}, \code{installFoundDepends()}, and\code{vignetteDepends()} from package \pkg{tools} are defunct.\item Defunct functions \code{checkNEWS()} and \code{readNEWS()} frompackage \pkg{tools} and \code{CRAN.packages()} from \pkg{utils} havebeen removed.\item \command{R CMD config CXXCPP} is defunct (it was deprecatedin \R{} 3.6.2).\item \code{parallel::detectCores()} drops support for \I{IRIX}(retired in 2013).\item The \code{LINPACK} argument to \code{chol.default()},\code{chol2inv()}, \code{solve.default()} and \code{svd()} hasbeen defunct since \R 3.1.0. It was silently ignored up to \R4.0.3 but now gives an error.\item Subsetting/indexing, such as \code{ddd[*]} or \code{ddd$x}on a \code{DOTSXP} (dot-dot-dot) object \code{ddd} has beendisabled; it worked by accident only and was undocumented.}}\subsection{BUG FIXES}{\itemize{\item Many more C-level allocations (mainly by \code{malloc} and\code{strdup}) are checked for success with suitable alternativeactions.\item Bug fix for \code{replayPlot()}; this was turning offgraphics engine display list recording if a recorded plot wasreplayed in the same session. The impact of the bug becamevisible if resize the device after replay OR if attempted another\code{savePlot()} after replay (empty display list means emptyscreen on resize or empty saved plot).\item \command{R CMD check} etc now warn when a package exportsnon-existing S4 classes or methods, also in case of no\dQuote{methods} presence. (Reported by Alex Bertram;reproducible example and patch by Sebastian Meyer in \PR{16662}.)\item \code{boxplot()} now also accepts \code{call}s for labels suchas \code{ylab}, the same as \code{plot()}.(Reported by \I{Marius Hofert}.)\item The help page for \code{xtabs()} now correctly states that\code{addNA} is setting \code{na.action = na.pass} among others.(Reported as \PR{17770} by \I{Thomas Soeiro}.)\item The \command{R CMD check <pkg>} gives a longer and morecomprehensible message when \file{DESCRIPTION} misses dependencies,e.g., in \code{Imports:}. (Thanks to the contributors of \PR{17179}.)\item \code{update.default()} now calls the generic \code{update()}on the formula to work correctly for models with extended formulas.(As reported and suggested by \I{Neal Fultz} in \PR{17865}.)\item The horizontal position of leaves in a dendrogram is nowcorrect also with \code{center = FALSE}. (\PR{14938}, patch fromSebastian Meyer.)\item \code{all.equal.POSIXt()} no longer warns about andsubsequently ignores inconsistent \code{"tzone"} attributes, butdescribes the difference in its return value (\PR{17277}).This check can be disabled \emph{via} the new argument\code{check.tzone = FALSE} as suggested by Sebastian Meyer.\item \code{as.POSIXct()} now populates the \code{"tzone"}attribute from its \code{tz} argument when \code{x} is a logicalvector consisting entirely of \code{NA} values.\item \code{x[[2^31]] <- v} now works. (Thanks to the report andpatch by \I{Suharto Anggono} in \PR{17330}.)\item In log-scale graphics, \code{axis()} ticks and label positionsare now computed more carefully and symmetrically in their range,typically providing \emph{more} ticks, fulfilling wishesin \PR{17936}. The change really corresponds to an improved\code{axisTicks()} (package \pkg{grDevices}), potentially influencing\pkg{grid} and \pkg{lattice}, for example.\item \code{qnorm(<very large negative>, log.p=TRUE)} is now correctto at least five digits where it was catastrophically wrong,previously.\item \code{sum(df)} and similar \code{"Summary"}- and\code{"Math"}-group member functions now work for data frames\code{df} with \code{logical} columns, notably also of zerorows. (Reported to R-devel by Martin \dQuote{b706}.)\item \code{unsplit()} had trouble with \I{tibble}s due to unsound use of\code{rep(NA, len)}-indexing, which should use \code{NA_integer_}(Reported to R-devel by \I{Mario Annau}.)\item \code{pnorm(x, log.p = TRUE)} underflows to \code{-Inf} slightlylater.\item \code{show(<hidden S4 generic>)} prints better and withoutquotes for non-hidden S4 generics.\item \code{read.table()} and relatives treated an "NA" column name asmissing when \code{check.names = FALSE} \PR{18007}.\item Parsing strings containing UTF-16 surrogate pairs such as\code{"\uD834\uDD1E"} works better on some (uncommon) platforms.\code{sprintf("\%X", utf8ToInt("\uD834\uDD1E"))} should now give\code{"1D11E"} on all platforms.%% failed on Solaris\item \code{identical(x,y)} is no longer true for differing\code{DOTSXP} objects, fixing \PR{18032}.\item \code{str()} now works correctly for \code{DOTSXP} and relatedexotics, even when these are doomed.Additionally, it no longer fails for \code{list}s with a \code{class} and\dQuote{irregular} method definitions such that e.g. \code{lapply(*)} willnecessarily fail, as currently for different \CRANpkg{igraph} objects.\item Message translation domains, e.g., for errors and warnings, arenow correctly determined also when e.g., a \pkg{base} function iscalled from \dQuote{top-level} function (i.e., defined in \code{globalenv()}),thanks to a patch from \I{Joris Goosen} fixing \PR{17998}.\item Too long lines in environment files (e.g., \file{Renviron}) nolonger crash \R. This limit has been increased to 100,000 bytes.(\PR{18001}.)\item There is a further workaround for \I{FreeType} givingincorrect italic font faces with \I{cairo}-based graphics devices onmacOS.\item \code{add_datalist(*, force = TRUE)} (from package\pkg{tools}) now actually updates an existing \file{data/datalist}file for new content. (Thanks to a report and patch by SebastianMeyer in \PR{18048}.)\item \code{cut.Date()} and \code{cut.POSIXt()} could produce anempty last interval for \code{breaks = "months"} or \code{breaks ="years"}. (Reported as \PR{18053} by \I{Christopher Carbone}.)\item Detection of the encoding of \sQuote{regular} macOS localessuch as \samp{en_US} (which is UTF-8) had been broken by a macOSchange: fortunately these are now rarely used with\samp{en_US.UTF-8} being preferred.\item \code{sub()} and \code{gsub(pattern, repl, x, *)} now keepattributes of \code{x} such as \code{names()} also when\code{pattern} is \code{NA} (\PR{18079}).\item Time differences (\code{"difftime"} objects) get a replacementand a \code{rep()} method to keep \code{"units"} consistent.(Thanks to a report and patch by Nicolas Bennett in \PR{18066}.)\item The \verb{\RdOpts} macro, setting defaults for \verb{\Sexpr}options in an Rd file, had been ineffective since \R 2.12.0: itnow works again.(Thanks to a report and patch by Sebastian Meyer in \PR{18073}.)\item \code{mclapply} and \code{pvec} no longer accidentally terminateparallel processes started before by \code{mcparallel} or relatedcalls in package \pkg{parallel} (\PR{18078}).\item \code{grep} and other functions for evaluating (extended)regular expressions handle in Unicode also strings not explicitlyflagged UTF-8, but flagged native when running in UTF-8 locale.\item Fixed a crash in \code{fifo} implementation on Windows(\PR{18031}).\item Binary mode in \code{fifo} on Windows is now properly detectedfrom argument \code{open} (\PR{15600}, \PR{18031}).}}}\section{\Rlogo CHANGES IN R 4.0.5}{\subsection{BUG FIXES}{\itemize{\item The change to the internal table in \R 4.0.4 for\code{iswprint} has been reverted: it contained some errors inprintability of \sQuote{East Asian} characters.\item For packages using \samp{LazyData}, \command{R CMD build}ignored the \option{--resave-data} option and the\samp{BuildResaveData} field of the \file{DESCRIPTION} file (in \Rversions 4.0.0 to 4.0.4).}}}\section{\Rlogo CHANGES IN R 4.0.4}{\subsection{NEW FEATURES}{\itemize{\item File \file{share/texmf/tex/latex/jss.cls} has been updatedto work with LaTeX versions since Oct 2020.\item Unicode character width tables (as used by\code{nchar(, type = "w")}) have been updated to Unicode 12.1by \I{Brodie Gaslam} (\PR{17781}), including many emoji.\item The internal table for \code{iswprint} (used on Windows,macOS and \I{AIX}) has been updated to include many recent Unicodecharacters.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item If an external BLAS is specified by \option{--with-blas=foo}or \emph{via} environment variable \env{BLAS_LIBS} is not found,this is now a configuration error. The previous behaviour was notclear from the documentation: it was to continue the search as if\option{--with-blas=yes} was specified.}}\subsection{BUG FIXES}{\itemize{\item \code{all.equal(x,y)} now \dQuote{sees} the two different\code{NA}s in factors, thanks to Bill Dunlap and others in\PR{17897}.\item \code{(~ NULL)[1]} and similar formula subsetting now works,thanks to a report and patch by \I{Henrik Bengtsson} in \PR{17935}.Additionally, subsetting leaving an empty formula now works too,thanks to suggestions by \I{Suharto Anggono}.\item \code{.traceback(n)} keeps source references again, as before\R 4.0.0, fixing a regression; introduced by the \PR{17580}, reportedincluding two patch proposals by \I{Brodie Gaslam}.\item \code{unlist(plst, recursive=FALSE)} no longer drops contentfor pairlists with list components, thanks to the report and patchby \I{Suharto Anggono} in \PR{17950}.\item \code{iconvlist()} now also works on \I{MUSL} based (Linux)systems, from a report and patch suggestion by \I{Wesley Chan} in\PR{17970}.\item \code{round()} and \code{signif()} no longer tolerate wrongargument names, notably in 1-argument calls; reported by ShaneMueller on R-devel (mailing list); later reported as \PR{17976}.\item \code{.Machine} has \code{longdouble.*} elements only if\code{capabilities("long.double")} is true, as documented.(Previously they were included if the platform had \code{longdouble} identical to \code{double}, as ARM does.)\item \code{p.adjust(numeric(), n=0)} now works, fixing \PR{18002}.\item \code{identical(x,y)} no longer prints "Unknown Type .." for\code{typeof(x) == "..."} objects.\item Fix \I{(auto-)\code{print()}ing} of named complex vectors, see\PR{17868} and \PR{18019}.\item \code{all.equal(<language>, <...>)} now works, fixing \PR{18029}.\item \code{as.data.frame.list(L, row.names=NULL)} now behaves in linewith \code{data.frame()}, disregarding names of components of\code{L}, fixing \PR{18034}, reported by \I{Kevin Tappe}.\item \code{checkRdaFiles(ff)$version} is now correct also when\code{ff} contains files of different versions, thanks to a reportand patch from Sebastian Meyer in \PR{18041}.\item macOS: Quartz device live drawing could fail (no plot is shown)if the system changes the drawing context after view update (oftenthe case since macOS \I{Big Sur}). System log may show\I{"CGContextDelegateCreateForContext: invalid context"} error.}}}\section{\Rlogo CHANGES IN R 4.0.3}{\subsection{NEW FEATURES}{\itemize{\item On platforms using \command{configure} option\option{--with-internal-tzcode}, additional values\code{"internal"} and (on macOS only) \code{"macOS"} are acceptedfor the environment variable \env{TZDIR}. (See \code{?TZDIR}.)On macOS, \code{"macOS"} is used by default if the system timezonedatabase is a newer version than that in the \R installation.\item When \code{install.packages(type = "source")} fails to finda package in a repository it mentions package versions which areexcluded by their \R version requirement and links to hints onwhy a package might not be found.\item The default value for \code{options("timeout")} can be setfrom environment variable \env{R_DEFAULT_INTERNET_TIMEOUT}, stilldefaulting to 60 (seconds) if that is not set or invalid.This may be needed when child \R processes are doing downloads,for example during the installation of source packages whichdownload jars or other forms of data.}}\subsection{LINK-TIME OPTIMIZATION on a UNIX-ALIKE}{\itemize{\item There is now support for parallelized Link-Time Optimization(\abbr{LTO}) with GCC and for \sQuote{thin} \abbr{LTO} with\command{clang} \emph{via} setting the \samp{LTO} macro.\item There is support for setting a different \abbr{LTO} flag for theFortran compiler, including to empty when mixing \command{clang}and \command{gfortran} (as on macOS). See file \file{config.site}.\item There is a new \samp{LTO_LD} macro to set linker options for\abbr{LTO} compilation, for example to select an alternative linker orto parallelize thin \abbr{LTO}.}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item The \code{LINPACK} argument to \code{chol.default()},\code{chol2inv()}, \code{solve.default()} and \code{svd()} has beendefunct since \R 3.1.0. Using it now gives a warning which willbecome an error in \R 4.1.0.}}\subsection{BUG FIXES}{\itemize{\item The code mitigating stack overflow with PCRE regexps on verylong strings is enabled for PCRE2 < 10.30 also when \abbr{JIT} is enabled,since stack overflows have been seen in that case.%% Ubuntu 16.04LTS has PCRE2 10.21\item Fix to correctly show the group labels in \code{dotchart()}(which where lost in the \code{ylab} improvement for \R 4.0.0).\item \code{addmargins(*, ..)} now also works when \code{fn()} is alocal function, thanks to bug report and patch \PR{17124} from AlexBertram.\item \code{rank(x)} and hence \code{sort(x)} now work when \code{x}is an object (as per \code{is.object(x)}) of type \code{"raw"}\emph{and} provides a valid \code{`[`} method, e.g., for\code{gmp::as.bigz(.)} numbers.\item \code{chisq.test(*, simulate.p.value=TRUE)} and\code{r2dtable()} now work correctly for large table entries (in themillions). Reported by Sebastian Meyer and investigated by morehelpers in \PR{16184}.\item Low-level socket read/write operations have been fixed tocorrectly signal communication errors. Previously, such errors couldlead to a segfault due to invalid memory access. Reportedand debugged by \I{Dmitriy Selivanov} in \PR{17850}.\item \code{quantile(x, pr)} works more consistently for \code{pr}values slightly outside [0,1], thanks to \I{Suharto Anggono}'s \PR{17891}.Further, \code{quantile(x, prN, names=FALSE)} now works even when\code{prN} contains \code{NA}s, thanks to \I{Anggono}'s \PR{17892}.Ditto for ordered factors or \code{Date} objectswhen \code{type = 1} or \code{3}, thanks to \PR{17899}.\item Internet access based on \I{libcurl}, including\code{curlGetHeaders()}, was not respecting the \code{"timeout"}option. If this causes unanticipated timeouts, considerincreasing the default by setting \env{R_DEFAULT_INTERNET_TIMEOUT}.\item \code{as.Date(<char>)} now also works with an initial\code{""}, thanks to Michael Chirico's \PR{17909}.\item \code{isS3stdGeneric(f)} now detects an S3 generic also whenit is \code{trace()}d, thanks to \I{Gabe Becker}'s \PR{17917}.\item \code{R_allocLD()} has been fixed to return memory aligned forlong double type \PR{16534}.\item \code{fisher.test()} no longer segfaults when called again afterits internal stack has been exceeded \PR{17904}.\item Accessing a long vector represented by a compact integersequence no longer segfaults (reported and debugged by HughParsonage).\item \code{duplicated()} now works also for strings with multipleencodings inside a single vector \PR{17809}.\item \code{phyper(11, 15, 0, 12, log.p=TRUE)} no longer gives\code{NaN}; reported as \PR{17271} by \I{Alexey Stukalov}.\item Fix incorrect calculation in \code{logLik.nls()} \PR{16100}, patchfrom Sebastian Meyer.\item A very old bug could cause a segfault in \code{model.matrix()}when terms involved logical variables. Part of \PR{17879}.\item \code{model.frame.default()} allowed \code{data = 1}, leading toinvoluntary variable capture (rest of \PR{17879}).\item \code{tar()} no longer skips non-directory files, thanks to apatch by Sebastian Meyer, fixing the remaining part of \PR{16716}.}}}\section{\Rlogo CHANGES IN R 4.0.2}{\subsection{UTILITIES}{\itemize{\item \command{R CMD check} skips vignette re-building (with awarning) if the \samp{VignetteBuilder} package(s) are not available.}}\subsection{BUG FIXES}{\itemize{\item Paths with non-ASCII characters caused problems forpackage loading on Windows \PR{17833}.\item Using \pkg{tcltk} widgets no longer crashes R onWindows.\item \code{source(*, echo=TRUE)} no longer fails in some cases withempty lines; reported by Bill Dunlap in \PR{17769}.\item \code{on.exit()} now correctly matches named arguments, thanksto \PR{17815} (including patch) by \I{Brodie Gaslam}.\item \code{regexpr(*, perl=TRUE)} no longer returns incorrectpositions into text containing characters outside of the UnicodeBasic Multilingual Plane on Windows.}}}\section{\Rlogo CHANGES IN R 4.0.1}{\subsection{NEW FEATURES}{\itemize{\item \code{paste()} and \code{paste0()} gain a new optionalargument \code{recycle0}. When set to true, zero-lengtharguments are recycled leading to \code{character(0)} after the\code{sep}-concatenation, i.e., to the empty string \code{""} if\code{collapse} is a string and to the zero-length value\code{character(0)} when \code{collapse = NULL}.A package whose code uses this should depend on \samp{R (>= 4.0.1)}.\item The \code{summary(<warnings>)} method now maps the countscorrectly to the warning messages.}}\subsection{BUG FIXES}{\itemize{\item \code{aov(frml, ...)} now also works where the \code{formula}deparses to more than 500 characters, thanks to a report and patchproposal by \I{Jan Hauffa}.\item Fix a dozen places (code, examples) as \code{Sys.setlocale()}returns the new rather than the previous setting.\item Fix for adding two complex \pkg{grid} units via \code{sum()}.Thanks to \I{Gu Zuguang} for the report and \I{Thomas Lin Pedersen} forthe patch.\item Fix \code{parallel::mclapply(..., mc.preschedule=FALSE)}to handle raw vector results correctly. \PR{17779}\item Computing the \code{base} value, i.e., 2, \dQuote{everywhere},now uses \code{FLT_RADIX}, as the original \file{machar} code loopedindefinitely on the \I{ppc64} architecture for the \code{longdouble} case.\item In \R 4.0.0, \code{sort.list(x)} when \code{is.object(x)} wastrue, e.g., for \code{x <- I(letters)}, was accidentally using\code{method = "radix"}. Consequently, e.g., \code{merge(<data.frame>)}was much slower than previously; reported in \PR{17794}.\item \code{plot(y ~ x, ylab = quote(y[i]))} now works, as e.g., for\code{xlab}; related to \PR{10525}.\item \code{parallel::detect.cores(all.tests = TRUE)} tries amatching OS name before the other tests (which were intended onlyfor unknown OSes).\item Parse data for raw strings is now recorded correctly. Reportedby \I{Gabor Csardi}.}}}\section{\Rlogo CHANGES IN R 4.0.0}{\subsection{SIGNIFICANT USER-VISIBLE CHANGES}{\itemize{\item Packages need to be (re-)installed under this version(4.0.0) of \R.\item \code{matrix} objects now also inherit from class\code{"array"}, so e.g., \code{class(diag(1))} is \code{c("matrix","array")}. This invalidates code incorrectly assuming that\code{class(matrix_obj))} has length one.S3 methods for class \code{"array"} are now dispatched for\code{matrix} objects.\item There is a new syntax for specifying \emph{raw} characterconstants similar to the one used in C++: \code{r"(...)"} with\code{...} any character sequence not containing the sequence\samp{)"}. %}) \samp{*}: Rd-parser bug for \code{*}"This makes it easier to write strings that contain backslashes orboth single and double quotes. For more details see \code{?Quotes}.\item \R now uses a \samp{stringsAsFactors = FALSE} default, andhence by default no longer converts strings to factors in callsto \code{data.frame()} and \code{read.table()}.A large number of packages relied on the previous behaviour andso have needed/will need updating.\item The \code{plot()} S3 generic function is now in package\pkg{base} rather than package \pkg{graphics}, as it isreasonable to have methods that do not use the \pkg{graphics}package. The generic is currently re-exported from the\pkg{graphics} namespace to allow packages importing it fromthere to continue working, but this may change in future.Packages which define S4 generics for \code{plot()} should bere-installed and package code using such generics from otherpackages needs to ensure that they are imported rather than relyon their being looked for on the search path (as in a namespace,the base namespace has precedence over the search path).}}\subsection{REFERENCE COUNTING}{\itemize{\item Reference counting is now used instead of the \code{NAMED}mechanism for determining when objects can be safely mutated inbase C code. This reduces the need for copying in some cases andshould allow further optimizations in the future. It shouldhelp make the internal code easier to maintain.This change is expected to have almost no impact on packagesusing supported coding practices in their C/C++ code.}}\subsection{MIGRATION TO PCRE2}{\itemize{\item This version of \R is built against the PCRE2 library forPerl-like regular expressions, if available. (On non-Windowsplatforms PCRE1 can optionally be used if PCRE2 is not availableat build time.) The version of PCRE in use can be obtained\emph{via} \code{extSoftVersion()}: PCRE1 (formerly known as\sQuote{PCRE}) has versions <= 8, PCRE2 versions >= 10.\item Making PCRE2 available when building \R from source isstrongly recommended (preferably version 10.30 or later) as PCRE1is no longer developed: version 8.44 is\sQuote{likely to be the final release}.% https://lists.exim.org/lurker/message/20200212.174850.6edd8277.en.html\item PCRE2 reports errors for some regular expressions that wereaccepted by PCRE1. A hyphen now has to be escaped in a characterclass to be interpreted as a literal (unless first or last in theclass definition). \samp{\\R}, \samp{\\B} and \samp{\\X} are nolonger allowed in character classes (PCRE1 treated these asliterals).\item Option \code{PCRE_study} is no longer used with PCRE2, and isreported as \code{FALSE} when that is in use.}}\subsection{NEW FEATURES}{\itemize{\item \code{assertError()} and \code{assertWarning()} (in package\pkg{tools}) can now check for \emph{specific} error or warningclasses \emph{via} the new optional second argument \code{classes}(which is not back compatible with previous use of an unnamed secondargument).\item \code{DF2formula()}, the utility for the data frame method of\code{formula()}, now works without parsing and explicit evaluation,starting from \I{Suharto Anggono}'s suggestion in \PR{17555}.\item \code{approxfun()} and \code{approx()} gain a new argument\code{na.rm} defaulting to true. If set to false, missing\code{y} values now propagate into the interpolated values.\item Long vectors are now supported as the \code{seq} argument ofa \code{for()} loop.\item \code{str(x)} gets a new \code{deparse.lines} option with adefault to speed it up when \code{x} is a large \code{call} object.\item The internal traceback object produced when an error issignalled (\code{.Traceback}), now contains the \code{call}srather than the \emph{\code{deparse()}d} calls, deferring thedeparsing to the user-level functions \code{.traceback()} and\code{traceback()}. This fulfils the wish of \PR{17580}, reportedincluding two patch proposals by \I{Brodie Gaslam}.\item \code{data.matrix()} now converts character columns tofactors and from this to integers.\item \code{package.skeleton()} now explicitly lists all exportsin the \file{NAMESPACE} file.\item New function \code{.S3method()} to register S3 methods in Rscripts.\item \code{file.path()} has some support for file paths not inthe session encoding, e.g.\sspace{}with UTF-8 inputs in anon-UTF-8 locale the output is marked as UTF-8.\item Most functions with file-path inputs will give an expliciterror if a file-path input in a marked encoding cannot betranslated (to the native encoding or in some cases on Windows toUTF-8), rather than translate to a different file path usingescapes. Some (such as \code{dir.exists()}, \code{file.exists()},\code{file.access()}, \code{file.info()}, \code{list.files()},\code{normalizePath()} and \code{path.expand()}) treat this likeany other non-existent file, often with a warning.\item There is a new help document accessed by\code{help("file path encoding")} detailing how file paths withmarked encodings are handled.\item New function \code{list2DF()} for creating data frames fromlists of variables.\item \code{iconv()} has a new option \code{sub = "Unicode"} totranslate UTF-8 input invalid in the \samp{to} encoding using\samp{<U+xxxx>} escapes.\item There is a new function \code{infoRDS()} providing informationabout the serialization format of a serialized object.\item S3 method lookup now by default skips the elements of thesearch path between the global and base environments.\item Added an argument \code{add_datalist(*, small.size = 0)} toallow the creation of a \file{data/datalist} file even when thetotal size of the data sets is small.\item The backquote function \code{bquote()} has a new argument\code{splice} to enable splicing a computed list of values into anexpression, like \code{,@} in \abbr{LISP}'s backquote.\item The formula interface to \code{t.test()} and\code{wilcox.test()} has been extended to handle one-sample andpaired tests.\item The \code{palette()} function has a new default set ofcolours (which are less saturated and have better accessibilityproperties). There are also some new built-in palettes, whichare listed by the new \code{palette.pals()} function. Theseinclude the old default palette under the name \code{"R3"}. Finally,the new \code{palette.colors()} function allows a subset ofcolours to be selected from any of the built-in palettes.\item \code{n2mfrow()} gains an option \code{asp = 1} to specify theaspect ratio, fulfilling the wish and extending the proposal ofMichael Chirico in \PR{17648}.\item For \code{head(x, n)} and \code{tail()} the default andother S3 methods notably for \emph{vector} \code{n}, e.g. to get a\dQuote{corner} of a matrix, has been extended to \code{array}'sof higher dimension thanks to the patch proposal by \I{Gabe Becker} in\PR{17652}. Consequently, optional argument \code{addrownums} isdeprecated and replaced by the (more general) argument\code{keepnums}. An invalid second argument \code{n} now leadsto typically more easily readable error messages.\item New function \code{.class2()} provides the full charactervector of class names used for S3 method dispatch.\item Printing \code{methods(..)} now uses a new \code{format()} method.\item \code{sort.list(x)} now works for non-atomic objects\code{x} and \code{method = "auto"} (the default) or\code{"radix"} in cases \code{order(x)} works, typically via a\code{xtfrm()} method.\item Where they are available, \code{writeBin()} allowslong vectors.% (those of length \eqn{\ge 2^{31}}{>= 2^31}).\item New function \code{deparse1()} produces one string, wrapping\code{deparse()}, to be used typically in\code{deparse1(substitute(*))}, e.g., to fix \PR{17671}.\item \code{wilcox.test()} enhancements: In the (non-paired)two-sample case, \code{Inf} values are treated as very large forrobustness consistency. If exact computations are used, theresult now has \code{"exact"} in the \code{method} element of itsreturn value. New arguments \code{tol.root} and\code{digits.rank} where the latter may be used for stability totreat very close numbers as ties.\item \code{readBin()} and \code{writeBin()} now report an errorfor an invalid \code{endian} value. The affected code needs to befixed with care as the old undocumented behavior was to swapendianness in such cases.\item \code{sequence()} is now an S3 generic with an internallyimplemented default method, and gains arguments to generate morecomplex sequences. Based on code from the \pkg{S4Vectors}Bioconductor package and the advice of \I{Hervé Pagès}.\item \code{print()}'s default method and many other methods (bycalling the default eventually and passing \code{...}) now makeuse of a new optional \code{width} argument, avoiding the need forthe user to set and reset \code{options("width")}.\item \code{memDecompress()} supports the RFC 1952 format(e.g.\sspace{}in-memory copies of \command{gzip}-compressed files)as well as RFC 1950.\item \code{memCompress()} and \code{memDecompress()} support longraw vectors for types \code{"gzip"} and \code{"zx"}.\item \code{sweep()} and \code{slice.index()} can now use namesof dimnames for their \code{MARGIN} argument (\code{apply} hashad this for almost a decade).\item New function \code{proportions()} and\code{marginSums()}. These should replace the unfortunately named\code{prop.table()} and \code{margin.table()}. They are drop-inreplacements, but also add named-margin functionality. The oldfunction names are retained as aliases for back-compatibility.\item Functions \code{rbinom()}, \code{rgeom()}, \code{rhyper()},\code{rpois()}, \code{rnbinom(),} \code{rsignrank()} and\code{rwilcox()} which have returned integer since \R 3.0.0 and hence\code{NA} when the numbers would have been outside the integer range,now return double vectors (without NAs, typically) in these cases.\item \code{matplot(x,y)} (and hence \code{matlines()} and\code{matpoints()}) now call the corresponding methods of\code{plot()} and \code{lines()}, e.g, when \code{x} is a\code{"Date"} or \code{"POSIXct"} object; prompted by Spencer Graves'suggestion.\item \code{stopifnot()} now allows customizing error messages viaargument names, thanks to a patch proposal by \I{Neal Fultz} in \PR{17688}.\item \code{unlink()} gains a new argument \code{expand} to disablewildcard and tilde expansion. Elements of \code{x} of value\code{"~"} are now ignored.\item \code{mle()} in the \code{stats4} package has had itsinterface extended so that arguments to the negativelog-likelihood function can be one or more vectors, with similarconventions applying to bounds, start values, and parameter valuesto be kept fixed. This required a minor extension to class\code{"mle"}, so saved objects from earlier versions may need tobe recomputed.\item The default for \code{pdf()} is now\code{useDingbats = FALSE}.\item The default fill colour for \code{hist()} and\code{boxplot()} is now \code{col = "lightgray"}.\item The default order of the levels on the y-axis for\code{spineplot()} and \code{cdplot()} has been reversed.\item If the \env{R_ALWAYS_INSTALL_TESTS} environment variable isset to a true value, \command{R CMD INSTALL} behaves as ifthe \option{--install-tests} option is always specified. Thanks toReinhold Koch for the suggestion.\item New function \code{R_user_dir()} in package \pkg{tools}suggests paths appropriate for storing \R-related user-specificdata, configuration and cache files.\item \code{capabilities()} gains a new logical option \code{Xchk}to avoid warnings about X11-related capabilities.\item The internal implementation of \pkg{grid} units has changed,but the only visible effects at user-level should be\itemize{\item a slightly different print format for some units(especially unit arithmetic),\item faster performance (for unit operations) and\item two new functions \code{unitType()} and \code{unit.psum()}.}Based on code contributed by \I{Thomas Lin Pedersen}.\item When internal dispatch for \code{rep.int()}and \code{rep_len()} fails, there is an attempt to dispatch on theequivalent call to \code{rep()}.\item Object \code{.Machine} now contains new \code{longdouble.*}entries (when \R uses long doubles internally).\item \code{news()} has been enhanced to cover the news on \R 3.xand 2.x.\item For consistency, \code{N <- NULL; N[[1]] <- val} now turns\code{N} into a \code{list} also when \code{val)} has length one.This enables \code{dimnames(r1)[[1]] <- "R1"} for a 1-row matrix\code{r1}, fixing \PR{17719} reported by \I{Serguei Sokol}.\item \code{deparse(..)}, \code{dump(..)}, and \code{dput(x,control = "all")} now include control option \code{"digits17"}which typically ensures 1:1 invertibility. New option\code{control = "exact"} ensures numeric exact invertibilityvia \code{"hexNumeric"}.\item When loading data sets via \code{read.table()},\code{data()} now uses \samp{LC_COLLATE=C} to ensurelocale-independent results for possible string-to-factorconversions.\item A server socket connection, a new connection typerepresenting a listening server socket, is created via\code{serverSocket()} and can accept multiple socket connectionsvia \code{socketAccept()}.\item New function \code{socketTimeout()} changes the connectiontimeout of a socket connection.\item The time needed to start a homogeneous \samp{PSOCK} cluster on\samp{localhost} with many nodes has been significantly reduced(package \pkg{parallel}).\item New \code{globalCallingHandlers()} function to establishglobal condition handlers. This allows registering defaulthandlers for specific condition classes. Developed incollaboration with Lionel Henry.\item New function \code{tryInvokeRestart()} to invoke a specifiedrestart if one is available and return without signaling an errorif no such restart is found. Contributed by Lionel Henry in\PR{17598}.\item \code{str(x)} now shows the length of \code{attributes} in somecases for a data frame \code{x}.\item \code{Rprof()} gains a new argument \code{filter.callframes}to request that intervening call frames due to lazy evaluation orexplicit \code{eval()} calls be omitted from the recorded profiledata. Contributed by Lionel Henry in \PR{17595}.\item The handling of \code{$\{FOO-bar\}} and \code{$\{FOO:-bar\}}in \file{Renviron} files now follows POSIX shells (at least on aUnix-alike), so the first treats empty environment variables asset and the second does not. Previously both ignored emptyvariables. There are several uses of the first form in\file{etc/Renviron}.\item New \code{classes} argument for \code{suppressWarnings()}and \code{suppressMessages()} to selectively suppress onlywarnings or messages that inherit from particular classes.Based on patch from Lionel Henry submitted with \PR{17619}.\item New function \code{activeBindingFunction()} retrieves thefunction of an active binding.\item New \code{"cairoFT"} and \code{"pango"} components in theoutput of \code{grSoftVersion()}.\item New argument \code{symbolfamily} in \I{cairo}-based graphicsdevices and new function \code{cairoSymbolFont()} that can be usedto provide the value for that argument.}}% end{ NEW FEATURES }\subsection{Windows}{\itemize{\item \command{Rterm} now works also when invoked from \abbr{MSYS2}terminals. Line editing is possible when command \command{winpty} isinstalled.\item \code{normalizePath()} now resolves symbolic links andnormalizes case of long names of path elements in case-insensitivefolders (\PR{17165}).\item \code{md5sum()} supports UTF-8 file names with charactersthat cannot be translated to the native encoding (\PR{17633}).\item \command{Rterm} gains a new option \option{--workspace} tospecify the workspace to be restored. This allows equals to bepart of the name when opening \emph{via} Windows file associations(reported by \I{Christian Asseburg}).\item \command{Rterm} now accepts \code{ALT+xxx} sequences alsowith \I{NumLock} on. Tilde can be pasted with an Italian keyboard(\PR{17679}).\item \R falls back to copying when junction creation fails duringpackage checking (patch from Duncan Murdoch).}}\subsection{DEPRECATED AND DEFUNCT}{\itemize{\item Make macro \samp{F77_VISIBILITY} has been removedand replaced by \samp{F_VISIBILITY}.\item Make macros \samp{F77}, \samp{FCPIFCPLAGS} and\samp{SHLIB_OPENMP_FCFLAGS} have been removed and replaced by\samp{FC}, \samp{FPICFLAGS} and \samp{SHLIB_OPENMP_FFLAGS}respectively. (Most \command{make} programs will set \samp{F77}to the value of \samp{FC}, which is set for package compilation.But portable code should not rely on this.)\item The deprecated support for specifying C++98 for packageinstallation has been removed.\item \command{R CMD config} no longer knows about theunused settings \samp{F77} and \samp{FCPIFCPLAGS}, nor\samp{CXX98} and similar.\item Either PCRE2 or PCRE1 >= 8.32 (Nov 2012) is required: thedeprecated provision for 8.20--8.31 has been removed.\item Defunct functions \code{mem.limits()}, \code{.readRDS()},\code{.saveRDS()}, \code{.find.package()}, and \code{.path.package()}from package \pkg{base}and \code{allGenerics()}, \code{getAccess()}, \code{getAllMethods()},\code{getClassName()}, \code{getClassPackage()}, \code{getExtends()},\code{getProperties()}, \code{getPrototype()},\code{getSubclasses()}, \code{getVirtual()}, \code{mlistMetaName()},\code{removeMethodsObject()}, \code{seemsS4Object()},\code{traceOff()}, and \code{traceOn()} from \pkg{methods} have beenremoved.}}\subsection{C-LEVEL FACILITIES}{\itemize{\item \code{installChar} is now remapped in \file{Rinternals.h} to\code{installTrChar}, of which it has been a wrapper since\R\sspace{}3.6.0. Neither are part of the API, but packages using\code{installChar} can replace it if they depend on \samp{R >= 3.6.2}.\item Header \file{R_ext/Print.h} defines \samp{R_USE_C99_IN_CXX}and hence exposes \code{Rvprintf} and \code{REvprintf} if usedwith a C++11 (or later) compiler.\item There are new Fortran subroutines \code{dblepr1},\code{realpr1} and \code{intpr1} to print a scalar variable(\command{gfortran} 10 enforces the distinction between scalarsand length-one arrays). Also \code{labelpr} to print just a label.\item \code{R_withCallingErrorHandler} is now available forestablishing a calling handler in C code for conditions inheritingfrom class \code{error}.}}\subsection{INSTALLATION on a UNIX-ALIKE}{\itemize{\item User-set \samp{DEFS} (e.g., in \file{config.site}) is nowused for compiling packages (including base packages).\item There is a new variant option \option{--enable-lto=check}for checking consistency of BLAS/LAPACK/LINPACK calls --- see\sQuote{Writing R Extensions}.\item A C++ compiler default is set only if the C++11 standard issupported: it no longer falls back to C++98.\item PCRE2 is used if available. To make use of PCRE1 if PCRE2is unavailable, configure with option \option{--with-pcre1}.\item The minimum required version of \code{libcurl} is now 7.28.0(Oct 2012).\item New make target \command{distcheck} checks\itemize{\item \R can be rebuilt from the tarball created by\command{make dist},\item the build from the tarball passes \command{make check-all},\item the build installs and uninstalls,\item the source files are properly cleaned by \command{make distclean}.}}}\subsection{UTILITIES}{\itemize{\item \command{R --help} now mentions the option \command{--no-echo}(renamed from \command{--slave}) and its previously undocumentedshort form \command{-s}.\item \command{R CMD check} now optionally checks\command{configure} and \command{cleanup} scripts fornon-\I{Bourne}-shell code (\sQuote{bashisms}).\item \command{R CMD check --as-cran} now runs \verb{\donttest}examples (which are run by \code{example()}) instead ofinstructing the tester to do so. This can be temporarilycircumvented during development by setting environment variable\env{_R_CHECK_DONTTEST_EXAMPLES_} to a false value.}}\subsection{PACKAGE INSTALLATION}{\itemize{\item There is the beginnings of support for the recently approvedC++20 standard, specified analogously to C++14 and C++17. There iscurrently only limited support for this in compilers, with flagssuch as \option{-std=c++20} and \option{-std=c++2a}. For the timebeing the \command{configure} test is of accepting one of theseflags and compiling C++17 code.}}\subsection{BUG FIXES}{\itemize{\item \code{formula(x)} with \code{length(x) > 1} character vectors,is deprecated now. Such use has been rare, and has \sQuote{worked}as expected in some cases only. In other cases, wrong \code{x} havesilently been truncated, not detecting previous errors.\item Long-standing issue where the X11 device could lose eventsshortly after startup has been addressed (\PR{16702}).\item The \code{data.frame} method for \code{rbind()} no longerdrops \code{<NA>} levels from factor columns by default(\PR{17562}).\item \code{available.packages()} and hence \code{install.packages()}now pass their \code{...} argument to \code{download.file()},fulfilling the wish of \PR{17532}; subsequently,\code{available.packages()} gets new argument \code{quiet}, solving\PR{17573}.\item \code{stopifnot()} gets new argument \code{exprObject} to allowan \R object of class \code{expression} (or other \sQuote{language})to work more consistently, thanks to suggestions by \I{Suharto Anggono}.\item \code{conformMethod()} now works correctly in cases containinga \dQuote{\code{&&} logic} bug, reported by \I{Henrik Bengtsson}. It nowcreates methods with \code{"missing"} entries in the signature.Consequently, \code{rematchDefinition()} is amended to useappropriate \code{.local()} calls with named arguments where needed.\item \code{format.default(*, scientific = FALSE)} now corresponds toa practically most extreme \code{options(scipen = n)} setting ratherthan arbitrary \code{n = 100}.\item \code{format(as.symbol("foo"))} now works (returning \code{"foo"}).\item \code{postscript(.., title = *)} now signals an error whenthe title string contains a character which would produce corruptPostScript, thanks to \PR{17607} by \I{Daisuko Ogawa}.\item Certain \code{Ops} (notably comparison such as \code{==}) nowalso work for 0-length data frames, after reports by \I{Hilmar Berger}.\item \code{methods(class = class(glm(..)))} now warns more usefullyand only once.\item \code{write.dcf()} no longer mangles field names (\PR{17589}).\item Primitive replacement functions no longer mutate areferenced first argument when used outside of a complexassignment context.\item A better error message for \code{contour(*, levels = Inf)}.\item The return value of \code{contourLines()} is no longer\code{invisible()}.\item The Fortran code for calculating the \code{coefficients}component in \code{lm.influence()} was very inefficient. It has(for now) been replaced with much faster \R{} code (\PR{17624}).\item \code{cm.colors(n)} \emph{etc} no longer append the code for\code{alpha = 1}, \code{"FF"}, to all colors. Hence all eight\code{*.colors()} functions and \code{rainbow()} behaveconsistently and have the same non-explicit default (\PR{17659}).\item \code{dnorm} had a problematic corner case with \code{sd ==-Inf} or negative \code{sd} which was not flagged as an error inall cases. Thanks to \I{Stephen D. Weigand} for reporting and\I{Wang Jiefei} for analyzing this; similar change has been made in\code{dlnorm()}.\item The optional \code{iter.smooth} argument of\code{plot.lm()}, (the \code{plot()} method for \code{lm} and\code{glm} fits) now defaults to \code{0} for all \code{glm} fits.Especially for binary observations with high or low fittedprobabilities, this effectively deleted all observations of 1 or0. Also, the type of residuals used in the \code{glm} case hasbeen switched to \code{"pearson"} since deviance residuals do notin general have approximately zero mean.\item In \code{plot.lm}, Cook's distance was computed from unweightedresiduals, leading to inconsistencies. Replaced with usual weightedversion. (\PR{16056})\item Time-series \code{ts(*, start, end, frequency)} withfractional \code{frequency} are supported more consistently;thanks to a report from \I{Johann Kleinbub} and analysis and patch byDuncan Murdoch in \PR{17669}.\item In case of errors \code{mcmapply()} now preserves attributesof returned \code{"try-error"} objects and avoids simplification,overriding \code{SIMPLIFY} to \code{FALSE}. (\PR{17653})\item \code{as.difftime()} gets new optional \code{tz = "UTC"}argument which should fix behaviour duringdaylight-savings-changeover days, fixing \PR{16764}, thanks toproposals and analysis by \I{Johannes Ranke} and \I{Kirill Müller}.\item \code{round()} does a better job of rounding\emph{\dQuote{to nearest}} by \emph{measuring} and\emph{\dQuote{to even}}; thanks to a careful algorithm originallyprompted by the report from Adam Wheeler and then others, in\PR{17668}. \cr \code{round(x, dig)} for \emph{negative} digitsis much more rational now, notably for large \eqn{|dig|}.\item Inheritance information on S4 classes is maintained moreconsistently, particularly in the case of class unions (in partdue to \PR{17596} and a report from Ezra Tucker).\item \code{is()} behaves more robustly when its argument\code{class2} is a \code{classRepresentation} object.\item The warning message when attempting to export an nonexistentclass is now more readable; thanks to \I{Thierry Onkelinx} forrecognizing the problem.\item \code{choose()} misbehaved in corner cases where it switched\code{n - k} for \code{k} and \code{n} was only \emph{nearly} integer(report from Erik Scott Wright).\item \code{mle()} in the \code{stats4} package had problemscombining use of box constraints and fixed starting values (inparticular, confidence intervals were affected).\item Operator \code{?} now has lower precedence than \code{=} towork as documented, so \code{=} behaves like \code{<-} in helpexpressions (\PR{16710}).\item \code{smoothEnds(x)} now returns \code{integer} type in\emph{both} cases when \code{x} is \code{integer}, thanks to areport and proposal by Bill Dunlap \PR{17693}.\item The \pkg{methods} package does a better job of trackinginheritance relationships across packages.\item \code{norm(diag(c(1, NA)), "2")} now works.\item \code{subset()} had problems with 0-col dataframes (reportedby Bill Dunlap, \PR{17721}).\item Several cases of integer overflow detected by the\sQuote{undefined behaviour sanitizer} of \command{clang} 10 havebeen circumvented. One in \code{rhyper()} may change thegenerated value for large input values.\item \code{dotchart()} now places the y-axis label (\code{ylab})much better, not overplotting labels, thanks to a report andsuggestion by \I{Alexey Shipunov}.%% detected by clang-ASAN in examples/tests of adehabitatHR.\item A rare C-level array overflow in \code{chull()} has beenworked around.\item Some invalid specifications of the day-of-the-year(\emph{via} \code{\%j}, e.g.\sspace{}day 366 in 2017) or weekplus day-of-the-week are now detected by \code{strptime()}.They now return \code{NA} but give a warning as they may havegiven random results or corrupted memory in earlier versions of \R.\item \code{socketConnection(server = FALSE)} now respects theconnection timeout also on Linux.\item \code{socketConnection(server = FALSE)} no longer leaks aconnection that is available right away without waiting (e.g. on\samp{localhost}).\item Socket connections are now robust against spurious readabilityand spurious availability of an incoming connection.\item \code{blocking = FALSE} is now respected also on the server sideof a socket connection, allowing non-blocking read operations.\item \code{anova.glm()} and \code{anova.glmlist()} computedincorrect score (\I{Rao}) tests in no-intercept cases. (\I{AndréGillibert}, \PR{17735})\item \code{summaryRprof()} now should work correctly for the\code{Rprof(*, memory.profiling=TRUE)} case with small chunk size (and\code{"tseries"} or similar) thanks to a patch proposal by\I{Benjamin Tyner}, in \PR{15886}.\item \code{xgettext()} ignores strings passed to\code{ngettext()}, since the latter is handled by\code{xngettext()}. Thanks to \I{Daniele Medri} for the report and allthe recent work he has done on the Italian translations.\item \code{data(package = "P")} for \code{P} in \pkg{base} and\pkg{stats} no longer reports the data sets from package\pkg{datasets} (which it did for back compatibility for 16 years),fixing \PR{17730}.\item \code{x[[Inf]]} (returning \code{NULL}) no longer leads toundefined behavior, thanks to a report by \I{Kirill Müller} in\PR{17756}. Further, \code{x[[-Inf]]} and \code{x[[-n]]} now givemore helpful error messages.\item \code{Gamma()} family sometimes had trouble storinglink name \PR{15891}}}\subsection{BUG FIXES (Windows)}{\itemize{\item \code{Sys.glob()} now supports all charactersfrom the Unicode Basic Multilingual Plane, no longer corruptingsome (less commonly used) characters (\PR{17638}).\item \command{Rterm} now correctly displaysmulti-byte-coded characters representable in the current nativeencoding (at least on Windows 10 they were sometimes omitted,\PR{17632}).\item \code{scan()} issues with UTF-8 data when running in a \abbr{DBCS}locale have been resolved (\PR{16520}, \PR{16584}).\item \command{Rterm} now accepts enhanced/arrow keys also with\I{ConPTY}.\item \R can now be started \emph{via} the launcher icon in auser documents directory whose path is not representable in thesystem encoding.\item \code{socketConnection(server = FALSE)} now returns instantlyalso on Windows when connection failure is signalled.\item Problems with UTF-16 surrogate pairs have been fixed inseveral functions, including \command{tolower()} and\command{toupper()} (\PR{17645}).}}}\section{CHANGES in previous versions}{\itemize{\item Older news can be found in text format in files\ifelse{html}{\href{../NEWS.0}{NEWS.0}, \href{../NEWS.1}{NEWS.1},\href{../NEWS.2}{NEWS.2} and\href{../NEWS.3}{NEWS.3}}{\file{NEWS.0}, \file{NEWS.1},\file{NEWS.2} and \file{NEWS.3}}in the \file{doc} directory. News in HTML format for\R versions 3.x and from 2.10.0 to 2.15.3 are available at\ifelse{html}{\url{NEWS.3.html}}{\file{doc/html/NEWS.3.html}}and\ifelse{html}{\url{NEWS.2.html}}{\file{doc/html/NEWS.2.html}}.}}