5db6acee37Accepting request 1251454 from devel:languages:R:released
factory
Ana Guerrero
2025-03-10 17:04:04 +00:00
05c1e0ef4f- CHANGES IN R 4.4.3: INSTALLATION: * R can be installed using C23 (for example with -std=gnu23 or -std=gnu2x) with recent compilers including gcc 12-14, Apple clang 15-16, LLVM clang 17-20 and Intel icx 2024.2. It can be installed with the upcoming (at the time of writing) gcc 15, which defaults to C23. C-LEVEL FACILITIES: * The functions R_strtod and R_atof now allow hexadecimal constants without an exponent, for compatibility with their C99 versions (PR#18805). UTILITIES: * R CMD build and R CMD check now allow reference output for demo scripts (demo/<demo>.Rout.save files) to be shipped with the package, as proposed by Torsten Hothorn in PR#18816. BUG FIXES: * kappa(A, exact=TRUE) for singular A returns Inf more generally, fixing PR#18817 reported by Mikael Jagan. * Fixed URLs of the sun spots (sunspot.month etc) data sets and mention future changes due to recalibration. * The parser now accepts hexadecimal constants with a decimal point without an exponent (taken as p0) as documented in ?NumericConstants (PR#18819). * rbind() now works correctly when inputs include a raw vector and a logical, integer or double vector - previously the inclusion of the latter was garbled. * smooth.spline() checks validity of its arguments df.offset and penalty: it could segfault if they were NULL. * isGeneric(<primitive>, fdef=*, getName=TRUE) now also returns the name instead of just TRUE, fixing PR#18829 reported by Mikael
devel
Detlef Steuer
2025-03-01 21:18:33 +00:00
9f34a238c7Accepting request 1222174 from devel:languages:R:released
Ana Guerrero
2024-11-07 15:29:01 +00:00
e709f6c1af- CHANGES IN R 4.4.2: C-LEVEL FACILITIES: * The S-compatibility macros F77_COM and F77_COMDECL defined in header R_ext/RS.h are deprecated and will be removed shortly. We could find no record of their use. BUG FIXES: * Mathlib function lgammacor(x) no longer warns about underflow to zero for large x. * Text widths and heights were incorrectly reported by the Quartz device if the drawing context didn't exist yet (typically when drawing off-screen to a window that is yet to appear, see PR#18591). * The Quartz device could segfault in cases where paths with spaces are used in the new glyph drawing API. Thanks to Tomek Gieorgijewski (PR#18758). * On macOS in R CRAN builds, it is again possible to read little-endian UTF-16 text with a BOM from a connection using encoding="UTF-16". Users building R from source should avoid using the system libiconv in macOS 14.1 and later. * methods' internal .requirePackage() now re-enables primitive method dispatch when needed; thanks to Ivan Krylov for demystifying CRAN package check failures on the R-devel mailing list.
Detlef Steuer
2024-10-31 11:11:36 +00:00
ffe31aea41Accepting request 1182054 from devel:languages:R:released
Ana Guerrero
2024-06-21 14:04:55 +00:00
706df3104e- CHANGES IN R 4.4.1: C-LEVEL FACILITIES: * Functions R_atof and R_strtod declared in header R_ext/Utils.h are now documented in 'Writing R Extensions' and so formally part of the API. * The non-API entry points Rf_setSVector, Rf_StringFalse, Rf_StringTrue and Rf_isBlankString have been added to those reported by R CMD check. * The new function Rf_allocLang is now available. This provides an alternative to the idiom of calling Rf_allocList followed by SET_TYPEOF. UTILITIES: * R CMD check now reports as warnings what gfortran calls 'Fortran 2018 deleted features', all of which have long been marked as 'obsolescent' and some of which were deleted in Fortran 2008 or earlier. Fortran compilers are no longer required to support these. BUG FIXES: * as.numeric(), scan(), type.convert() and other places which use the internal C function R_strtod now require a _non-empty_ digit sequence in a decimal or binary exponent. This aligns with the C/POSIX standard for strtod and with ?NumericConstants. * as.data.frame(m, make.names=NA) now works correctly for a matrix m with NA's in row names. * The error message from <POSIXlt>[["hour"]] and similar now mentions *[[, "hour"]], as wished for in PR#17409 and proposed by Michael Chirico. * qbinom() and potentially qpois(), qnbinom(), no longer sometimes fail accurate inversion (of pbinom(), etc), thanks to Christopher Chang's report and patch in PR#18711.
Detlef Steuer
2024-06-14 08:22:07 +00:00
e15561cc59Accepting request 1171133 from devel:languages:R:released
Ana Guerrero
2024-05-02 21:47:03 +00:00
7a8abd08d8- CHANGES IN R 4.4.0: SIGNIFICANT USER-VISIBLE CHANGES: * Startup banners, R --version, sessionInfo() and R CMD check no longer report (64-bit) as part of the platform as this is almost universal - the increasingly rare 32-bit platforms will still report (32-bit). On Windows, ditto for window titles. * is.atomic(NULL) now returns FALSE, as NULL is not an atomic vector. Strict back-compatibility would replace is.atomic(foo) by (is.null(foo) || is.atomic(foo)) but should happen only sparingly. NEW FEATURES: * The confint() methods for "glm" and "nls" objects have been copied to the stats package. Previously, they were stubs which called versions in package MASS. The MASS namespace is no longer loaded if you invoke (say) confint(glmfit). Further, the "glm" method for profile() and the plot() and pairs() methods for class "profile" have been copied from MASS to stats. (profile.nls() and plot.profile.nls() were already in stats.) * The confint() and profile methods for "glm" objects have gained a possibility to do profiling based on the Rao Score statistic in addition to the default Likelihood Ratio. This is controlled by a new test = argument. * The pairs() method for "profile" objects has been extended with a which = argument to allow plotting only a subset of the parameters. * The "glm" method for anova() computes test statistics and p-values by default, using a chi-squared test or an F test depending on whether the dispersion is fixed or free. Test statistics can be suppressed by giving argument test a false
Detlef Steuer
2024-04-24 10:50:57 +00:00
58c009c217- CHANGES IN R 4.3.3: NEW FEATURES: * iconv() now fixes up variant encoding names such as "utf8" case-insensitively. DEPRECATED AND DEFUNCT: * The legacy encoding = "MacRoman" is deprecated in pdf() and postscript(): support was incomplete in earlier versions of R. BUG FIXES: * Arguments are now properly forwarded to methods on S4 generics with ... in the middle of their formal arguments. This was broken for the case when a method introduced an argument but did not include ... in its own formals. Thanks to Herv'e Pag`es for the report PR#18538. * Some invalid file arguments to pictex(), postscript() and xfig() opened a file called NA rather than throw an error. These included postscript(NULL) (which some people expected to work like pdf(NULL)). * Passing filename = NA to svg(), cairo_pdf(), cairo_ps() or the Cairo-based bitmap devices opened a file called NA: it now throws an error. * quartz(file = NA) opened a file called NA, including when used as a Quartz-based bitmap device. It now gives an error. * rank(<long vector>) now works, fixing PR#18617, thanks to Ilia Kats. * seq.int() did not adequately check its length.out argument. * match(<POSIXct>, .) is correct again for differing time zones, ditto for "POSIXlt", fixing PR#18618 reported by Bastian Klein. * drop.terms(*, dropx = <0-length>) now works, fixing PR#18563 as proposed by Mikael Jagan. * drop.terms(*) keeps + offset(.) terms when it should, PR#18565,
Detlef Steuer
2024-02-29 09:50:57 +00:00
9ae515814fAccepting request 1124841 from devel:languages:R:released
Ana Guerrero
2023-11-10 11:33:48 +00:00
f688b70398- CHANGES IN R 4.3.2: NEW FEATURES: * The default initialization of the "repos" option from the repositories file at startup can be skipped by setting environment variable R_REPOSITORIES to NULL such that getOption("repos") is empty if not set elsewhere. * qr.X() is now an implicit S4 generic in methods. * iconv(to = "ASCII//TRANSLIT") is emulated using substitution on platforms which do not support it (notably Alpine Linux). This should give a human-readable conversion in ASCII on all platforms (rather than NA_character_). * trans3d() gains options continuous and verbose addressing the problem of possible "wrap around" when projecting too long curves, as reported by Achim Zeileis in PR#18537. * tools::showNonASCII() has been rewritten to work better on macOS 14 (which has a changed implementation of iconv()). * tiff(type = "quartz") (the default on macOS) now warns if compression is specified: it continues to be ignored. INSTALLATION on a UNIX-ALIKE: * There is some support for building with Intel's LLVM-based compilers on x86_64 Linux, such as (C) icx, (C++) ipcx and (Fortran) ifx from oneAPI 2023.x.y. * There is support for using LLVM's flang-new as the Fortran compiler from LLVM 16.0.x (preferably 17.0.0 or later). UTILITIES: * R CMD check reports the use of the Fortran 90 random number generator RANDOM_NUMBER() and the subroutines to initialize it. 'Writing R Extensions' has example code to use R's RNGs from Fortran. BUG FIXES:
Detlef Steuer
2023-11-03 10:03:05 +00:00
4995119e4a- CHANGES IN R 4.3.1: C-LEVEL FACILITIES: * The C-level API version of R's integrate(), Rdqags() in Applic.h, now returns the correct number of integrand evaluations neval, fixing PR#18515 reported and diagnosed by Stephen Wade. * The C prototypes for LAPACK calls dspgv and dtptrs in R_exts/Lapack.h had one too many and one too few character length arguments - but this has not caused any known issues. To get the corrected prototypes, include #include <Rconfig.h> // for PR18534fixed #ifdef PR18534fixed # define usePR18534fix 1 #endif #include <R_exts/Lapack.h>
Detlef Steuer
2023-06-16 10:49:16 +00:00
78f83e9489- CHANGES IN R 4.3.0: SIGNIFICANT USER-VISIBLE CHANGES: * Calling && or || with LHS or (if evaluated) RHS of length greater than one is now always an error, with a report of the form 'length = 4' in coercion to 'logical(1)'
Detlef Steuer
2023-04-21 17:46:08 +00:00
d8a2ee23fa- add patch to build with libcurl >= 8
Detlef Steuer
2023-04-10 11:07:10 +00:00
1b10a8a70c- CHANGES IN R 4.2.3: C-LEVEL FACILITIES: * The definition of DL_FUNC in R_ext/Rdynload.h has been changed to be fully C-compliant. This means that functions loaded _via_ for example R_GetCCallable need to be cast to an appropriate type if they have any arguments. * .Machine has a new element sizeof.time_t to identify old systems with a 32-bit type and hence a limited range of date-times (and limited support for dates millions of years from present). PACKAGE INSTALLATION: * (Windows) The default C++ standard had accidentally been left at C++11 when it was changed to C++14 on Unix. BUG FIXES: * As "POSIXlt" objects may be "partially filled" and their list components meant to be recycled, length() now is the length of the longest component. * as.POSIXlt.Date() could underflow for dates in the far past (more than half a million years BCE). * as.Date.POSIXlt(x) would return "1970-01-01" instead of NA in R 4.2.2, e.g., for x <- as.POSIXlt(c("2019-01-30","2001-1-1")) x$mon <- c(0L, NA); as.Date(x)
Detlef Steuer
2023-03-15 11:32:27 +00:00
d70554fa27- CHANGES IN R 4.2.2: NEW FEATURES: * tools::Rdiff(useDiff = TRUE) checks for the presence of an external diff command and switches to useDiff = FALSE if none is found. This allows R CMD Rdiff to always work. * On Windows, environment variable R_LIBCURL_SSL_REVOKE_BEST_EFFORT can be used to switch to only 'best-effort' SSL certificate revocation checks with the default "libcurl" download method. This reduces security, but may be needed for downloads to work with MITM proxies (PR#18379). * (macOS) The run-time check for libraries from XQuartz for X11 and Tcl/Tk no longer uses otool from the Apple Developer Tools (PR#18400). * The LaTeX style for producing the PDF manuals, Rd.sty, now loads the standard amsmath, amsfonts and amssymb packages for greater coverage of math commands in the Rd \eqn and \deqn macros. The \mathscr LaTeX command is also provided (via the mathrsfs package, if available, or the amsfonts bundle otherwise), fulfilling the wish of PR#18398. * (Windows) The default format of readClipboard() and writeClipboard() has been changed to 13 (CF_UNICODETEXT). INSTALLATION on a UNIX-ALIKE: * The PDF manuals (if built) can be compacted by the new target make compact-pdf (at the top level or in directory doc/manual). * There is now configure support for LLVM clang 15 on Linux, which defaults to position-independent (PIE) executables whereas gfortran does not. * Many small changes to ease compilation (and suppress warnings) with LLVM clang 15. BUG FIXES:
Detlef Steuer
2022-10-31 18:58:37 +00:00
c5f706fcb8- CHANGES IN R 4.2.1: NEW FEATURES: * New function utils::findCRANmirror() to find out if a CRAN mirror has been selected, otherwise fallback to the main site. This behaves in the same way as tools::CRAN_package_db() and is intended for packages wishing to access CRAN for purposes other than installing packages. The need for this was shown by a day when the main CRAN website was offline and a dozen or so packages which had its URL hardcoded failed their checks. INSTALLATION on a UNIX-ALIKE: * The libraries searched for by --with-blas (without a value) now include BLIS (after OpenBLAS but before ATLAS). And on macOS, the Accelerate framework (after ATLAS). (This is patterned after the AX_BLAS macro from the Autoconf Archive.) * The included LAPACK sources have been updated to 3.10.1. UTILITIES: * The (full path to) the command tidy to be used for HTML validation can be set by environment variable R_TIDYCMD. * Setting environment variable _R_CHECK_RD_VALIDATE_RD2HTML_ to a false value will override R CMD check --as-cran and turn off HTML validation. This provides a way to circumvent a problematic tidy. The 2006 version that ships with macOS is always skipped. C-LEVEL FACILITIES: * The undocumented legacy declarations of Sint, Sfloat, SINT_MAX and SINT_MIN in header R.h are deprecated. BUG FIXES: * fisher.test(d) no longer segfaults for "large" d; fixing PR#18336 by preventing/detecting an integer overflow reliably.
Detlef Steuer
2022-06-23 08:41:07 +00:00
67fcd49dfa- CHANGES IN R 4.2.0: SIGNIFICANT USER-VISIBLE CHANGES: * The formula method of aggregate() now matches the generic in naming its first argument x (resolving PR#18299 by Thomas Soeiro). This means that calling aggregate() with a formula as a named first argument requires name formula in earlier versions of R and name x now, so portable code should not name the argument (code in many packages did). * Calling && or || with either argument of length greater than one now gives a warning (which it is intended will become an error). * Calling if() or while() with a condition of length greater than one gives an error rather than a warning. Consequently, environment variable _R_CHECK_LENGTH_1_CONDITION_ no longer has any effect. * Windows users should consult the WINDOWS section below for some profound changes including * Support for 32-bit builds has been dropped. * UTF-8 locales are used where available. * The default locations for the R installation and personal library folder have been changed. Thanks to Tomas Kalibera for months of work on the Windows port for this release. NEW FEATURES: * matrix(x, n, m) now warns in more cases where length(x) differs from n * m, as suggested by Abby Spurdle and Wolfgang Huber in Feb 2021 on the R-devel mailing list. This warning can be turned into an error by setting environment variable _R_CHECK_MATRIX_DATA_ to TRUE: R CMD check --as-cran does so unless it is already set.
Detlef Steuer
2022-04-22 12:42:19 +00:00
fe0a845cff- CHANGES IN R 4.1.3: NEW FEATURES: * The default version of Bioconductor has been changed to 3.14. (This is used by setRepositories and the menus in GUIs.) UTILITIES: * R CMD check --as-cran has a workaround for a bug in versions of file up to at least 5.41 which mis-identify DBF files last changed in 2022 as executables. C-LEVEL FACILITIES: * The legacy S-compatibility macros SINGLE_* in R_ext/Constants.h (included by R.h) are deprecated and will be removed in R 4.2.0. BUG FIXES: * Initialization of self-starting nls() models with initialization functions following the pre-R-4.1.0 API (without the ... argument) works again for now, with a deprecation warning. * Fixed quoting of ~autodetect~ in Java setting defaults to avoid inadvertent user lookup due to leading ~, reported in PR#18231 by Harold Gutch. * substr(., start, stop) <- v now treats _negative_ stop values correctly. Reported with a patch in PR#18228 by Brodie Gaslam. * Subscripting an array x without dimnames by a length(dim(x))-column character matrix gave "random" non-sense, now an error; reported in PR#18244 by Mikael Jagan. * ...names() now matches names(list(...)) closely, fixing PR#18247. * all.equal(*, scale = s) now works as intended when length(s) > 1, partly thanks to Michael Chirico's PR#18272. * print(x) for long vectors x now also works for named atomic vectors or lists and prints the correct number when reaching the getOption("max.print") limit; partly thanks to a report and proposal by Hugh Parsonage to the R-devel list.
Detlef Steuer
2022-03-11 07:57:50 +00:00
05f3708d03- CHANGES IN R 4.1.2: C-LEVEL FACILITIES: * The workaround in headers R.h and Rmath.h (using namespace std;) for the Oracle Developer Studio compiler is no longer needed now C++11 is required so has been removed. A couple more usages of log() (which should have been std::log()) with an int argument are reported on Solaris. * The undocumented limit of 4095 bytes on messages from the S-compatibility macros PROBLEM and MESSAGE is now documented and longer messages will be silently truncated rather than potentially causing segfaults. * If the R_NO_SEGV_HANDLER environment variable is non-empty, the signal handler for SEGV/ILL/BUS signals (which offers recovery user interface) is not set. This allows more reliable debugging of crashes that involve the console. DEPRECATED AND DEFUNCT: * The legacy S-compatibility macros PROBLEM, MESSAGE, ERROR, WARN, WARNING, RECOVER, ... are deprecated and will be hidden in R 4.2.0. R's native interface of Rf_error and Rf_warning has long been preferred. BUG FIXES: * .mapply(F, dots, .) no longer segfaults when dots is not a list and uses match.fun(F) as always documented; reported by Andrew Simmons in PR#18164. * hist(<Date>, ...) and hist(<POSIXt>, ...) no longer pass arguments for rect() (such as col and density) to axis(). (Thanks to Sebastian Meyer's PR#18171.) * \Sexpr{ch} now preserves Encoding(ch). (Thanks to report and patch by Jeroen Ooms in PR#18152.) * Setting the RNG to "Marsaglia-Multicarry" e.g., by RNGkind(), now
Detlef Steuer
2021-11-01 09:26:43 +00:00
111fb0da53Accepting request 912679 from devel:languages:R:released
Richard Brown
2021-08-18 06:56:12 +00:00
ae4b8dddc5- CHANGES IN R 4.1.1: NEW FEATURES: * require(pkg, quietly = TRUE) is quieter and in particular does not warn if the package is not found. DEPRECATED AND DEFUNCT: * Use of ftp:// URIs should be regarded as deprecated, with on-going support confined to method = "libcurl" and not routinely tested. (Nowadays no major browser supports them.) * The non-default method = "internal" is deprecated for http:// and ftp:// URIs for both download.file and url. * On Windows, method = "wininet" is deprecated for http://, https:// and ftp:// URIs for both download.file and url. (A warning is only given for ftp://.) For ftp:// URIs the default method is now "libcurl" if available (which it is on CRAN builds). method = "wininet" remains the default for http:// and https:// URIs but if libcurl is available, using method = "libcurl" is preferred. INSTALLATION: * make check now works also without a LaTeX installation. (Thanks to Sebastian Meyer's PR#18103.) BUG FIXES: * make check-devel works again in an R build configured with --without-recommended-packages. * qnbinom(p, size, mu) for large size/mu is correct now in a range of cases (PR#18095); similarly for the (size, prob) parametrization of the negative binomial. Also qpois() and qbinom() are better and or faster for extreme cases. The underlying C code has been modularized and is common to all four cases of discrete distributions.
Detlef Steuer
2021-08-10 12:28:09 +00:00
6e4148fa7d- The line %{__install} -m 755 -d %{_infodir} no longer works in TW or Factory. But without that line it works everywhere. So this instruction was commented out of the spec file.
Detlef Steuer
2021-06-04 07:26:59 +00:00
3507df974eAccepting request 896932 from home:flyos:branches:devel:languages:R:released
Detlef Steuer
2021-06-02 16:00:13 +00:00
2d6440369a- CHANGES IN R 4.1.0: FUTURE DIRECTIONS: * It is planned that the 4.1.x series will be the last to support 32-bit Windows, with production of binary packages for that series continuing until early 2023. SIGNIFICANT USER-VISIBLE CHANGES: * Data set esoph in package datasets now provides the correct numbers of controls; previously it had the numbers of cases added to these. (Reported by Alexander Fowler in PR#17964.) NEW FEATURES: * www.omegahat.net is no longer one of the repositories known by default to setRepositories(). (Nowadays it only provides source packages and is often unavailable.) * Function package_dependencies() (in package tools) can now use different dependency types for direct and recursive dependencies. * The checking of the size of tarball in R CMD check --as-cran <pkg> may be tweaked via the new environment variable _R_CHECK_CRAN_INCOMING_TARBALL_THRESHOLD_, as suggested in PR#17777 by Jan Gorecki. * Using c() to combine a factor with other factors now gives a factor, an ordered factor when combining ordered factors with identical levels. * apply() gains a simplify argument to allow disabling of simplification of results. * The format() method for class "ftable" gets a new option justify. (Suggested by Thomas Soeiro.) * New ...names() utility. (Proposed by Neal Fultz in PR#17705.) * type.convert() now warns when its as.is argument is not specified, as the help file always said it _should_. In that case, the default is changed to TRUE in line with its change in
Detlef Steuer
2021-05-18 17:04:46 +00:00
401ccb4632- To get in sync with d:l:R:autoCRAN the Matrix package's split in -devel was reversed.
Detlef Steuer
2021-05-06 12:44:59 +00:00
3772e8216fAccepting request 882498 from devel:languages:R:released
Richard Brown
2021-04-01 12:18:00 +00:00
986508330b- CHANGES IN R 4.0.5: BUG FIXES: * The change to the internal table in R 4.0.4 for iswprint has been reverted: it contained some errors in printability of 'East Asian' characters. * For packages using LazyData, R CMD build ignored the --resave-data option and the BuildResaveData field of the DESCRIPTION file (in R versions 4.0.0 to 4.0.4).
Detlef Steuer
2021-03-31 18:42:16 +00:00
ba5fed2df4- CHANGES IN R 4.0.4: NEW FEATURES: * File share/texmf/tex/latex/jss.cls has been updated to work with LaTeX versions since Oct 2020. * Unicode character width tables (as used by nchar(, type = "w")) have been updated to Unicode 12.1 by Brodie Gaslam (PR#17781), including many emoji. * The internal table for iswprint (used on Windows, macOS and AIX) has been updated to include many recent Unicode characters. INSTALLATION on a UNIX-ALIKE: * If an external BLAS is specified by --with-blas=foo or _via_ environment variable BLAS_LIBS is not found, this is now a configuration error. The previous behaviour was not clear from the documentation: it was to continue the search as if --with-blas=yes was specified. BUG FIXES: * all.equal(x,y) now "sees" the two different NAs in factors, thanks to Bill Dunlap and others in PR#17897. * (~ NULL)[1] and similar formula subsetting now works, thanks to a report and patch by Henrik Bengtsson in PR#17935. Additionally, subsetting leaving an empty formula now works too, thanks to suggestions by Suharto Anggono. * .traceback(n) keeps source references again, as before R 4.0.0, fixing a regression; introduced by the PR#17580, reported including two patch proposals by Brodie Gaslam. * unlist(plst, recursive=FALSE) no longer drops content for pairlists with list components, thanks to the report and patch by Suharto Anggono in PR#17950. * iconvlist() now also works on MUSL based (Linux) systems, from a report and patch suggestion by Wesley Chan in PR#17970.
Detlef Steuer
2021-02-15 10:11:21 +00:00
ac79bf15ba- CHANGES IN R 4.0.3: NEW FEATURES: * On platforms using configure option --with-internal-tzcode, additional values "internal" and (on macOS only) "macOS" are accepted for the environment variable TZDIR. (See ?TZDIR.) On macOS, "macOS" is used by default if the system timezone database is a newer version than that in the R installation. * When install.packages(type = "source") fails to find a package in a repository it mentions package versions which are excluded by their R version requirement and links to hints on why a package might not be found. * The default value for options("timeout") can be set from enviromnent variable R_DEFAULT_INTERNET_TIMEOUT, still defaulting 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 which download jars or other forms of data. LINK-TIME OPTIMIZATION on a UNIX-ALIKE: * There is now support for parallelized Link-Time Optimization (LTO) with GCC and for 'thin' LTO with clang _via_ setting the LTO macro. * There is support for setting a different LTO flag for the Fortran compiler, including to empty when mixing clang and gfortran (as on macOS). See file config.site. * There is a new LTO_LD macro to set linker options for LTO compilation, for example to select an alternative linker or to parallelize thin LTO. DEPRECATED AND DEFUNCT: * The LINPACK argument to chol.default(), chol2inv(), solve.default() and svd() has been defunct since R 3.1.0. Using
Detlef Steuer
2020-10-10 18:45:34 +00:00
5796b2981e- CHANGES IN R 4.0.2: UTILITIES: * R CMD check skips vignette re-building (with a warning) if the VignetteBuilder package(s) are not available. BUG FIXES: * Paths with non-ASCII characters caused problems for package loading on Windows PR#17833. * Using tcltk widgets no longer crashes R on Windows. * source(*, echo=TRUE) no longer fails in some cases with empty lines; reported by Bill Dunlap in PR#17769. * on.exit() now correctly matches named arguments, thanks to PR#17815 (including patch) by Brodie Gaslam. * regexpr(*, perl=TRUE) no longer returns incorrect positions into text containing characters outside of the Unicode Basic Multilingual Plane on Windows.
Detlef Steuer
2020-06-22 09:19:33 +00:00
9b73d9fcec- CHANGES IN R 4.0.1: NEW FEATURES: * paste() and paste0() gain a new optional argument recycle0. When set to true, zero-length arguments are recycled leading to character(0) after the sep-concatenation, i.e., to the empty string "" if collapse is a string and to the zero-length value character(0) when collapse = NULL. A package whose code uses this should depend on R (>= 4.0.1). * The summary(<warnings>) method now maps the counts correctly to the warning messages. BUG FIXES: * aov(frml, ...) now also works where the formula deparses to more than 500 characters, thanks to a report and patch proposal by Jan Hauffa. * Fix a dozen places (code, examples) as Sys.setlocale() returns the new rather than the previous setting. * Fix for adding two complex grid units via sum(). Thanks to Gu Zuguang for the report and Thomas Lin Pedersen for the patch. * Fix parallel::mclapply(..., mc.preschedule=FALSE) to handle raw vector results correctly. PR#17779 * Computing the base value, i.e., 2, "everywhere", now uses FLT_RADIX, as the original machar code looped indefinitely on the ppc64 architecture for the longdouble case. * In R 4.0.0, sort.list(x) when is.object(x) was true, e.g., for x <- I(letters), was accidentally using method = "radix". Consequently, e.g., merge(<data.frame>) was much slower than previously; reported in PR#17794. * plot(y ~ x, ylab = quote(y[i])) now works, as e.g., for xlab; related to PR#10525. * parallel::detect.cores(all.tests = TRUE) tries a matching OS name
Detlef Steuer
2020-06-06 10:34:55 +00:00
61d0d2c245- CHANGES IN 4.0.0: SIGNIFICANT USER-VISIBLE CHANGES: * Packages need to be (re-)installed under this version (4.0.0) of R. * matrix objects now also inherit from class "array", so e.g., class(diag(1)) is c("matrix", "array"). This invalidates code incorrectly assuming that class(matrix_obj)) has length one. S3 methods for class "array" are now dispatched for matrix objects. * There is a new syntax for specifying _raw_ character constants similar to the one used in C++: r"(...)" with ... any character sequence not containing the sequence )". This makes it easier to write strings that contain backslashes or both single and double quotes. For more details see ?Quotes. * R now uses a stringsAsFactors = FALSE default, and hence by default no longer converts strings to factors in calls to data.frame() and read.table(). A large number of packages relied on the previous behaviour and so have needed/will need updating. * The plot() S3 generic function is now in package base rather than package graphics, as it is reasonable to have methods that do not use the graphics package. The generic is currently re-exported from the graphics namespace to allow packages importing it from there to continue working, but this may change in future. Packages which define S4 generics for plot() should be re-installed and package code using such generics from other packages needs to ensure that they are imported rather than rely on their being looked for on the search path (as in a namespace, the base namespace has precedence over the search path). REFERENCE COUNTING:
Detlef Steuer
2020-04-24 08:19:33 +00:00
010acf7331- CHANGES IN R 3.6.3: NEW FEATURES: * The included LAPACK has been updated to version 3.9.0 (for the included routines, just bug fixes). BUG FIXES: * Fixed a C level integer overflow in rhyper(); reported by Benjamin Tyner in PR#17694. * Uses of url(gzcon(.)) needing to extend buffer size have failed (with HTTP/2 servers), reported by G'abor Cs'ardi. * predict(loess(..), se=TRUE) now errors out (instead of seg.faulting etc) for large sample sizes, thanks to a report and patch by Benjamin Tyner in PR#17121. * tools:assertCondition(., "error") and hence assertError() no longer return errors twice (invisibly). * update(form, new) in the case of a long new formula sometimes wrongly eliminated the intercept from form, or (more rarely) added a garbage term (or seg.faulted !); the fix happened by simplifying the C-level logic of terms.formula(). Reported by Mathias Amb"uhl in PR#16326. * The error message from stopifnot(.., <error producing call>) again contains the full "stopifnot(.......)" call: Its attempted suppression did not work consistently. * On Windows, download.file(., , "wininet", headers=character()) would fail; reported with patch proposal by Kevin Ushey in PR#17710.
Detlef Steuer
2020-02-29 18:09:42 +00:00
c109c9c045- CHANGES IN R 3.6.2: NEW FEATURES: * runmed(x, *) gains a new option na.action determining _how_ to handle NaN or NA in x. * dotchart() gains new options ann, xaxt, frame.plot and log. INSTALLATION on a UNIX-ALIKE: * Detection of the C stack direction has been moved from run-time to configure: this is safer with LTO builds and allows the detection to be overridden - see file config.site. * Source-code changes enable installation on platforms using gcc -fno-common (the expected default for gcc 10.x). C-LEVEL FACILITIES: * installTrChar (which is nowadays is wrapped by installChar) is defined in Rinternals.h. (Neither are part of the API.) PACKAGE INSTALLATION: * Header Rconfig.h contains the value of FC_LEN_T deduced at installation which is used by the prototypes in headers R_ext/BLAS.h and R_ext/Lapack.h but to avoid extensive breakage this is only exposed when USE_FC_LEN_T is defined. If a package's C/C++ calls to BLAS/LAPACK allow for the 'hidden' arguments used by most Fortran compilers to pass the lengths of Fortran character arguments, define USE_FC_LEN_T and include Rconfig.h (possibly _via_ R.h) before including R_ext/BLAS.h or R_ext/Lapack.h. * A package with Fortran source code and perhaps C (but not C++) sources can request for its shared object/DLL to be linked by the Fortran compiler by including a line USE_FC_TO_LINK= in src/Makevars[.win] and using $(SHLIB_OPENMP_FFLAGS) as part of PKG_LIBS. The known reason for doing so is a package which uses Fortran
Detlef Steuer
2019-12-12 11:38:51 +00:00
8db2e08b3dAccepting request 739298 from home:RBrownSUSE:branches:devel:languages:R:released
Detlef Steuer
2019-10-17 13:34:52 +00:00
298a40b694- CHANGES IN R 3.6.1: INSTALLATION on a UNIX-ALIKE: * The default detection of the shell variable libNN is overridden for derivatives of Debian Linux, some of which have started to have a /usr/lib64 directory. (E.g. Ubuntu 19.04.) As before, it can be specified in config.site. UTILITIES: * R CMD config knows the values of AR and RANLIB, often set for LTO builds. DEPRECATED AND DEFUNCT: * The use of a character vector with .Fortran() is formally deprecated and gives a non-portability warning. (It has long been strongly discouraged in 'Writing R Extensions'.) BUG FIXES: * On Windows, GUI package installation via menuInstallPkgs() works again, thanks to Len Weil's and Duncan Murdoch's PR#17556. * R CMD check on data() fixing PR#17558 thanks to Duncan Murdoch. * quasi(*, variance = list(..)) now works more efficiently, and should work in all cases fixing PR#17560. Further, quasi(var = mu(1-mu)) and quasi(var = "mu ^ 3") now work, and quasi(variance = "log(mu)") now gives a correct error message. * Creation of lazy loading database during package installation is again robust to Rprofile changing the current working directory (PR#17559). * boxplot(y ~ f, horizontal=TRUE) now produces correct x- and y-labels. * rbind.data.frame() allows to keep <NA> levels from factor columns (PR#17562) via new option factor.exclude. Additionally, it works in one more case with matrix-columns which had been reported on 2017-01-16 by Krzysztof Banas.
Detlef Steuer
2019-07-05 07:43:02 +00:00
8f6308bfc5Accepting request 698133 from devel:languages:R:releasedYuchen Lin2019-04-26 20:54:57 +00:00
ca8e4f9fb6- CHANGES IN R 3.6.0: SIGNIFICANT USER-VISIBLE CHANGES: * Serialization format version 3 becomes the default for serialization and saving of the workspace (save(), serialize(), saveRDS(), compiler::cmpfile()). Serialized data in format 3 cannot be read by versions of R prior to version 3.5.0. Serialization format version 2 is still supported and can be selected by version = 2 in the save/serialization functions. The default can be changed back for the whole R session by setting environment variables R_DEFAULT_SAVE_VERSION and R_DEFAULT_SERIALIZE_VERSION to 2. For maximal back-compatibility, files vignette.rds and partial.rdb generated by R CMD build are in serialization format version 2, and resave by default produces files in serialization format version 2 (unless the original is already in format version 3). * The default method for generating from a discrete uniform distribution (used in sample(), for instance) has been changed. This addresses the fact, pointed out by Ottoboni and Stark, that the previous method made sample() noticeably non-uniform on large populations. See PR#17494 for a discussion. The previous method can be requested using RNGkind() or RNGversion() if necessary for reproduction of old results. Thanks to Duncan Murdoch for contributing the patch and Gabe Becker for further assistance. The output of RNGkind() has been changed to also return the 'kind' used by sample(). NEW FEATURES: * Sys.setFileTime() has been vectorized so arguments path and time of length greater than one are now supported. * axis() gets new option gap.axis = NA for specifying a multiplication factor for the minimal "gap" (distance) between
Detlef Steuer
2019-04-26 09:27:24 +00:00
973a1524d6Accepting request 683741 from devel:languages:R:released
Stephan Kulow
2019-03-11 12:51:46 +00:00
ad5f44cbfa- CHANGES IN R 3.5.3: INSTALLATION on a UNIX-ALIKE: * Detection of flags for C++98/11/14/17 has been improved: in particular if CXX??STD is set, it is tried first with no additional flags. PACKAGE INSTALLATION: * New macro F_VISIBILITY as an alternative to F77_VISIBILITY. This will become the preferred form in R 3.6.0. BUG FIXES: * writeLines(readLines(fnam), fnam) now works as expected, thanks to Peter Meissner's PR#17528. * setClassUnion() no longer warns, but uses message() for now, when encountering "non local" subclasses of class members. * stopifnot(exprs = T) no longer fails.
Detlef Steuer
2019-03-11 09:01:00 +00:00
eedac20746- CHANGES IN R 3.5.2: PACKAGE INSTALLATION: * New macro CXX_VISIBILITY analogous to C_VISIBILITY (which several packages have been misusing for C++ code) for the default C++ compiler (but not necessarily one used for non-default C++ dialects like C++14). TESTING: * The random number generator tests in tests/p-r-random-tests.R no longer fail occasionally as they now randomly sample from "certified" random seeds. BUG FIXES: * The "glm" method of drop1() miscalculated the score test (test="Rao") when the model contained an offset. * Linear multiple empty models such as lm(y ~ 0) now have a correctly dimensioned empty coefficient matrix; reported by Brett Presnell. * vcov(<empty mlm>) and hence confint() now work (via a consistency change in summary.lm()). * confint(<multiple lm()>) now works correctly; reported on R-devel by Steven Pav. * quade.test() now also works correctly when its arguments are not yet sorted along groups, fixing PR#15842. * Installation on a Unix-alike tries harder to link to the pthread library where required (rather than relying on OpenMP to provide it: configuring with --disable-openmp was failing on some Linux systems). * The data.frame method for print(x) is fast now also for large data frames x and got an optional argument max, thanks to suggestions by Juan Telleria. * hist() no longer integer overflows in very rare cases, fixing
Detlef Steuer
2018-12-20 08:51:43 +00:00
716c594ee8- CHANGES IN R 3.5.1 : BUG FIXES: * file("stdin") is no longer considered seekable. * dput() and dump() are no longer truncating when options(deparse.max.lines = *) is set. * Calls with an S3 class are no longer evaluated when printed, fixing part of PR#17398, thanks to a patch from Lionel Henry. * Allow file argument of Rscript to include space even when it is first on the command line. * callNextMethod() uses the generic from the environment of the calling method. Reported by Herv'e Pag`es with well documented examples. * Compressed file connections are marked as blocking. * optim(*, lower = c(-Inf, -Inf)) no longer warns (and switches the method), thanks to a suggestion by John Nash. * predict(fm, newdata) is now correct also for models where the formula has terms such as splines::ns(..) or stats::poly(..), fixing PR#17414, based on a patch from Duncan Murdoch. * simulate.lm(glm(*, gaussian(link = <non-default>))) has been corrected, fixing PR#17415 thanks to Alex Courtiol. * unlist(x) no longer fails in some cases of nested empty lists. Reported by Steven Nydick. * qr.coef(qr(<all 0, w/ colnames>)) now works. Reported by Kun Ren. * The radix sort is robust to vectors with >1 billion elements (but long vectors are still unsupported). Thanks to Matt Dowle for the fix. * Terminal connections (e.g., stdin) are no longer buffered. Fixes PR#17432. * deparse(x), dput(x) and dump() now respect c()'s argument names
Detlef Steuer
2018-07-02 08:28:20 +00:00
afc85d94d0- CHANGES IN R 3.5.0: SIGNIFICANT USER-VISIBLE CHANGES: * All packages are by default byte-compiled on installation. This makes the installed packages larger (usually marginally so) and may affect the format of messages and tracebacks (which often exclude .Call and similar). NEW FEATURES: * factor() now uses order() to sort its levels, rather than sort.list(). This allows factor() to support custom vector-like objects if methods for the appropriate generics are defined. It has the side effect of making factor() succeed on empty or length-one non-atomic vector(-like) types (e.g., "list"), where it failed before. * diag() gets an optional names argument: this may require updates to packages defining S4 methods for it. * chooseCRANmirror() and chooseBioCmirror() no longer have a useHTTPS argument, not needed now all R builds support https:// downloads. * New summary() method for warnings() with a (somewhat experimental) print() method. * (methods package.) .self is now automatically registered as a global variable when registering a reference class method. * tempdir(check = TRUE) recreates the tempdir() directory if it is no longer valid (e.g. because some other process has cleaned up the /tmp directory). * New askYesNo() function and "askYesNo" option to ask the user binary response questions in a customizable but consistent way. (Suggestion of PR#17242.) * New low level utilities ...elt(n) and ...length() for working with ... parts inside a function.
Detlef Steuer
2018-04-23 08:38:03 +00:00
93f14ab620- upstrem updated to 3.4.4 CHANGES IN R 3.4.4: NEW FEATURES: * Sys.timezone() tries more heuristics on Unix-alikes and so is more likely to succeed (especially on Linux). For the slowest method, a warning is given recommending that TZ is set to avoid the search. * The version of LAPACK included in the sources has been updated to 3.8.0 (for the routines used by R, a very minor bug-fix change). * parallel::detectCores(logical = FALSE) is ignored on Linux systems, since the information is not available with virtualized OSes. INSTALLATION on a UNIX-ALIKE: * configure will use pkg-config to find the flags to link to jpeg if available (as it should be for the recently-released jpeg-9c and libjpeg-turbo). (This amends the code added in R 3.3.0 as the module name in jpeg-9c is not what that tested for.) DEPRECATED AND DEFUNCT: * Sys.timezone(location = FALSE) (which was a stop-gap measure for Windows long ago) is deprecated. It no longer returns the value of environment variable TZ (usually a location). * Legacy support of make macros such as CXX1X is formally deprecated: use the CXX11 forms instead. BUG FIXES: * power.prop.test() now warns when it cannot solve the problem, typically because of impossible constraints. (PR#17345) * removeSource() no longer erroneously removes NULL in certain cases, thanks to D'enes T'oth. * nls(NO [mol/l] ~ f(t)) and nls(y ~ a) now work. (Partly from PR#17367)
Detlef Steuer
2018-03-15 09:22:40 +00:00
9fd3966f65- upstream updated to 3.4.3 CHANGES IN R 3.4.3: INSTALLATION on a UNIX-ALIKE: * A workaround has been added for the changes in location of time-zone files in macOS 10.13 'High Sierra' and again in 10.13.1, so the default time zone is deduced correctly from the system setting when R is configured with --with-internal-tzcode (the default on macOS). * R CMD javareconf has been updated to recognize the use of a Java 9 SDK on macOS. BUG FIXES: * raw(0) & raw(0) and raw(0) | raw(0) again return raw(0) (rather than logical(0)). * intToUtf8() converts integers corresponding to surrogate code points to NA rather than invalid UTF-8, as well as values larger than the current Unicode maximum of 0x10FFFF. (This aligns with the current RFC3629.) * Fix calling of methods on S4 generics that dispatch on ... when the call contains .... * Following Unicode 'Corrigendum 9', the UTF-8 representations of U+FFFE and U+FFFF are now regarded as valid by utf8ToInt(). * range(c(TRUE, NA), finite = TRUE) and similar no longer return NA. (Reported by Lukas Stadler.) * The self starting function attr(SSlogis, "initial") now also works when the y values have exact minimum zero and is slightly changed in general, behaving symmetrically in the y range. * The printing of named raw vectors is now formatted nicely as for other such atomic vectors, thanks to Lukas Stadler.
Detlef Steuer
2017-11-30 10:20:31 +00:00
59a8390d91- upstream update to 3.4.2 CHANGES IN R 3.4.2: NEW FEATURES: * Setting the LC_ALL category in Sys.setlocale() invalidates any cached locale-specific day/month names and the AM/PM indicator for strptime() (as setting LC_TIME has since R 3.1.0). * The version of LAPACK included in the sources has been updated to 3.7.1, a bug-fix release. * The default for tools::write_PACKAGES(rds_compress=) has been changed to "xz" to match the compression used by CRAN. * c() and unlist() are now more efficient in constructing the names(.) of their return value, thanks to a proposal by Suharto Anggono. (PR#17284) UTILITIES: * R CMD check checks for and R CMD build corrects CRLF line endings in shell scripts configure and cleanup (even on Windows). INSTALLATION on a UNIX-ALIKE: * The order of selection of OpenMP flags has been changed: Oracle Developer Studio 12.5 accepts -fopenmp and -xopenmp but only the latter enables OpenMP so it is now tried first. BUG FIXES: * within(List, rm(x1, x2)) works correctly again, including when List[["x2"]] is NULL. * regexec(pattern, text, *) now applies as.character(.) to its first two arguments, as documented. * write.table() and related functions, writeLines(), and perhaps other functions writing text to connections did not signal errors when the writes failed, e.g. due to a disk being full. Errors will now be signalled if detected during the write, warnings if detected when the connection is closed. (PR#17243)
Detlef Steuer
2017-09-29 07:48:56 +00:00
5177095ac5- upstream update to 3.4.1 CHANGES IN R 3.4.1: INSTALLATION on a UNIX-ALIKE: * The deprecated support for PCRE versions older than 8.20 has been removed. BUG FIXES: * getParseData() gave incorrect column information when code contained multi-byte characters. (PR#17254) * Asking for help using expressions like ?stats::cor() did not work. (PR#17250) * readRDS(url(....)) now works. * R CMD Sweave again returns status = 0 on successful completion. * Vignettes listed in .Rbuildignore were not being ignored properly. (PR#17246) * file.mtime() no longer returns NA on Windows when the file or directory is being used by another process. This affected installed.packages(), which is now protected against this. * R CMD INSTALL Windows .zip file obeys --lock and --pkglock flags. * (Windows only) The choose.files() function could return incorrect results when called with multi = FALSE. (PR#17270) * aggregate(<data.frame>, drop = FALSE) now also works in case of near-equal numbers in by. (PR#16918) * fourfoldplot() could encounter integer overflow when calculating the odds ratio. (PR#17286) * parse() no longer gives spurious warnings when extracting srcrefs from a file not encoded in the current locale. This was seen from R CMD check with inst/doc/*.R files, and check has some additional protection for such files. * print.noquote(x) now always returns its argument x (invisibly). * Non-UTF-8 multibyte character sets were not handled properly in
Detlef Steuer
2017-06-30 10:42:01 +00:00
d6d2a6e0c0- upstream update to 3.4.0 CHANGES IN R 3.4.0: SIGNIFICANT USER-VISIBLE CHANGES: * (Unix-alike) The default methods for download.file() and url() now choose "libcurl" except for file:// URLs. There will be small changes in the format and wording of messages, including in rare cases if an issue is a warning or an error. For example, when HTTP re-direction occurs, some messages refer to the final URL rather than the specified one. Those who use proxies should check that their settings are compatible (see ?download.file: the most commonly used forms work for both "internal" and "libcurl"). * table() has been amended to be more internally consistent and become back compatible to R <= 2.7.2 again. Consequently, table(1:2, exclude = NULL) no longer contains a zero count for <NA>, but useNA = "always" continues to do so. * summary.default() no longer rounds, but its print method does resulting in less extraneous rounding, notably of numbers in the ten thousands. * factor(x, exclude = L) behaves more rationally when x or L are character vectors. Further, exclude = <factor> now behaves as documented for long. * Arithmetic, logic (&, |) and comparison (aka 'relational', e.g., <, ==) operations with arrays now behave consistently, notably for arrays of length zero. Arithmetic between length-1 arrays and longer non-arrays had silently dropped the array attributes and recycled. This now gives a warning and will signal an error in the future, as it has always for logic and comparison operations in these cases (e.g., compare matrix(1,1) + 2:3 and matrix(1,1) < 2:3).
Detlef Steuer
2017-04-21 17:19:06 +00:00
b264b4d087- And again that ldconfig call. Newline was obviously wrong. Hopefully correct now.
Detlef Steuer
2017-04-18 08:28:09 +00:00
fe8645a7a3- Jan Engelhardt <jengelh@inai.de> asked for reverting the change to the ldconfig call. So be it.
Detlef Steuer
2017-04-04 09:14:16 +00:00
1a30b531bd- improvements for a) calling /sbin/ldconfig, which no longer gives a warning b) unregistering info-pages in %preun instead of %postun
Detlef Steuer
2017-03-21 12:21:17 +00:00
Ana Guerrero
Detlef Steuer
Dominique Leuenberger
Richard Brown
Marco Varlese
Yuchen Lin
Stephan Kulow
Darin Perusich