[R] R 3.4.0 is released
Peter Dalgaard
pd.mes at cbs.dk
Fri Apr 21 16:19:04 CEST 2017
The build system rolled up R-3.4.0.tar.gz (codename "You Stupid Darkness") this morning.
The list below details the changes in this release.
You can get the source code from
http://cran.r-project.org/src/base/R-3/R-3.4.0.tar.gz
or wait for it to be mirrored at a CRAN site nearer to you.
Binaries for various platforms will appear in due course.
For the R Core Team,
Peter Dalgaard
These are the checksums (md5 and SHA-256) for the freshly created files, in case you wish
to check that they are uncorrupted:
MD5 (AUTHORS) = f12a9c3881197b20b08dd3d1f9d005e6
MD5 (COPYING) = eb723b61539feef013de476e68b5c50a
MD5 (COPYING.LIB) = a6f89e2100d9b6cdffcea4f398e37343
MD5 (FAQ) = 0c53e7275ad2057cdc60448f4a71f354
MD5 (INSTALL) = 7893f754308ca31f1ccf62055090ad7b
MD5 (NEWS) = ea102623c183b5b8ad93306db6a4f6b6
MD5 (NEWS.0) = bfcd7c147251b5474d96848c6f57e5a8
MD5 (NEWS.1) = eb78c4d053ec9c32b815cf0c2ebea801
MD5 (NEWS.2) = 71562183d75dd2080d86c42bbf733bb7
MD5 (R-latest.tar.gz) = 75083c23d507b9c16d5c6afbd7a827e7
MD5 (README) = f468f281c919665e276a1b691decbbe6
MD5 (RESOURCES) = 529223fd3ffef95731d0a87353108435
MD5 (THANKS) = f60d286bb7294cef00cb0eed4052a66f
MD5 (VERSION-INFO.dcf) = 7a8c309440689143c16e8586128523e8
MD5 (R-3/R-3.4.0.tar.gz) = 75083c23d507b9c16d5c6afbd7a827e7
6474d9791fff6a74936296bde3fcb569477f5958e4326189bd6e5ab878e0cd4f AUTHORS
e6d6a009505e345fe949e1310334fcb0747f28dae2856759de102ab66b722cb4 COPYING
6095e9ffa777dd22839f7801aa845b31c9ed07f3d6bf8a26dc5d2dec8ccc0ef3 COPYING.LIB
33bd1a8295b3af3e2e8b77c870799e991ced02356df50469b2e688b3cc593ebc FAQ
f87461be6cbaecc4dce44ac58e5bd52364b0491ccdadaf846cb9b452e9550f31 INSTALL
1798e1bb08e63dca195970600b107e4d6d5a07135da5bec9bcbe16a9c0f408db NEWS
4e21b62f515b749f80997063fceab626d7258c7d650e81a662ba8e0640f12f62 NEWS.0
12b30c724117b1b2b11484673906a6dcd48a361f69fc420b36194f9218692d01 NEWS.1
a10f84be31f897456a31d31690df2fdc3f21a197f28b4d04332cc85005dcd0d2 NEWS.2
288e9ed42457c47720780433b3d5c3c20983048b789291cc6a7baa11f9428b91 R-latest.tar.gz
2fdd3e90f23f32692d4b3a0c0452f2c219a10882033d1774f8cadf25886c3ddc README
408737572ecc6e1135fdb2cf7a9dbb1a6cb27967c757f1771b8c39d1fd2f1ab9 RESOURCES
52f934a4e8581945cbc1ba234932749066b5744cbd3b1cb467ba6ef164975163 THANKS
2613962d473138a6ddbd10949fff9dfa61160ce6c64b7b2808172857bdd62527 VERSION-INFO.dcf
288e9ed42457c47720780433b3d5c3c20983048b789291cc6a7baa11f9428b91 R-3/R-3.4.0.tar.gz
This is the relevant part of the NEWS file
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).
* The JIT ('Just In Time') byte-code compiler is now enabled by
default at its level 3. This means functions will be compiled on
first or second use and top-level loops will be compiled and then
run. (Thanks to Tomas Kalibera for extensive work to make this
possible.)
For now, the compiler will not compile code containing explicit
calls to browser(): this is to support single stepping from the
browser() call.
JIT compilation can be disabled for the rest of the session using
compiler::enableJIT(0) or by setting environment variable
R_ENABLE_JIT to 0.
* xtabs() works more consistently with NAs, also in its result no
longer setting them to 0. Further, a new logical option addNA
allows to count NAs where appropriate. Additionally, for the
case sparse = TRUE, the result's dimnames are identical to the
default case's.
* Matrix products now consistently bypass BLAS when the inputs have
NaN/Inf values. Performance of the check of inputs has been
improved. Performance when BLAS is used is improved for
matrix/vector and vector/matrix multiplication (DGEMV is now used
instead of DGEMM).
One can now choose from alternative matrix product
implementations _via_ options(matprod = ). The "internal"
implementation is not optimized for speed but consistent in
precision with other summations in R (using long double
accumulators where available). "blas" calls BLAS directly for
best speed, but usually with undefined behavior for inputs with
NaN/Inf.
* factor() now uses order() to sort its levels, not sort.list().
This makes factor() support custom vector-like objects if methods
for the appropriate generics are defined. This change 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.
NEW FEATURES:
* User errors such as integrate(f, 0:1, 2) are now caught.
* Add signature argument to debug(), debugonce(), undebug() and
isdebugged() for more conveniently debugging S3 and S4 methods.
(Based on a patch by Gabe Becker.)
* Add utils::debugcall() and utils::undebugcall() for debugging the
function that would be called by evaluating the given expression.
When the call is to an S4 generic or standard S3 generic,
debugcall() debugs the method that would be dispatched. A number
of internal utilities were added to support this, most notably
utils::isS3stdGeneric(). (Based on a patch by Gabe Becker.)
* Add utils::strcapture(). Given a character vector and a regular
expression containing capture expressions, strcapture() will
extract the captured tokens into a tabular data structure,
typically a data.frame.
* str() and strOptions() get a new option drop.deparse.attr with
improved but _changed_ default behaviour for expressions. For
expression objects x, str(x) now may remove extraneous white
space and truncate long lines.
* str(<looooooooong_string>) is no longer very slow; inspired by
Mikko Korpela's proposal in PR#16527.
* str(x)'s default method is more "accurate" and hence somewhat
more generous in displaying character vectors; this will
occasionally change R outputs (and need changes to some
*.Rout(.save) files).
For a classed integer vector such as x <- xtabs(~ c(1,9,9,9)),
str(x) now shows both the class and "int", instead of only the
latter.
* isSymmetric(m) is much faster for large asymmetric matrices m
_via_ pre-tests and a new option tol1 (with which strict back
compatibility is possible but not the default).
* The result of eigen() now is of class "eigen" in the default case
when eigenvectors are computed.
* Zero-length date and date-time objects (of classes "POSIX[cl]?t")
now print() "recognizably".
* xy.coords() and xyz.coords() get a new setLab option.
* The method argument of sort.list(), order() and sort.int() gains
an "auto" option (the default) which should behave the same as
before when method was not supplied.
* stopifnot(E, ..) now reports differences when E is a call to
all.equal() and that is not true.
* boxplot(<formula>, *) gain optional arguments drop, sep, and
lex.order to pass to split.default() which itself gains an
argument lex.order to pass to interaction() for more flexibility.
* The plot() method for ppr() has enhanced default labels (xmin and
main).
* sample.int() gains an explicit useHash option (with a back
compatible default).
* identical() gains an ignore.srcref option which drops "srcref"
and similar attributes when true (as by default).
* diag(x, nrow = n) now preserves typeof(x), also for logical,
integer and raw x (and as previously for complex and numeric).
* smooth.spline() now allows direct specification of lambda, gets a
hatvalues() method and keeps tol in the result, and optionally
parts of the internal matrix computations.
* addNA() is faster now, e.g. when applied twice. (Part of
PR#16895.)
* New option rstandard(<lm>, type = "predicted") provides the
"PRESS"-related leave-one-out cross-validation errors for linear
models.
* After seven years of deprecation, duplicated factor levels now
produce a warning when printed and an error in levels<- instead
of a warning.
* Invalid factors, e.g., with duplicated levels (invalid but
constructable) now give a warning when printed, _via_ new
function .valid.factor().
* sessionInfo() has been updated for Apple's change in OS naming as
from '10.12' ('macOS Sierra' _vs_ 'OS X El Capitan').
Its toLatex() method now includes the running component.
* options(interrupt=) can be used to specify a default action for
user interrupts. For now, if this option is not set and the
error option is set, then an unhandled user interrupt invokes the
error option. (This may be dropped in the future as interrupt
conditions are not error conditions.)
* In most cases user interrupt handlers will be called with a
"resume" restart available. Handlers can invoke this restart to
resume computation. At the browser prompt the r command will
invoke a "resume" restart if one is available. Some read
operations cannot be resumed properly when interrupted and do not
provide a "resume" restart.
* Radix sort is now chosen by method = "auto" for sort.int() for
double vectors (and hence used for sort() for unclassed double
vectors), excluding 'long' vectors.
sort.int(method = "radix") no longer rounds double vectors.
* The default and data.frame methods for stack() preserve the names
of empty elements in the levels of the ind column of the return
value. Set the new drop argument to TRUE for the previous
behavior.
* Speedup in simplify2array() and hence sapply() and mapply() (for
the case of names and common length > 1), thanks to Suharto
Anggono's PR#17118.
* table(x, exclude = NULL) now sets useNA = "ifany" (instead of
"always"). Together with the bug fixes for this case, this
recovers more consistent behaviour compatible to older versions
of R. As a consequence, summary() for a logical vector no longer
reports (zero) counts for NA when there are no NAs.
* dump.frames() gets a new option include.GlobalEnv which allows to
also dump the global environment, thanks to Andreas Kersting's
proposal in PR#17116.
* system.time() now uses message() instead of cat() when terminated
early, such that suppressMessages() has an effect; suggested by
Ben Bolker.
* citation() supports inst/CITATION files from package source
trees, with lib.loc pointing to the directory containing the
package.
* try() gains a new argument outFile with a default that can be
modified _via_ options(try.outFile = .), useful notably for
Sweave.
* The unexported low-level functions in package parallel for
passing serialized R objects to and from forked children now
support long vectors on 64-bit platforms. This removes some
limits on higher-level functions such as mclapply() (but
returning gigabyte results from forked processes _via_
serialization should be avoided if at all possible).
* Connections now print() without error even if invalid, e.g. after
having been destroyed.
* apropos() and find(simple.words = FALSE) no longer match object
names starting with . which are known to be internal objects
(such as .__S3MethodsTable__.).
* Convenience function hasName() has been added; it is intended to
replace the common idiom !is.null(x$name) without the usually
unintended partial name matching.
* strcapture() no longer fixes column names nor coerces strings to
factors (suggested by Bill Dunlap).
* strcapture() returns NA for non-matching values in x (suggested
by Bill Dunlap).
* source() gets new optional arguments, notably exprs; this is made
use of in the new utility function withAutoprint().
* sys.source() gets a new toplevel.env argument. This argument is
useful for frameworks running package tests; contributed by Tomas
Kalibera.
* Sys.setFileTime() and file.copy(copy.date = TRUE) will set
timestamps with fractions of seconds on platforms/filesystems
which support this.
* (Windows only.) file.info() now returns file timestamps including
fractions of seconds; it has done so on other platforms since R
2.14.0. (NB: some filesystems do not record modification and
access timestamps to sub-second resolution.)
* The license check enabled by options(checkPackageLicense = TRUE)
is now done when the package's namespace is first loaded.
* ppr() and supsmu() get an optional trace argument, and ppr(..,
sm.method = ..spline) is no longer limited to sample size n <=
2500.
* The POSIXct method for print() gets optional tz and usetz
arguments, thanks to a report from Jennifer S. Lyon.
* New function check_packages_in_dir_details() in package tools for
analyzing package-check log files to obtain check details.
* Package tools now exports function CRAN_package_db() for
obtaining information about current packages in the CRAN package
repository, and several functions for obtaining the check status
of these packages.
* The (default) Stangle driver Rtangle allows annotate to be a
function and gets a new drop.evalFALSE option.
* The default method for quantile(x, prob) should now be monotone
in prob, even in border cases, see PR#16672.
* bug.report() now tries to extract an email address from a
BugReports field, and if there is none, from a Contacts field.
* The format() and print() methods for object.size() results get
new options standard and digits; notably, standard = "IEC" and
standard = "SI" allow more standard (but less common)
abbreviations than the default ones, e.g. for kilobytes. (From
contributions by Henrik Bengtsson.)
* If a reference class has a validity method, validObject will be
called automatically from the default initialization method for
reference classes.
* tapply() gets new option default = NA allowing to change the
previously hardcoded value.
* read.dcf() now consistently interprets any 'whitespace' to be
stripped to include newlines.
* The maximum number of DLLs that can be loaded into R e.g. _via_
dyn.load() can now be increased by setting the environment
variable R_MAX_NUM_DLLS before starting R.
* Assigning to an element of a vector beyond the current length now
over-allocates by a small fraction. The new vector is marked
internally as growable, and the true length of the new vector is
stored in the truelength field. This makes building up a vector
result by assigning to the next element beyond the current length
more efficient, though pre-allocating is still preferred. The
implementation is subject to change and not intended to be used
in packages at this time.
* Loading the parallel package namespace no longer sets or changes
the .Random.seed, even if R_PARALLEL_PORT is unset.
NB: This can break reproducibility of output, and did for a CRAN
package.
* Methods "wget" and "curl" for download.file() now give an R error
rather than a non-zero return value when the external command has
a non-zero status.
* Encoding name "utf8" is mapped to "UTF-8". Many implementations
of iconv accept "utf8", but not GNU libiconv (including the late
2016 version 1.15).
* sessionInfo() shows the full paths to the library or executable
files providing the BLAS/LAPACK implementations currently in use
(not available on Windows).
* The binning algorithm used by bandwidth selectors bw.ucv(),
bw.bcv() and bw.SJ() switches to a version linear in the input
size n for n > nb/2. (The calculations are the same, but for
larger n/nb it is worth doing the binning in advance.)
* There is a new option PCRE_study which controls when grep(perl =
TRUE) and friends 'study' the compiled pattern. Previously this
was done for 11 or more input strings: it now defaults to 10 or
more (but most examples need many more for the difference from
studying to be noticeable).
* grep(perl = TRUE) and friends can now make use of PCRE's
Just-In-Time mechanism, for PCRE >= 8.20 on platforms where JIT
is supported. It is used by default whenever the pattern is
studied (see the previous item). (Based on a patch from Mikko
Korpela.)
This is controlled by a new option PCRE_use_JIT.
Note that in general this makes little difference to the speed,
and may take a little longer: its benefits are most evident on
strings of thousands of characters. As a side effect it reduces
the chances of C stack overflow in the PCRE library on very long
strings (millions of characters, but see next item).
Warning: segfaults were seen using PCRE with JIT enabled on
64-bit Sparc builds.
* There is a new option PCRE_limit_recursion for grep(perl = TRUE)
and friends to set a recursion limit taking into account R's
estimate of the remaining C stack space (or 10000 if that is not
available). This reduces the chance of C stack overflow, but
because it is conservative may report a non-match (with a
warning) in examples that matched before. By default it is
enabled if any input string has 1000 or more bytes. (PR#16757)
* getGraphicsEvent() now works on X11(type = "cairo") devices.
Thanks to Frederick Eaton (for reviving an earlier patch).
* There is a new argument onIdle for getGraphicsEvent(), which
allows an R function to be run whenever there are no pending
graphics events. This is currently only supported on X11
devices. Thanks to Frederick Eaton.
* The deriv() and similar functions now can compute derivatives of
log1p(), sinpi() and similar one-argument functions, thanks to a
contribution by Jerry Lewis.
* median() gains a formal ... argument, so methods with extra
arguments can be provided.
* strwrap() reduces indent if it is more than half width rather
than giving an error. (Suggested by Bill Dunlap.)
* When the condition code in if(.) or while(.) is not of length
one, an error instead of a warning may be triggered by setting an
environment variable, see the help page.
* Formatting and printing of bibliography entries (bibentry) is
more flexible and better documented. Apart from setting
options(citation.bibtex.max = 99) you can also use
print(<citation>, bibtex=TRUE) (or format(..)) to get the BibTeX
entries in the case of more than one entry. This also affects
citation(). Contributions to enable style = "html+bibtex" are
welcome.
C-LEVEL FACILITIES:
* Entry points R_MakeExternalPtrFn and R_ExternalPtrFn are now
declared in header Rinternals.h to facilitate creating and
retrieving an R external pointer from a C function pointer
without ISO C warnings about the conversion of function pointers.
* There was an exception for the native Solaris C++ compiler to the
dropping (in R 3.3.0) of legacy C++ headers from headers such as
R.h and Rmath.h - this has now been removed. That compiler has
strict C++98 compliance hence does not include extensions in its
(non-legacy) C++ headers: some packages will need to request
C++11 or replace non-C++98 calls such as lgamma: see SS1.6.4 of
'Writing R Extensions'.
Because it is needed by about 70 CRAN packages, headers R.h and
Rmath.h still declare
use namespace std;
when included on Solaris.
* When included from C++, the R headers now use forms such as
std::FILE directly rather than including the line
using std::FILE;
C++ code including these headers might be relying on the latter.
* Headers R_ext/BLAS.h and R_ext/Lapack.h have many improved
declarations including const for double-precision complex
routines. _Inter alia_ this avoids warnings when passing 'string
literal' arguments from C++11 code.
* Headers for Unix-only facilities R_ext/GetX11Image.h,
R_ext/QuartzDevice.h and R_ext/eventloop.h are no longer
installed on Windows.
* No-longer-installed headers GraphicsBase.h, RGraphics.h,
Rmodules/RX11.h and Rmodules/Rlapack.h which had a LGPL license
no longer do so.
* HAVE_UINTPTR_T is now defined where appropriate by Rconfig.h so
that it can be included before Rinterface.h when CSTACK_DEFNS is
defined and a C compiler (not C++) is in use. Rinterface.h now
includes C header stdint.h or C++11 header cstdint where needed.
* Package tools has a new function
package_native_routine_registration_skeleton() to assist adding
native-symbol registration to a package. See its help and SS5.4.1
of 'Writing R Extensions' for how to use it. (At the time it was
added it successfully automated adding registration to over 90%
of CRAN packages which lacked it. Many of the failures were
newly-detected bugs in the packages, e.g. 50 packages called
entry points with varying numbers of arguments and 65 packages
called entry points not in the package.)
INSTALLATION on a UNIX-ALIKE:
* readline headers (and not just the library) are required unless
configuring with --with-readline=no.
* configure now adds a compiler switch for C++11 code, even if the
compiler supports C++11 by default. (This ensures that g++ 6.x
uses C++11 mode and not its default mode of C++14 with 'GNU
extensions'.)
The tests for C++11 compliance are now much more comprehensive.
For gcc < 4.8, the tests from R 3.3.0 are used in order to
maintain the same behaviour on Linux distributions with long-term
support.
* An alternative compiler for C++11 is now specified with CXX11,
not CXX1X. Likewise C++11 flags are specified with CXX11FLAGS and
the standard (e.g., -std=gnu++11 is specified with CXX11STD.
* configure now tests for a C++14-compliant compiler by testing
some basic features. This by default tries flags for the
compiler specified by CXX11, but an alternative compiler, options
and standard can be specified by variables CXX14, CXX14FLAGS and
CXX14STD (e.g., -std=gnu++14).
* There is a new macro CXXSTD to help specify the standard for C++
code, e.g. -std=c++98. This makes it easier to work with
compilers which default to a later standard: for example, with
CXX=g++6 CXXSTD=-std=c++98 configure will select commands for g++
6.x which conform to C++11 and C++14 where specified but
otherwise use C++98.
* Support for the defunct IRIX and OSF/1 OSes and Alpha CPU has
been removed.
* configure checks that the compiler specified by $CXX $CXXFLAGS is
able to compile C++ code.
* configure checks for the required header sys/select.h (or
sys/time.h on legacy systems) and system call select and aborts
if they are not found.
* If available, the POSIX 2008 system call utimensat will be used
by Sys.setFileTime() and file.copy(copy.date = TRUE). This may
result in slightly more accurate file times. (It is available on
Linux and FreeBSD but not macOS.)
* The minimum version requirement for libcurl has been reduced to
7.22.0, although at least 7.28.0 is preferred and earlier
versions are little tested. (This is to support Debian 7
'Wheezy' LTS and Ubuntu 'Precise' 12.04 LTS, although the latter
is close to end-of-life.)
* configure tests for a C++17-compliant compiler. The tests are
experimental and subject to change in the future.
INCLUDED SOFTWARE:
* (Windows only) Tcl/Tk version 8.6.4 is now included in the binary
builds. The tcltk*.chm help file is no longer included; please
consult the online help at <URL: http://www.tcl.tk/man/> instead.
* The version of LAPACK included in the sources has been updated to
3.7.0: no new routines have been added to R.
PACKAGE INSTALLATION:
* There is support for compiling C++14 or C++17 code in packages on
suitable platforms: see 'Writing R Extensions' for how to request
this.
* The order of flags when LinkingTo other packages has been changed
so their include directories come earlier, before those specified
in CPPFLAGS. This will only have an effect if non-system include
directories are included with -I flags in CPPFLAGS (and so not
the default -I/usr/local/include which is treated as a system
include directory on most platforms).
* Packages which register native routines for .C or .Fortran need
to be re-installed for this version (unless installed with
R-devel SVN revision r72375 or later).
* Make variables with names containing CXX1X are deprecated in
favour of those using CXX11, but for the time being are still
made available _via_ file etc/Makeconf. Packages using them
should be converted to the new forms and made dependent on R (>=
3.4.0).
UTILITIES:
* Running R CMD check --as-cran with _R_CHECK_CRAN_INCOMING_REMOTE_
false now skips tests that require remote access. The remaining
(local) tests typically run quickly compared to the remote tests.
* R CMD build will now give priority to vignettes produced from
files in the vignettes directory over those in the inst/doc
directory, with a warning that the latter are being ignored.
* R CMD config gains a --all option for printing names and values
of all basic configure variables.
It now knows about all the variables used for the C++98, C++11
and C++14 standards.
* R CMD check now checks that output files in inst/doc are newer
than the source files in vignettes.
* For consistency with other package subdirectories, files named
*.r in the tests directory are now recognized as tests by R CMD
check. (Wish of PR#17143.)
* R CMD build and R CMD check now use the _union_ of R_LIBS and
.libPaths(). They may not be equivalent, e.g., when the latter
is determined by R_PROFILE.
* R CMD build now preserves dates when it copies files in preparing
the tarball. (Previously on Windows it changed the dates on all
files; on Unix, it changed some dates when installing vignettes.)
* The new option R CMD check --no-stop-on-test-error allows running
the remaining tests (under tests/) even if one gave an error.
* Check customization _via_ environment variables to detect side
effects of .Call() and .External() calls which alter their
arguments is described in SS8 of the 'R Internals' manual.
* R CMD check now checks any BugReports field to be non-empty and a
suitable single URL.
* R CMD check --as-cran now NOTEs if the package does not register
its native routines or does not declare its intentions on
(native) symbol search. (This will become a WARNING in due
course.)
DEPRECATED AND DEFUNCT:
* (Windows only) Function setInternet2() is defunct.
* Installation support for readline emulations based on editline
(aka libedit) is deprecated.
* Use of the C/C++ macro NO_C_HEADERS is defunct and silently
ignored.
* unix.time(), a traditional synonym for system.time(), has been
deprecated.
* structure(NULL, ..) is now deprecated as you cannot set
attributes on NULL.
* Header Rconfig.h no longer defines SUPPORT_OPENMP; instead use
_OPENMP (as documented for a long time).
* (C-level Native routine registration.) The deprecated styles
member of the R_CMethodDef and R_FortranMethodDef structures has
been removed. Packages using these will need to be re-installed
for R 3.4.0.
* The deprecated support for PCRE versions older than 8.20 will be
removed in R 3.4.1. (Versions 8.20-8.31 will still be accepted
but remain deprecated.)
BUG FIXES:
* Getting or setting body() or formals() on non-functions for now
signals a warning and may become an error for setting.
* match(x, t), duplicated(x) and unique(x) work as documented for
complex numbers with NAs or NaNs, where all those containing NA
do match, whereas in the case of NaN's both real and imaginary
parts must match, compatibly with how print() and format() work
for complex numbers.
* deparse(<complex>, options = "digits17") prints more nicely now,
mostly thanks to a suggestion by Richie Cotton.
* Rotated symbols in plotmath expressions are now positioned
correctly on x11(type = "Xlib"). (PR#16948)
* as<-() avoids an infinite loop when a virtual class is interposed
between a subclass and an actual superclass.
* Fix level propagation in unlist() when the list contains
zero-length lists or factors.
* Fix S3 dispatch on S4 objects when the methods package is not
attached.
* Internal S4 dispatch sets .Generic in the method frame for
consistency with standardGeneric(). (PR#16929)
* Fix order(x, decreasing = TRUE) when x is an integer vector
containing MAX_INT. Ported from a fix Matt Dowle made to
data.table.
* Fix caching by callNextMethod(), resolves PR#16973 and PR#16974.
* grouping() puts NAs last, to be consistent with the default
behavior of order().
* Point mass limit cases: qpois(-2, 0) now gives NaN with a warning
and qgeom(1, 1) is 0. (PR#16972)
* table() no longer drops an "NaN" factor level, and better obeys
exclude = <chr>, thanks to Suharto Anggono's patch for PR#16936.
Also, in the case of exclude = NULL and NAs, these are tabulated
correctly (again).
Further, table(1:2, exclude = 1, useNA = "ifany") no longer
erroneously reports <NA> counts.
Additionally, all cases of empty exclude are equivalent, and
useNA is not overwritten when specified (as it was by exclude =
NULL).
* wilcox.test(x, conf.int=TRUE) no longer errors out in cases where
the confidence interval is not available, such as for x = 0:2.
* droplevels(f) now keeps <NA> levels when present.
* In integer arithmetic, NULL is now treated as integer(0) whereas
it was previously treated as double(0).
* The radix sort considers NA_real_ and NaN to be equivalent in
rank (like the other sort algorithms).
* When index.return=TRUE is passed to sort.int(), the radix sort
treats NAs like sort.list() does (like the other sort
algorithms).
* When in tabulate(bin, nbin) length(bin) is larger than the
maximal integer, the result is now of type double and hence no
longer silently overflows to wrong values. (PR#17140)
* as.character.factor() respects S4 inheritance when checking the
type of its argument. (PR#17141)
* The factor method for print() no longer sets the class of the
factor to NULL, which would violate a basic constraint of an S4
object.
* formatC(x, flag = f) allows two new flags, and signals an error
for invalid flags also in the case of character formatting.
* Reading from file("stdin") now also closes the connection and
hence no longer leaks memory when reading from a full pipe,
thanks to G'abor Cs'ardi, see thread starting at <URL:
https://stat.ethz.ch/pipermail/r-devel/2016-November/073360.html>.
* Failure to create file in tempdir() for compressed pdf() graphics
device no longer errors (then later segfaults). There is now a
warning instead of error and compression is turned off for the
device. Thanks to Alec Wysoker (PR#17191).
* Asking for methods() on "|" returns only S3 methods. See <URL:
https://stat.ethz.ch/pipermail/r-devel/2016-December/073476.html>.
* dev.capture() using Quartz Cocoa device (macOS) returned invalid
components if the back-end chose to use ARGB instead of RGBA
image format. (Reported by Noam Ross.)
* seq("2", "5") now works too, equivalently to "2":"5" and
seq.int().
* seq.int(to = 1, by = 1) is now correct, other cases are integer
(instead of double) when seq() is integer too, and the
"non-finite" error messages are consistent between seq.default()
and seq.int(), no longer mentioning NaN etc.
* rep(x, times) and rep.int(x, times) now work when times is larger
than the largest value representable in an integer vector.
(PR#16932)
* download.file(method = "libcurl") does not check for URL
existence before attempting downloads; this is more robust to
servers that do not support HEAD or range-based retrieval, but
may create empty or incomplete files for aborted download
requests.
* Bandwidth selectors bw.ucv(), bw.bcv() and bw.SJ() now avoid
integer overflow for large sample sizes.
* str() no longer shows "list output truncated", in cases that list
was not shown at all. Thanks to Neal Fultz (PR#17219)
* Fix for cairo_pdf() (and svg() and cairo_ps()) when replaying a
saved display list that contains a mix of grid and graphics
output. (Report by Yihui Xie.)
* The str() and as.hclust() methods for "dendrogram" now also work
for deeply nested dendrograms thanks to non-recursive
implementations by Bradley Broom.
* sample() now uses two uniforms for added precision when the
uniform generator is Knuth-TAOCP, Knuth-TAOCP-2002, or a
user-defined generator and the population size is 2^25 or
greater.
* If a vignette in the vignettes directory is listed in
.Rbuildignore, R CMD build would not include it in the tarball,
but would include it in the vignette database, leading to a check
warning. (PR#17246)
* tools::latexToUtf8() infinite looped on certain inputs.
(PR#17138)
* terms.formula() ignored argument names when determining whether
two terms were identical. (PR#17235)
* callNextMethod() was broken when called from a method that
augments the formal arguments of a primitive generic.
* Coercion of an S4 object to a vector during sub-assignment into a
vector failed to dispatch through the as.vector() generic (often
leading to a segfault).
* Fix problems in command completion: Crash (PR#17222) and junk
display in Windows, handling special characters in filenames on
all systems.
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd.mes at cbs.dk Priv: PDalgd at gmail.com
--
Peter Dalgaard, Professor,
Center for Statistics, Copenhagen Business School
Solbjerg Plads 3, 2000 Frederiksberg, Denmark
Phone: (+45)38153501
Office: A 4.23
Email: pd.mes at cbs.dk Priv: PDalgd at gmail.com
_______________________________________________
R-announce at r-project.org mailing list
https://stat.ethz.ch/mailman/listinfo/r-announce
More information about the R-help
mailing list