This blog is updated daily..
A general description is here.
The ‘X11()’ window gains an icon: the latter may be especially useful
on Ubuntu's ‘Unity’ interface.
The ‘WM_CLASS’ should be set in circumstances where the Window Manager failed to make use of X11 resource settings.
(Contributed by Philip Johnson.)
The ‘"Date"’ and ‘"POSIXt"’ methods for ‘cut()’ will accept an unsorted
‘breaks’ argument (as the default method does, although this was
undocumented). (Wish of PR#14961.)
Reference class methods (in the ‘methods’ package) that use other
methods in an indirect way (e.g., by ‘sapply()’) must tell the code
analysis to include that method. They can now do so by invoking
‘$usingMethods()’.
More Polish translations are available: for the ‘RGui’ menus and for
several recommended packages.
Multistratum MANOVA works. In fact, it seems to have done so for years
in spite of the help page claiming it did not.
‘qqline()’ has new optional arguments ‘distribution’, ‘probs’ and
‘qtype’, following the example of ‘lattice’'s ‘panel.qqmathline()’.
The handling of single quotes in the ‘en@quot’ pseudo-language has been
slightly improved. Double quotes are no longer converted.
New functions ‘checkPoFiles()’ and ‘checkPoFile()’ have been added to
the ‘tools’ package to check for consistency of format strings in
translation files.
‘model.matrix(~1, ...)’ now also contains the same rownames that less
trivial formulae produce. (Wish of PR#14992, changes the output of
several packages.)
Misuse of ‘rep()’ on undocumented types of objects (e.g. calls) is now
reported as an error.
The included LAPACK has been updated to 3.4.1, with some patches from
the current SVN sources. (_Inter alia_, this resolves PR#14692.)
‘file.copy(recursive = TRUE)’ has some additional checks on user error
leading to attempted infinite recursion (and on some platforms to
crashing R).
PCRE has been updated to version 8.31, a bug-fix release.
The included version of ‘liblzma’ has been updated to version 5.0.4, a
minor bug-fix release.
New function ‘.bincode()’, a ‘bare-bones’ version of
‘cut.default(labels = FALSE)’ for use in packages with ‘image()’
methods.
The HTML manuals now use directional single quotes.
‘maintainer()’ now converts embedded new lines to spaces. It no longer
gives a non-obvious error for non-installed packages.
The ‘X11()’ device has some protection against being used with forked
processes _via_ package ‘parallel’.
Setting the environment variable ‘R_OSX_VALGRIND’ (to any value) allows
R to be run under ‘valgrind’ on Mac OS 10.6 and 10.7 (‘valgrind’
currently has very limited support for 10.8), provided ‘system()’ is
not used (directly or indirectly). This should not be needed for
‘valgrind’ >= 3.8.1.
The ‘model.frame()’ method for ‘"lm"’ uses ‘xlevels’: this is safer if
‘data’ was supplied or ‘model = FALSE’ was used and the levels of
factors used in the fit had been re-ordered since fitting.
Similarly, ‘model.frame(fm, data=<data>)’ copies across the variables used for safe prediction from the fit.
Functions such as ‘parLapply()’ in package ‘parallel’ can make use of a
default cluster if one is set. (Reported by Martin Morgan.)
‘chol(pivot = TRUE, LINPACK = FALSE)’ is now available using LAPACK 3.2
subroutine ‘DPSTRF’.
The functions ‘.C()’, ‘.Call()’, ‘.External()’ and ‘.Fortran()’ now
check that they are called with an unnamed first argument: the formal
arguments were changed from ‘name=’ to ‘.NAME=’ in R 2.13.0, but some
packages were still using the old name. This is currently a warning,
but will be an error in future.
‘step()’ no longer tries to improve a model with AIC of ‘-Inf’ (a
perfect fit).
‘spline()’ and ‘splinefun()’ gain a new method ‘"hyman"’, an
implementation of Hyman's method of constructing monotonic
interpolation splines. (Based on contributions of Simon Wood and Rob
Hyndman.)
On Windows, the C stack size has been increased to 64MB (it has been
10MB since the days of 32MB RAM systems).
‘array()’ is now implemented in C code (for speed) when ‘data’ is
atomic or an unclassed list (so it is known that ‘as.vector(data)’ will
have no class to be used by ‘rep()’).
‘rep()’ is faster and uses less memory, substantially so in some common
cases (e.g. if ‘times’ is of length one or ‘length.out’ is given, and
‘each = 1’).
‘findInterval()’, ‘tabulate()’, ‘cut()’, ‘hist()’ and ‘image.default()’
all use ‘.Call()’ and are more efficient.
‘duplicated()’, ‘unique()’ and similar now support vectors of lengths
above 2^29 on 64-bit platforms.
Omitting ‘PACKAGE’ in ‘.C()’ etc calls was supposed to make use of the
DLL from the namespace within which the enclosing function was defined.
It was less successful in doing so than it might be, and gave no
indication it had failed.
A new search strategy is very successful and gives a warning when it fails. In most cases this is because the entry point is not actually provided by that package (and so ‘PACKAGE’ should be used to indicate which package is intended) but in some the namespace does not have a DLL specified by a ‘useDynLib()’ directive so ‘PACKAGE’ is required.
‘R CMD check’ now checks if a package can be loaded by
‘library(pkgname, lib.loc = "somewhere")’ without being on the library
search path (unless it is already installed in ‘.Library’, when it
always will be).
‘R CMD check --as-cran’ notes ‘hidden’ files and directories (with
names starting with a dot) that are not needed for the operation of ‘R
CMD INSTALL’ or ‘R CMD build’: such files should be excluded from the
published tarball.
‘R CMD check’ (if checking subdirectories) checks that the R code in
any demos is ASCII and can be parsed, and warns if not.
When ‘R CMD Rd2pdf’ is used with ‘inputenx.sty’, it allows further
characters (mainly for Eastern European languages) by including
‘ix-utf8enc.dfu’ (if available). (Wish of PR#14989.)
‘R CMD build’ now omits several types of hidden files/directories,
including ‘inst/doc/.Rinstignore’, ‘vignettes/.Rinstignore’,
(‘.Rinstignore’ should be at top level), ‘.deps’ under ‘src’,
‘.Renviron’, ‘.Rprofile’, ‘.Rproj.user’, ‘.backups’, ‘.cvsignore’,
‘.cproject’, ‘.directory’, ‘.dropbox’, ‘.exrc’, ‘.gdb.history’,
‘.gitattributes’, ‘.gitignore’, ‘.gitmodules’, ‘.hgignore’, ‘.hgtags’,
‘.htaccess’, ‘.latex2html-init’, ‘.project’, ‘.seed’, ‘.settings’,
‘.tm_properties’ and various leftovers.
‘R CMD check’ now checks for ‘.C()’, ‘.Call()’, ‘.External()’ and
‘.Fortran()’ calls in other packages, and gives a warning on those
found from R itself (which are not part of the API and change without
notice: many will changed for R 2.16.0).
The limit for ‘R_alloc’ on 64-bit platforms has been raised to just
under 32GB (from just under 16GB).
The misuse of ‘.C("name", ..., PACKAGE = foo)’ where ‘foo’ is an
arbitrary R object is now an error.
The misuse ‘.C("name",..., PACKAGE = "")’ is now warned about in ‘R CMD check’, and will be an error in future.
Use of ‘array()’ with a 0-length ‘dim’ argument is deprecated with a
warning (and was contrary to the documentation).
Use of ‘tapply()’ with a 0-length ‘INDEX’ list is deprecated with a
warning.
‘Translation’ packages are deprecated.
Calling ‘rep()’ or ‘rep.int()’ on a pairlist is deprecated and will
give a warning. In any case, ‘rep()’ converted a pairlist to a list so
you may as well do that explicitly.
Entry point ‘rcont2’ is no longer part of the API, and will move to
package ‘stats’ in R 2.16.0.
The ‘internal’ graphics device invoked by ‘.Call("R_GD_nullDevice",
package = "grDevices")’ is about to be removed: use ‘pdf(file = NULL)’
instead.
‘eigen(EISPACK = TRUE)’, ‘chol(pivot = FALSE, LINPACK = TRUE)’,
‘chol2inv(LINPACK = TRUE)’, ‘solve(LINPACK = TRUE)’ and ‘svd(LINPACK =
TRUE)’ are deprecated and give a warning.
They were provided for compatibility with R 1.7.0 (Mar 2003)!
The ‘internal function’ ‘kappa.tri()’ has been renamed to
‘.kappa_tri()’ so it is not inadvertently called as a method for class
‘"tri"’.
Functions ‘sessionData()’ and ‘browseAll()’ in package ‘methods’ are on
a help page describing them as ‘deprecated’ and are now formally
deprecated.
For a Windows or Mac OS X binary package install, ‘install.packages()’
will check if a source package is available on the same repositories,
and report if it is a later version or there is a source package but no
binary package available.
This check can be suppressed: see the help page.
‘install.packages(type = "both")’ has been enhanced. In interactive
use it will ask whether to choose the source version of a package if
the binary version is older and contains compiled code, and also asks
if source packages with no binary version should be installed).
There is a new ‘configure’ option ‘--with-libtiff’ (mainly in case the
system installation needs to be avoided).
LAPACK 3.4.1 does use some Fortran 90 features, so ‘g77’ no longer
suffices.
If an external LAPACK is used, it must be version 3.2 or later.
On Windows, starting ‘Rterm’ via ‘R.exe’ caused Ctrl-C to misbehave.
(PR#14948)
The ‘tools::latexToUtf8()’ function missed conversions that were
contained within braces.
Long timezone specifications (such as a file name preceded by ‘:’)
could crash ‘as.POSIXlt’. (PR#14945)
‘R CMD build --resave-data’ could fail if there was no ‘data’ directory
but there was an ‘R/sysdata.rda’ file. (PR#14947)
‘is.na()’ misbehaved on a 0-column data frame. (PR#14959)
‘anova.lmlist()’ failed if ‘test’ was supplied. (PR#14960)
It was unable to compute Cp tests for object of class ‘"lm"’ (it assumed class ‘"glm"’).
The ‘formula’ method for ‘sunflowerplot()’ now allows ‘xlab’ and ‘ylab’
to be set. (Reported by Gerrit Eichner.)
The ‘"POSIXt"’ and ‘"Date"’ methods for ‘hist()’ could fail on Windows
where adjustments to the right-hand boundary crossed a DST transition
time.
On Windows, the code in ‘as.POSIXct()’ to handle incorrectly specified
‘isdst’ fields might have resulted in ‘NA’ being returned.
‘aov()’ and ‘manova()’ gave spurious warning about singular error model
in the multiresponse case.
In ‘ns()’ and ‘bs()’, specifying ‘knots = NULL’ is now equivalent to
omitting it, also when ‘df’ is specified. (PR#14970)
‘sprintf()’ did not accept numbered arguments ending in zero.
(PR#14975)
‘rWishart()’ could overflow the C stack and maybe crash the R process
for dimensions of several hundreds or more. (Reported by Michael Braun
on R-sig-mac.)
Base package vignettes (e.g. ‘vignette("Sweave")’) were not fully
installed in builds of R from the tarball.
‘lchoose()’ and ‘choose()’ could overflow the C stack and crash R.
When given a 0-byte file and asked to keep source references, ‘parse()’
read input from ‘stdin()’ instead.
‘pdf(compress = TRUE)’ did not delete temporary files it created until
the end of the R session. (PR#14991)
‘logLik()’ did not detect the error of applying it to a
multiple-response linear model. (PR#15000)
‘file.copy(recursive = TRUE)’ did not always report ‘FALSE’ for a
failure two or more directories deep.
‘qgeom()’ could return ‘-1’ for extremely small ‘q’. (PR#14967.)
‘smooth.spline()’ used ‘DUP = FALSE’ which allowed its compiled C code
to change the function: this was masked by the default
byte-compilation. (PR#14965.)
In Windows, the GUI preferences for foreground color were not always
respected. (Reported by Benjamin Wells.)
On OS X, the Quartz versions of the bitmap devices did not respect
‘antialias = "none"’. (PR#15006.)
‘unique()’ and similar would infinite-loop if called on a vector of
length > 2^29 (but reported that the vector was too long for 2^30 or
more).
‘parallel::stopCluster()’ now works with MPI clusters without ‘snow’
being on the search path.
‘terms.formula()’ could exhaust the stack, and the stack check did not
always catch this before the segfault. (PR#15013)
‘sort.list(method = "radix")’ could give incorrect results on certain
compilers (seen with ‘clang’ on Mac OS 10.7 and ‘Xcode 4.4.1’).
‘backsolve(T, b)’ gave incorrect results when ‘nrows(b) > ncols(T)’ and
‘b’ had more than one column.
It could segfault or give nonsense if ‘k’ was specified as more than ‘ncols(T)’.
‘smooth.spline()’ did not check that a specified numeric ‘spar’ was of
length 1, and gave corrupt results if it was of length 0.
Protection added to ‘do_system’. (PR#15025)
Printing of vectors with names > 1000 characters now works correctly
rather than truncating. (PR#15028)
‘qr()’ for a complex matrix did not pivot the column names.
‘--with-blas='-framework vecLib'’ now also works on OS X 10.8.
‘R CMD check’ no longer fails with an error if a ‘DESCRIPTION’ file
incorrectly contains a blank line. (Reported by Bill Dunlap.)
‘install.packages(type = "both")’ could call ‘chooseCRANmirror()’
twice.
‘lm.wfit()’ could segfault in R 2.15.1 if all the weights were zero.
(PR#15044)
A malformed package name could cause ‘R CMD INSTALL’ to write outside
the target library.
Some of the quality control functions (e.g. ‘tools::checkFF()’) were
wrongly identifying the source of S4 methods in a package and so not
checking them.
The default type of display by ‘browseEnv()’ when using ‘R.app’ on Mac
OS X has been incorrect for a long time.
The implementation of ‘importMethodsFrom’ in a ‘NAMESPACE’ file could
be confused and fail to find generics when importing from multiple
packages (reported and fixed by Michael Lawrence).
The detection of the C stack direction is better protected against
compiler optimization. (PR#15011.)
Long custom line types would sometimes segfault on the
cairographics-based devices. (PR#15055.)
‘tools::checkPoFile()’ unprotected too early in its C code and so
segfaulted from time to time.
The Fortran code underlying ‘nlminb()’ could infinite-loop if any of
the input functions returned ‘NA’ or ‘NaN’. This is now an error for
the gradient or Hessian, and a warning for the function (with the value
replaced by ‘Inf’). (In part, PR#15052.)
The code for creating ‘coerce()’ methods could generate false notes
about ambiguous selection; the notes have been suppressed for this
function.
‘arima.sim()’ could give too long an output in some corner cases (in
part, PR#15068).
‘anova.glm()’ with ‘test = "Rao"’ didn't work when models included an
offset. (Reported by Søren Feodor Nielsen.)
‘as.data.frame.matrix()’ could return invalid data frame with no
‘row.names’ attribute for 0-row matrix. (Reported by Hervé Pagès.)
Compilation with the ‘vecLib’ or ‘Accelerate’ frameworks on OS X
without using that also for LAPACK is more likely to be successful.
The ‘X11()’ window gains an icon: the latter may be especially useful on Ubuntu's ‘Unity’ interface.
The ‘WM_CLASS’ should be set in circumstances where the Window Manager failed to make use of X11 resource settings.
(Contributed by Philip Johnson.)
The ‘"Date"’ and ‘"POSIXt"’ methods for ‘cut()’ will accept an unsorted ‘breaks’ argument (as the default method does, although this was undocumented). (Wish of PR#14961.)
Reference class methods (in the ‘methods’ package) that use other methods in an indirect way (e.g., by ‘sapply()’) must tell the code analysis to include that method. They can now do so by invoking ‘$usingMethods()’.
More Polish translations are available: for the ‘RGui’ menus and for several recommended packages.
Multistratum MANOVA works. In fact, it seems to have done so for years in spite of the help page claiming it did not.
‘qqline()’ has new optional arguments ‘distribution’, ‘probs’ and ‘qtype’, following the example of ‘lattice’'s ‘panel.qqmathline()’.
The handling of single quotes in the ‘en@quot’ pseudo-language has been slightly improved. Double quotes are no longer converted.
New functions ‘checkPoFiles()’ and ‘checkPoFile()’ have been added to the ‘tools’ package to check for consistency of format strings in translation files.
‘model.matrix(~1, ...)’ now also contains the same rownames that less trivial formulae produce. (Wish of PR#14992, changes the output of several packages.)
Misuse of ‘rep()’ on undocumented types of objects (e.g. calls) is now reported as an error.
The included LAPACK has been updated to 3.4.1, with some patches from the current SVN sources. (_Inter alia_, this resolves PR#14692.)
‘file.copy(recursive = TRUE)’ has some additional checks on user error leading to attempted infinite recursion (and on some platforms to crashing R).
PCRE has been updated to version 8.31, a bug-fix release.
The included version of ‘liblzma’ has been updated to version 5.0.4, a minor bug-fix release.
New function ‘.bincode()’, a ‘bare-bones’ version of ‘cut.default(labels = FALSE)’ for use in packages with ‘image()’ methods.
The HTML manuals now use directional single quotes.
‘maintainer()’ now converts embedded new lines to spaces. It no longer gives a non-obvious error for non-installed packages.
The ‘X11()’ device has some protection against being used with forked processes _via_ package ‘parallel’.
Setting the environment variable ‘R_OSX_VALGRIND’ (to any value) allows R to be run under ‘valgrind’ on Mac OS 10.6 and 10.7 (‘valgrind’ currently has very limited support for 10.8), provided ‘system()’ is not used (directly or indirectly). This should not be needed for ‘valgrind’ >= 3.8.1.
The ‘model.frame()’ method for ‘"lm"’ uses ‘xlevels’: this is safer if ‘data’ was supplied or ‘model = FALSE’ was used and the levels of factors used in the fit had been re-ordered since fitting.
Similarly, ‘model.frame(fm, data=<data>)’ copies across the variables used for safe prediction from the fit.
Functions such as ‘parLapply()’ in package ‘parallel’ can make use of a default cluster if one is set. (Reported by Martin Morgan.)
‘chol(pivot = TRUE, LINPACK = FALSE)’ is now available using LAPACK 3.2 subroutine ‘DPSTRF’.
The functions ‘.C()’, ‘.Call()’, ‘.External()’ and ‘.Fortran()’ now check that they are called with an unnamed first argument: the formal arguments were changed from ‘name=’ to ‘.NAME=’ in R 2.13.0, but some packages were still using the old name. This is currently a warning, but will be an error in future.
‘step()’ no longer tries to improve a model with AIC of ‘-Inf’ (a perfect fit).
‘spline()’ and ‘splinefun()’ gain a new method ‘"hyman"’, an implementation of Hyman's method of constructing monotonic interpolation splines. (Based on contributions of Simon Wood and Rob Hyndman.)
On Windows, the C stack size has been increased to 64MB (it has been 10MB since the days of 32MB RAM systems).
‘array()’ is now implemented in C code (for speed) when ‘data’ is atomic or an unclassed list (so it is known that ‘as.vector(data)’ will have no class to be used by ‘rep()’).
‘rep()’ is faster and uses less memory, substantially so in some common cases (e.g. if ‘times’ is of length one or ‘length.out’ is given, and ‘each = 1’).
‘findInterval()’, ‘tabulate()’, ‘cut()’, ‘hist()’ and ‘image.default()’ all use ‘.Call()’ and are more efficient.
‘duplicated()’, ‘unique()’ and similar now support vectors of lengths above 2^29 on 64-bit platforms.
Omitting ‘PACKAGE’ in ‘.C()’ etc calls was supposed to make use of the DLL from the namespace within which the enclosing function was defined. It was less successful in doing so than it might be, and gave no indication it had failed.
A new search strategy is very successful and gives a warning when it fails. In most cases this is because the entry point is not actually provided by that package (and so ‘PACKAGE’ should be used to indicate which package is intended) but in some the namespace does not have a DLL specified by a ‘useDynLib()’ directive so ‘PACKAGE’ is required.
‘R CMD check’ now checks if a package can be loaded by ‘library(pkgname, lib.loc = "somewhere")’ without being on the library search path (unless it is already installed in ‘.Library’, when it always will be).
‘R CMD check --as-cran’ notes ‘hidden’ files and directories (with names starting with a dot) that are not needed for the operation of ‘R CMD INSTALL’ or ‘R CMD build’: such files should be excluded from the published tarball.
‘R CMD check’ (if checking subdirectories) checks that the R code in any demos is ASCII and can be parsed, and warns if not.
When ‘R CMD Rd2pdf’ is used with ‘inputenx.sty’, it allows further characters (mainly for Eastern European languages) by including ‘ix-utf8enc.dfu’ (if available). (Wish of PR#14989.)
‘R CMD build’ now omits several types of hidden files/directories, including ‘inst/doc/.Rinstignore’, ‘vignettes/.Rinstignore’, (‘.Rinstignore’ should be at top level), ‘.deps’ under ‘src’, ‘.Renviron’, ‘.Rprofile’, ‘.Rproj.user’, ‘.backups’, ‘.cvsignore’, ‘.cproject’, ‘.directory’, ‘.dropbox’, ‘.exrc’, ‘.gdb.history’, ‘.gitattributes’, ‘.gitignore’, ‘.gitmodules’, ‘.hgignore’, ‘.hgtags’, ‘.htaccess’, ‘.latex2html-init’, ‘.project’, ‘.seed’, ‘.settings’, ‘.tm_properties’ and various leftovers.
‘R CMD check’ now checks for ‘.C()’, ‘.Call()’, ‘.External()’ and ‘.Fortran()’ calls in other packages, and gives a warning on those found from R itself (which are not part of the API and change without notice: many will changed for R 2.16.0).
The limit for ‘R_alloc’ on 64-bit platforms has been raised to just under 32GB (from just under 16GB).
The misuse of ‘.C("name", ..., PACKAGE = foo)’ where ‘foo’ is an arbitrary R object is now an error.
The misuse ‘.C("name",..., PACKAGE = "")’ is now warned about in ‘R CMD check’, and will be an error in future.
Use of ‘array()’ with a 0-length ‘dim’ argument is deprecated with a warning (and was contrary to the documentation).
Use of ‘tapply()’ with a 0-length ‘INDEX’ list is deprecated with a warning.
‘Translation’ packages are deprecated.
Calling ‘rep()’ or ‘rep.int()’ on a pairlist is deprecated and will give a warning. In any case, ‘rep()’ converted a pairlist to a list so you may as well do that explicitly.
Entry point ‘rcont2’ is no longer part of the API, and will move to package ‘stats’ in R 2.16.0.
The ‘internal’ graphics device invoked by ‘.Call("R_GD_nullDevice", package = "grDevices")’ is about to be removed: use ‘pdf(file = NULL)’ instead.
‘eigen(EISPACK = TRUE)’, ‘chol(pivot = FALSE, LINPACK = TRUE)’, ‘chol2inv(LINPACK = TRUE)’, ‘solve(LINPACK = TRUE)’ and ‘svd(LINPACK = TRUE)’ are deprecated and give a warning.
They were provided for compatibility with R 1.7.0 (Mar 2003)!
The ‘internal function’ ‘kappa.tri()’ has been renamed to ‘.kappa_tri()’ so it is not inadvertently called as a method for class ‘"tri"’.
Functions ‘sessionData()’ and ‘browseAll()’ in package ‘methods’ are on a help page describing them as ‘deprecated’ and are now formally deprecated.
For a Windows or Mac OS X binary package install, ‘install.packages()’ will check if a source package is available on the same repositories, and report if it is a later version or there is a source package but no binary package available.
This check can be suppressed: see the help page.
‘install.packages(type = "both")’ has been enhanced. In interactive use it will ask whether to choose the source version of a package if the binary version is older and contains compiled code, and also asks if source packages with no binary version should be installed).
There is a new ‘configure’ option ‘--with-libtiff’ (mainly in case the system installation needs to be avoided).
LAPACK 3.4.1 does use some Fortran 90 features, so ‘g77’ no longer suffices.
If an external LAPACK is used, it must be version 3.2 or later.
On Windows, starting ‘Rterm’ via ‘R.exe’ caused Ctrl-C to misbehave. (PR#14948)
The ‘tools::latexToUtf8()’ function missed conversions that were contained within braces.
Long timezone specifications (such as a file name preceded by ‘:’) could crash ‘as.POSIXlt’. (PR#14945)
‘R CMD build --resave-data’ could fail if there was no ‘data’ directory but there was an ‘R/sysdata.rda’ file. (PR#14947)
‘is.na()’ misbehaved on a 0-column data frame. (PR#14959)
‘anova.lmlist()’ failed if ‘test’ was supplied. (PR#14960)
It was unable to compute Cp tests for object of class ‘"lm"’ (it assumed class ‘"glm"’).
The ‘formula’ method for ‘sunflowerplot()’ now allows ‘xlab’ and ‘ylab’ to be set. (Reported by Gerrit Eichner.)
The ‘"POSIXt"’ and ‘"Date"’ methods for ‘hist()’ could fail on Windows where adjustments to the right-hand boundary crossed a DST transition time.
On Windows, the code in ‘as.POSIXct()’ to handle incorrectly specified ‘isdst’ fields might have resulted in ‘NA’ being returned.
‘aov()’ and ‘manova()’ gave spurious warning about singular error model in the multiresponse case.
In ‘ns()’ and ‘bs()’, specifying ‘knots = NULL’ is now equivalent to omitting it, also when ‘df’ is specified. (PR#14970)
‘sprintf()’ did not accept numbered arguments ending in zero. (PR#14975)
‘rWishart()’ could overflow the C stack and maybe crash the R process for dimensions of several hundreds or more. (Reported by Michael Braun on R-sig-mac.)
Base package vignettes (e.g. ‘vignette("Sweave")’) were not fully installed in builds of R from the tarball.
‘lchoose()’ and ‘choose()’ could overflow the C stack and crash R.
When given a 0-byte file and asked to keep source references, ‘parse()’ read input from ‘stdin()’ instead.
‘pdf(compress = TRUE)’ did not delete temporary files it created until the end of the R session. (PR#14991)
‘logLik()’ did not detect the error of applying it to a multiple-response linear model. (PR#15000)
‘file.copy(recursive = TRUE)’ did not always report ‘FALSE’ for a failure two or more directories deep.
‘qgeom()’ could return ‘-1’ for extremely small ‘q’. (PR#14967.)
‘smooth.spline()’ used ‘DUP = FALSE’ which allowed its compiled C code to change the function: this was masked by the default byte-compilation. (PR#14965.)
In Windows, the GUI preferences for foreground color were not always respected. (Reported by Benjamin Wells.)
On OS X, the Quartz versions of the bitmap devices did not respect ‘antialias = "none"’. (PR#15006.)
‘unique()’ and similar would infinite-loop if called on a vector of length > 2^29 (but reported that the vector was too long for 2^30 or more).
‘parallel::stopCluster()’ now works with MPI clusters without ‘snow’ being on the search path.
‘terms.formula()’ could exhaust the stack, and the stack check did not always catch this before the segfault. (PR#15013)
‘sort.list(method = "radix")’ could give incorrect results on certain compilers (seen with ‘clang’ on Mac OS 10.7 and ‘Xcode 4.4.1’).
‘backsolve(T, b)’ gave incorrect results when ‘nrows(b) > ncols(T)’ and ‘b’ had more than one column.
It could segfault or give nonsense if ‘k’ was specified as more than ‘ncols(T)’.
‘smooth.spline()’ did not check that a specified numeric ‘spar’ was of length 1, and gave corrupt results if it was of length 0.
Protection added to ‘do_system’. (PR#15025)
Printing of vectors with names > 1000 characters now works correctly rather than truncating. (PR#15028)
‘qr()’ for a complex matrix did not pivot the column names.
‘--with-blas='-framework vecLib'’ now also works on OS X 10.8.
‘R CMD check’ no longer fails with an error if a ‘DESCRIPTION’ file incorrectly contains a blank line. (Reported by Bill Dunlap.)
‘install.packages(type = "both")’ could call ‘chooseCRANmirror()’ twice.
‘lm.wfit()’ could segfault in R 2.15.1 if all the weights were zero. (PR#15044)
A malformed package name could cause ‘R CMD INSTALL’ to write outside the target library.
Some of the quality control functions (e.g. ‘tools::checkFF()’) were wrongly identifying the source of S4 methods in a package and so not checking them.
The default type of display by ‘browseEnv()’ when using ‘R.app’ on Mac OS X has been incorrect for a long time.
The implementation of ‘importMethodsFrom’ in a ‘NAMESPACE’ file could be confused and fail to find generics when importing from multiple packages (reported and fixed by Michael Lawrence).
The detection of the C stack direction is better protected against compiler optimization. (PR#15011.)
Long custom line types would sometimes segfault on the cairographics-based devices. (PR#15055.)
‘tools::checkPoFile()’ unprotected too early in its C code and so segfaulted from time to time.
The Fortran code underlying ‘nlminb()’ could infinite-loop if any of the input functions returned ‘NA’ or ‘NaN’. This is now an error for the gradient or Hessian, and a warning for the function (with the value replaced by ‘Inf’). (In part, PR#15052.)
The code for creating ‘coerce()’ methods could generate false notes about ambiguous selection; the notes have been suppressed for this function.
‘arima.sim()’ could give too long an output in some corner cases (in part, PR#15068).
‘anova.glm()’ with ‘test = "Rao"’ didn't work when models included an offset. (Reported by Søren Feodor Nielsen.)
‘as.data.frame.matrix()’ could return invalid data frame with no ‘row.names’ attribute for 0-row matrix. (Reported by Hervé Pagès.)
Compilation with the ‘vecLib’ or ‘Accelerate’ frameworks on OS X without using that also for LAPACK is more likely to be successful.