R 3.0.1 (codename “Good Sport”) was released last week. As mentioned earlier by David, this version improves serialization performance with big objects, improves reliability for parallel programming and fixes a few minor bugs.
Upgrading to R 3.0.1
You can download the latest version from here. Or, if you are using windows, you can upgrade to the latest version using the installr package (also available on CRAN and github). Simply run the following code:
# installing/loading the package:
if(!require(installr)) {
install.packages("installr"); require(installr)} #load / install+load installr
updateR(to_checkMD5sums = FALSE) # the use of to_checkMD5sums is because of a slight bug in the MD5 file on R 3.0.1. Soon this should get resolved and you could go back to using updateR(), install.R() or the menu upgrade system.
I try to keep the installr package updated and useful. If you have any suggestions or remarks on the package, you’re invited to leave a comment below.
If you use the global library system (as I do), you can run the following in the new version of R:
source("https://www.r-statistics.com/wp-content/uploads/2010/04/upgrading-R-on-windows.r.txt")
New.R.RunMe()
R 3.0.1 NEWS:
This is the relevant part of the NEWS file
CHANGES IN R 3.0.1:
NEW FEATURES:
o chooseCRANmirror() and chooseBioCmirror() gain an ind argument
(like setRepositories()).
o mcparallel has a new argument mc.interactive which can modify the
interactive flag in the child process. The new default is FALSE
which makes child processes non-interactive by default (this
prevents lock-ups due to children waiting for interactive input).
o scan() now warns when end-of-file occurs within a quoted string.
o count.fields() is now consistent with scan() in its handling of
newlines in quoted strings. Instead of triggering an error, this
results in the current line receiving NA as the field count, with
the next line getting the total count of the two lines.
o The default method of image() will plot axes of the class of xlim
and ylim (and hence of x and y if there is a suitable range()
method). Based on a suggestion of Michael Sumner.
o load() now has a verbose argument for debugging support, to print
the names of objects just before loading them.
o When loading a serialized object encounters a reference to a
namespace which cannot be loaded, this is replaced by a reference
to the global environment, with a warning.
o pairs() gains a line.main option for title placement.
o The remaining instances in which serialization to a raw vector
was limited to 2GB have been unlimited on a 64-bit platform, and
in most cases serialization to a vector of more than 1GB will be
substantially faster.
UTILITIES:
o R CMD config now make use of personal Makevars files under ~/.R
and a site file Makevars.site, in the same way as R CMD SHLIB and
R CMD INSTALL. This makes the utility more useful in package
configure scripts.
On Windows finding the personal files may require the environment
variable HOME set.
The old behaviour can be obtained with the new options
--no-user-files and --no-site-files.
PACKAGE INSTALLATION:
o Alternatives to the site and user customization files
Makevars.site and ~/.R/Makevars can be specified _via_ the
environment variables R_MAKEVARS_SITE and R_MAKEVARS_USER
respectively. These can be used to suppress the use of the
default files by setting an empty value (where possible) or a
non-existent path.
BUG FIXES:
o sys.source() did not report error locations when keep.source =
TRUE.
o as.POSIXct.numeric was coercing origin using the tz argument and
not "GMT" as documented (PR#14973).
o The active binding to assign fields in reference classes has been
cleaned up to reduce dependence on the class' package
environment, also fixing bug in initializing read-only fields
(inspired by a report from Hadley Wickham).
o str(d) no longer gives an error when names(d) contain illegal
multibyte strings (PR#15247).
o Profiling of built-in functions with line.profiling= TRUE did not
record the line from which they were called.
o citation(pkg) dropped the header and footer specified in the
CITATION file (PR#15257).
o Quotes were handled differently when reading the first line and
reading the rest, so read.table() misread some files that
contained quote characters (PR#15245).
o cat() with sep a character vector of length greater than one and
more than one argument was using separators inconsistently
(PR#15261).
o On Windows in R 3.0.0, savePlot() failed because of an incorrect
check on the argument count.
o unzip(list = TRUE) returned Names as a factor and not a character
vector (as documented) for the internal method. (Noticed by Sean
O'Riordain.)
o contourLines() now checks more comprehensively for conformance of
its x, y and z arguments (it was used incorrectly in package
R2G2).
o Saved graphics display lists are R version-specific. Attempting
to load workspaces containing them (or some other
version-specific objects) aborted the load in R 3.0.0 and
earlier; now it does a partial load and generates a warning
instead.
o In R 3.0.0, identify() and locator() did not record information
correctly, so replaying a graph (e.g. by copying it to another
device) would fail. (PR#15271)
o Calling file.copy() or dirname() with the invalid input "" (which
was being used in packages, despite not being a file path) could
have caused a segfault.
dirname("") is now "" rather than "." (unless it segfaulted).
o supsmu() could read/write outside its input vectors for very
short inputs (seen in package rms for n = 4).
o as.dendrogram()'s hclust method uses less memory and hence gets
considerably faster for large (n ~ 1000) clusterings, thanks to
Daniel M"ullner. (PR#15174)
o The return value when all workers failed from
parallel::mclapply(mc.presechedule = TRUE) was a list of strings
and not of error objects. (Spotted by Karl Forner and Bernd
Bischl.)
o In R 3.0.0, when help() found multiple pages with the same alias,
the HTML display of all the selections was not produced.
(PR#15282)
o splinefun(method="monoH.FC") now produces a function with first
argument named x and allows deriv=3, as documented. (PR#15273)
o summaryRprof() would only read the first chunksize lines of an
Rprof file produced with line.profiling=TRUE. By default, this is
the first 100 seconds. (PR#15288)
o lsfit() produced an incorrect error message when argument x had
more columns than rows or x had a different number of rows than
y. (Spotted by Renaud Gaujoux.)
o Binary operations on equal length vectors copied the class name
from the second operand when the first had no class name, but did
not set the object bit. (PR#15299)
o The trace() method for reference generator objects failed after
those objects became function definitions.
o write.table() did not check that factors were constructed
correctly, and so caused a segment fault when writing bad ones.
(PR#15300)
o The internal HTTP server no longer chokes on POST requests
without body. It will also pass-through other request types for
custom handlers (with the method stored in Request-Method header)
instead of failing.