NEW FEATURES:
* type.convert() (and hence by default read.table()) returns a
character vector or factor when representing a numeric input as a
double would lose accuracy. Similarly for complex inputs.
If a file contains numeric data with unrepresentable numbers of
decimal places that are intended to be read as numeric, specify
colClasses in read.table() to be "numeric".
* tools::Rdiff(useDiff = FALSE) is closer to the POSIX definition
of diff -b (as distinct from the description in the man pages of
most systems).
* New function anyNA(), a version of any(is.na(.)) which is fast
for atomic vectors, based on a proposal by Tim Hesterberg.
* arrayInd(*, useNames = TRUE) and, analogously, which(*, arr.ind =
TRUE) now make use of names(.dimnames) when available.
* is.unsorted() now also works for raw vectors.
* The "table" method for as.data.frame() (also useful as
as.data.frame.table()) now passes sep and base arguments to
provideDimnames().
* uniroot() gets new optional arguments, notably extendInt,
allowing to auto-extend the search interval when needed. The
return value has an extra component, init.it.
* switch(f, ...) now warns when f is a factor, as this typically
happens accidentally where the useR meant to pass a character
string, but f is treated as integer (as always documented).
* The parser has been modified to use less memory.
* The way the unary operators (+ - !) handle attributes is now more
consistent. If there is no coercion, all attributes (including
class) are copied from the input to the result: otherwise only
names, dims and dimnames are.
* colorRamp() and colorRampPalette() now allow non-opaque colours
and a ramp in opacity via the new argument alpha = TRUE.
(Suggested by Alberto Krone-Martins, but optionally as there are
existing uses which expect only RGB values.)
* grid.show.layout() and grid.show.viewport() get an optional vp.ex
argument.
* There is a new function find_gs_cmd() in the tools package to
locate a GhostScript executable. (This is an enhanced version of
a previously internal function there.)
* object.size() gains a format() method.
* There is a new family, "ArialMT", for the pdf() and postscript()
devices. This will only be rendered correctly on viewers which
have access to Monotype TrueType fonts (which are sometimes
requested by journals).
* The text and PDF news files, including NEWS and NEWS.2, have been
moved to the doc directory.
* combn(x, simplify = TRUE) now gives a factor result for factor
input x (previously user error).
* Added utils::fileSnapshot() and utils::changedFiles() functions
to allow snapshots and comparison of directories of files.
* make.names(names, unique=TRUE) now tries to preserve existing
names.
* New functions cospi(x), sinpi(x), and tanpi(x), for more accurate
computation of cos(pi*x), etc, both in R and the C API. Using
these gains accuracy in some cases, e.g., inside lgamma() or
besselI().
* print.table(x, zero.print = ".") now also has an effect when x is
not integer-valued.
* There is more support to explore the system's idea of time-zone
names. Sys.timezone() tries to give the current system setting
by name (and succeeds at least on Linux, OS X, Solaris and
Windows), and OlsonNames() lists the names in the system's Olson
database. Sys.timezone(location = FALSE) gives the previous
behaviour.
* Platforms with a 64-bit time_t type are allowed to handle
conversions between the "POSIXct" and "POSIXlt" classes for
date-times outside the 32-bit range (before 1902 or after 2037):
the existing workarounds are used on other platforms. (Note that
time-zone information for post-2037 is speculative at best, and
the OS services are tested for known errors and so not used on OS
X.)
Currently time_t is usually long and hence 64-bit on Unix-alike
64-bit platforms: however it several cases the time-zone database
is 32-bit. On R for Windows it is 64-bit (for both architectures
as from this version).
* The "save.defaults" option can include a value for
compression_level.
* colSums() and friends now have support for arrays and data-frame
columns with 2^31 or more elements.
* as.factor() is faster when f is an unclassed integer vector (for
example, when called from tapply()).
* fft() now works with longer inputs, from the 12 million
previously supported up to 2 billion.
* Complex svd() now uses LAPACK subroutine ZGESDD, the complex
analogue of the routine used for the real case.
* Sweave now outputs .tex files in UTF-8 if the input encoding is
declared to be UTF-8, regardless of the local encoding. The
UTF-8 encoding may now be declared using a LaTeX comment
containing the string %\SweaveUTF8 on a line by itself.
* file.copy() gains a copy.date argument.
* Printing of date-times will make use of the time-zone
abbreviation in use at the time, if known. For example, for
Paris pre-1940 this could be LMT, PMT, WET or WEST. To enable
this, the "POSIXlt" class has an optional component "zone"
recording the abbreviation for each element.
For platforms which support it, there is also a component
"gmtoff" recording the offset from GMT where known.
* (On Windows, by default on OS X and optionally elsewhere.) The
system C function strftime has been replaced by a more
comprehensive version with closer conformance to the POSIX 2008
standard.
* dnorm(x, log = FALSE) is more accurate (but somewhat slower) for
|x| > 5.
* Some versions of the tiff() device have further compression
options.
* read.table(), readLines() and scan() have a new argument to
influence the treatment of embedded nuls.
* Avoid duplicating the right hand side values in complex
assignments when possible. This reduces copying of replacement
values in expressions such as Z$a <- a0 and ans[[i]] <- tmp: some
package code has relied on there being copies.
Also, a number of other changes to reduce copying of objects; all
contributed by or based on suggestions by Michael Lawrence.
* The fast argument of KalmanLike(), KalmanRun() and
KalmanForecast() has been replaced by update, which instead of
updating mod in place, optionally returns the updated model in an
attribute "mod" of the return value.
* arima() and makeARIMA() get a new optional argument SSinit,
allowing the choice of a different *s*tate *s*pace initialization
which has been observed to be more reliable close to
non-stationarity.
* warning() has a new argument noBreaks., to simplify
post-processing of output with options(warn = 1).
* pushBack() gains an argument encoding, to support reading of
UTF-8 characters using scan(), read.table() and related functions
in a non-UTF-8 locale.
* all.equal.list() gets a new argument use.names which by default
labels differing components by names (if they match) rather than
by integer index. Saved R output in packages may need to be
updated.
* The methods for all.equal() and attr.all.equal() now have
argument check.attributes after ... so it cannot be partially nor
positionally matched (as it has been, unintentionally).
A side effect is that some previously undetected errors of
passing empty arguments (no object between commas) to all.equal()
are detected and reported.
There are explicit checks that check.attributes is logical,
tolerance is numeric and scale is NULL or numeric. This catches
some unintended positional matching.
The message for all.equal.numeric() reports a "scaled difference"
only for scale != 1.
* all.equal() now has a "POSIXt" method replacing the "POSIXct"
method.
* The "Date" and "POSIXt" methods of seq() allows by = "quarter"
for completeness (by = "3 months" always worked).
* file.path() removes any trailing separator on Windows, where they
are invalid (although sometimes accepted). This is intended to
enhance the portability of code written by those using POSIX file
systems (where a trailing / can be used to confine path matching
to directories).
* New function agrepl() which like grepl() returns a logical
vector.
* fifo() is now supported on Windows.
* sort.list(method = "radix") now allows negative integers
* Some functionality of print.ts() is now available in
.preformat.ts() for more modularity.
* mcparallel() gains an option detach = TRUE which allows execution
of code independently of the current session. It is based on a
new estranged = TRUE argument to mcfork() which forks child
processes such that they become independent of the parent
process.
* The pdf() device omits circles and text at extremely small sizes,
since some viewers were failing on such files.
* The rightmost break for the "months", "quarters" and "years"
cases of hist.POSIXlt() has been increased by a day.
* The handling of DF[i,] <- a where i is of length 0 is improved.
* hclust() gains a new method "ward.D2" which implements Ward's
method correctly. The previous "ward" method is "ward.D" now,
with the old name still working. Thanks to research and
proposals by Pierre Legendre.
* The sunspot.month dataset has been amended and updated from the
official source, whereas the sunspots and sunspot.year datasets
will remain immutable. The documentation and source links have
been updated correspondingly.
* The summary() method for "lm" fits warns if the fit is
essentially perfect, as most of the summary may be computed
inaccurately (and with platform-dependent values).
Programmers who use summary() in order to extract just a
component which will be reliable (e.g. $cov.unscaled) should wrap
their calls in suppressWarnings().
version: 0.13
date: Mon Apr 14 11:08:45 CEST 2014
changes:
- deprecate isl_int
- improved support for multi piecewise quasi-affine expressions
- allow the user to impose a bound on the number of low-level operations
- add isl_id_to_ast_expr and isl_id_to_pw_aff
- add isl_schedule_constraints
- hide internal structure of isl_vec
- remove support for piplib
2.8 --> 2.8.1
-------------
Improvements:
- The installation procedure was updated to work with recent
NumPy versions and in a wider range of environments.
LIBSVM is an integrated software for support vector classification, (C-SVC, nu-
SVC), regression (epsilon-SVR, nu-SVR) and distribution estimation (one-class
SVM). It supports multi-class classification.
Block-triangular LU-factorization was implemented to be used
on computing an initial factorization of the basis matrix.
A new version of the Schur-complement-based factorization
module was included in the package. Now it can be used along
with plain as well as with block-triangular LU-factorization.
Currently the following flags can be used to specify the type
of the basis matrix factorization (glp_bfcp.type):
GLP_BF_LUF + GLP_BF_FT LUF, Forrest-Tomlin update (default)
GLP_BF_LUF + GLP_BF_BG LUF, Schur complement, Bartels-Golub
update
GLP_BF_LUF + GLP_BF_GR LUF, Schur complement, Givens rotation
update
GLP_BF_BTF + GLP_BF_BG BTF, Schur complement, Bartels-Golub
update
GLP_BF_BTF + GLP_BF_GR BTF, Schur complement, Givens rotation
update
In case of GLP_BF_FT the update is applied to matrix U, while
in cases of GLP_BF_BG and GLP_BF_GR the update is applied to
the Schur complement.
Corresponding new options --luf and --btf were added to glpsol.
For more details please see a new edition of the GLPK reference
manual included in the distribution.
A minor bug (in reporting the mip solution status) was fixed.
A call to "iodbc-config --cflags" was added in configure.ac
to correctly detect iodbc flags.
FFTW 3.3.4
* New functions fftw_alignment_of (to check whether two arrays are
equally aligned for the purposes of applying a plan) and fftw_sprint_plan
(to output a description of plan to a string).
* Bugfix in fftw-wisdom-to-conf; thanks to Florian Oppermann for the
bug report.
* Fixed manual to work with texinfo-5.
* Increased timing interval on x86_64 to reduce timing errors.
* Default to Win32 threads, not pthreads, if both are present.
* Various build-script fixes.
CHANGES IN R 3.0.3:
NEW FEATURES:
* On Windows there is support for making .texi manuals using
texinfo 5.0 or later: the setting is in file
src/gnuwin32/MkRules.dist.
A packaging of the Perl script and modules for texinfo 5.2 has
been made available at <URL:
http://www.stats.ox.ac.uk/pub/Rtools/>.
* write.table() now handles matrices of 2^31 or more elements, for
those with large amounts of patience and disc space.
* There is a new function, La_version(), to report the version of
LAPACK in use.
* The HTML version of 'An Introduction to R' now has links to PNG
versions of the figures.
* There is some support to produce manuals in ebook formats. (See
doc/manual/Makefile. Suggested by Mauro Cavalcanti.)
* On a Unix-alike Sys.timezone() returns NA if the environment
variable TZ is unset, to distinguish it from an empty string
which on some OSes means the UTC time zone.
* The backtick may now be escaped in strings, to allow names
containing them to be constructed, e.g. `\``.
* read.table(), readLines() and scan() now warn when an embedded
nul is found in the input.
* KalmanForecast(fast = FALSE) is now the default, and the help
contains an example of how fast = TRUE can be used in this
version. (The usage will change in 3.1.0.)
* strptime() now checks the locale only when locale-specific
formats are used and caches the locale in use: this can halve the
time taken on OSes with slow system functions (e.g. OS X).
* strptime() and the format() methods for classes "POSIXct",
"POSIXlt" and "Date" recognize strings with marked encodings:
this allows, for example, UTF-8 French month names to be read on
(French) Windows.
* iconv(to = "utf8") is now accepted on all platforms (some
implementations did already, but GNU libiconv did not: however
converted strings were not marked as being in UTF-8). The
official name, "UTF-8" is still preferred.
* available.packages() is better protected against corrupt metadata
files.
* Finalizers are marked to be run at garbage collection, but run
only at a somewhat safer later time (when interrupts are
checked). This circumvents some problems with finalizers running
arbitrary code during garbage collection (the known instances
being running options() and (C-level) path.expand()
re-entrantly).
Changelog:
Maxima 5.32 change log
Changes not backward compatible:
* share function graph2d: removed in favor of plot2d
New items in core:
* function limit: limits for fresnel_c and fresnel_s
* function plot2d: adaptive plotting for parametric plots
* functions round, truncate: distribute over lists and other aggregate types
* function zn_characteristic_factors: Shanks characteristic factors
New items in share:
* new package smath: glue code for SMath Studio (notebook interface)
* new package logic: some functions for Boolean expressions
* package lapack: new function zheev (eigenvalues of Hermitian matrix)
Changes in core:
* function labels: make 'labels' an ordinary function (not argument-quoting)
* plotting: more general color specification
* plotting: rework plot options machinery
* plotting: introduce some new options
Other changes:
* Build and install mgnuplot.exe under windows
Bug fixes:
2668 Bigfloat Gamma Inaccurate for Small Inputs
2666 plotdf ignores first of [x, ...] or [y, ...] if there are no other options
2662 Maxima manual adjust
2660 lapack puts binary files in binary/binary-$foo/share/lapack/binary-$foo/lapack
2659 bug_report() directions for creating ticket need updating
2649 Correction for $matrix evaluation
2639 limit asks about internal variable
2634 zgeev does not operate on real matrices
2633 ev(integrate,numer) gives strange result
2630 inverse_jacobi_cn(-2.0, 3.0) generates an error
2629 elliptic_kc(3.0) not accurate
2628 fourier elimination on equality
2624 Erroneous limit result
2615 Numeric evaluation of inverse Jacobi elliptic functions is wrong for some inputs
2282 Problem in LISP with times function in sym
unnumbered bugs:
mailing list 2013-09-26: transcendental functions and compilation
mailing list 2007-04-02: fixes a bug in plot2d-discrete
GCL bug #40646 fixed (problem actually in Maxima)
workaround GCL bug #40154 (some float literals parsed incorrectly)
ensure that 'sign' does not make any changes to assume database.
fix Postscript plotting on windows
fix limit(-(3*n^2 + 1)*(-1)^n/sqrt(n^5 + 8*n^3 + 8),n,inf);
fix bug in ldisplay and ldisp: need to display %t label
fix: inv_mod(0,1) should return false
fix cyclic-p, gf-eval, gf-irr-p
fix gf-cminus-b, gf-prim-p
fix bug in computing (.75b0+%i*1.5b0)^(%i/4)
fix "describe" returning wrong entry with texinfo version 5
plots using the dumb gnuplot terminal were not being displayed in the terminal when the gnuplot_pipes is used
Maxima 5.31 change log
Changes in core:
* Galois fields: revision, introduction of extension fields
* inverse_jacobi_sn: improve accuracy
* Bessel functions: integral of bessel_i, bessel_j of arbitrary order
* matrix functions: revise ModeMatrix, mat_function, dispJordan, diag, JF
* signum: do not declare signum real- or integer-valued
* carg: declare carg real-valued
* parser: add L, l, W, and w to list of exponent marker characters
Changes in share:
* package stringproc: new functions readchar, md5sum, base64
Other changes:
* documentation: minor changes to make Texinfo 5 happy
* build system: changes to make Maxima build correctly on Windows
Bug fixes:
* 2622 base64 type warnings
* 2619 Function inverse_erf - error in numerical evaluation
* 2612 known_units() broken
* 2608 quad_qags(x,x) generates a lisp error
* 2607 lbfgs documentation is incomplete
* 2604 fft.dem is out of date
* 2603 fft documentation
* 2602 lu_factor regression
* 2599 cl-info error handling
* 2597 logcontract and subscripted log
* 2594 Incorrect integration of product of cosines
* 2591 risch gives Lisp error for sinh expression
* 2583 sign error for integrate(x^(8*%i-1),x);
* 2570 Make acos(cos(x)) simplify to x when on correct interval
* 2569 translate rat(1,x) and rat([1]) incorrect
* 2536 Lisp error in limit: \
* 2501 %pi/8 is definitely not an integer
* 2475 limit(x^(mu/x^g),x,inf) --> error
unnumbered bugs:
* mailing list 2013-05-22: "array-lambda error with 5.30.0"
* mailing list 2013-05-07: "defrule regression compare to version 5.29.1"
* fix rk() when the independent variable's initial value is nonzero
* fix bug in asksign
* fix wrong noun form returned for jacobi_nc(elliptic_kc(m)/n,m)
Maxima 5.30 change log
Changes not backward compatible:
* function gf_set: renamed to gf_set_data
Other changes:
* function bfzeta: extend to complex plane
* function gf_set: return a structure
* function gf_exp: allow negative exponents
* functions plot2d, plot3d: accept subscripted variables as independent variables
* package dynamics: revise function rk
* package ezunits: new functions expand_dimensional, solve_dimensional, other changes
* package linearalgebra(??): revise mat_function
* ??: revise functions jordan, JF, diag
Bug fixes:
??: limit((log(y+h)-log(y))/h,h,0,plus)
2561: limit(log(x^2),x,-20) gives 2*log(-20)
2559:
2557: abs_integrate leaks assumptions into enclosing context
2547:
2542:
2541: (FIXED??)
2540:
2531: Integration with inf
2529: limit(x^n,x,minf) gives minf for n positive
2528: imagpart etc. wrong when var declared real and complex
2527: exponent too big in limit
2517:
2509: fresnel_s incorrect for small values
2496:
2458: to_poly_solve gives a wrong solution for cos(x)=sin(3x)
2449: cabs(expr) fails when expr is 0
2442: arrayinfo gives a Lisp error
2441:
2412: Problems with integral (x/(exp(x)+1),x,0,inf)
2362:
2350:
2279:
2219: tex2ooo literals format
472: ctrl-D causes Maxima debugger to loop endlessly (clisp only)
unnumbered bugs:
mailing list circa 2013-03-30: load_pathname unset with maxima -b
mailing list 2013-02-21: gamma_incomplete_regularized(a,0) returning the wrong noun form
mailing list 2012-12-23: "let(simp) behaves different when loaded from batch file"
mailing list 2012-12-14: "Maxima won,t pull out a constant from a linear function"
bern() with zerobern:false
clean up facts introduced by sign functions
Upstream changes:
27 September 2013: statmod 1.4.18
- Update reference for permp().
- bug fix to elda() so that it returns NA for the tests instead of
giving an error when the Fisher information for the slope isNA.
- Exact roles of authors specified in DESCRIPTION file.
- All usage lines in help files wrapped at 90 characters to ensure
that code is not truncated in pdf manual.
Upstream changes:
(But no changes for 0.4.7)
Version 0.4-6 2013/10/30
Added function dasytriangular for the density of asymmetric triangular distribution as described in Mardia (1972)
In this version two functions are available for evaluating the median (medianCircular which allows for the dispersion para
meter and median.circular with only the median reported), however medianCircular is deprecated and it will be removed in t
he next releases.
Added mean.circular.c to calculate the circular mean in C language.
New algorithm for circular median. The implementation is in C language.
Added function for Hodges Lehmann estimate of the median for circular and non circular data.
Several bugs fixed.
Upstream changes:
Changes in Version 1.7-11
o Extended the license from "GPL-2" to "GPL-2 | GPL-3".
o Avoid duplications in Suggests/Imports/Depends in the package's
DESCRIPTION. Use only :: instead of ::: to access certain functions
from other namespaces.
o Added as.list() methods for yearmon/yearqtr.
o Added workaround in Ops.zoo if first argument is not a zoo series
(prompted by Josh Ulrich).
o The transform() method for zoo series now does what method for
data.frame does (instead of just calling it) in order to get
non-standard evaluation.
* New, no 2to3, Python 2 and Python 3 are supported by a common code base.
* New, gufuncs for linear algebra, enabling operations on stacked arrays.
* New, inplace fancy indexing for ufuncs with the ``.at`` method.
* New, ``partition`` function, partial sorting via selection for fast median.
* New, ``nanmean``, ``nanvar``, and ``nanstd`` functions skipping NaNs.
* New, ``full`` and ``full_like`` functions to create value initialized arrays.
* New, ``PyUFunc_RegisterLoopForDescr``, better ufunc support for user dtypes.
* Numerous performance improvements in many areas.
* Support for Python versions 2.4 and 2.5 has been dropped.
* Support for SCons has been removed.
* added Symmetric/Hermitian LDLT factorization routines with rook pivoting algorithm
* 2-by-1 CSD to be used for tall and skinny matrix with orthonormal columns (in LAPCK 3.4.0, we already integrated CSD of a full square orthogonal matrix)
* New stopping criteria for balancing.
Perl extension for Munkres' solution to classical Assignment problem
for square and rectangular matrices. This module extends the solution
of Assignment problem for square matrices to rectangular matrices by
padding zeros. Thus a rectangular matrix is converted to square matrix
by padding necessary zeros.
* The API routine glp_read_mps was changed to remove free rows.
* A bug was fixed in the API routine glp_read_lp.
* The zlib compression library used by some GLPK routines and
included in the package was downgraded from 1.2.7 to 1.2.5 (as
in GLPK 4.50) because of addressability bugs on some 64-bit
platforms.
* A bug was fixed in a routine that reads gzipped files.
* Two API routines glp_get_it_cnt and glp_set_it_cnt were added.
* All obsolete GLPK API routines (prefixed with lpx) were removed
from the package.
* A set of routines that simulate the old GLPK API (as defined
in 4.48) were added; see examples/oldapi/api/lpx.c.
* A namespace bug was fixed in the SQL table drive module.
