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as likely intended. Bump revision.
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-----------------------------------------
- 1.14 G7UM6iSk Sat Jul 30 06:44:28:46 -0500 2016
* synchronized README and Changes to updated POD
- 1.12 G7OMKBCn Sun Jul 24 20:11:12:49 -0500 2016
* added digit set 'b96' as a reordering of 'asc'
- 1.10 G7OMF3ZT Sun Jul 24 15:03:35:29 -0500 2016
* added new digit sets from Math::Base::Convert
* switched all old hex() to distinct new heX() and updated POD to
reflect
* fixed META license to match POD and resolve issue:
<HTTPS://RT.CPAN.Org/Public/Bug/Display.html?id=60122> (Thanks again
xenoterracide.)
* removed PT from VERSION to resolve issue:
<HTTPS://RT.CPAN.Org/Public/Bug/Display.html?id=60275> (Thanks
Alexandr.)
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----------------------------------------
0.69 - 02 Dec 2016, H.Merijn Brand
* Several OO fixes, more tests, more docs
0.68 - 29 Nov 2016, H.Merijn Brand
* List non-core modules/version used on very verbose in xlscat
* Option to export all sheets in a spreadsheet to CSV (UTF-8 only)
* Add OO interface
* Feature: add new spreadsheets to existing book (even of different types)
0.67 - 17 Jun 2016, H.Merijn Brand
* CPANTESTERS showed that some versions really messed op numeric/percentage
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---------------------------------------
Changes in v2.13 - Jonathan "Duke" Leto
September 2015
--------------------------
* Fix bug where as_list() did not work correctly for non-square matrices.
Reported by Elia Liitiäinen in RT #116968
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-------------------------------------
2.14 2017-02-01 Shlomif
- Hopefully fix the GPG signature.
- https://rt.cpan.org/Ticket/Display.html?id=120062
- Thanks to Pavel Mateja for the report.
2.13 2016-11-18 Shlomif
- Fix the tests on older libgmps.
- See https://rt.cpan.org/Ticket/Display.html?id=118816
- Thanks to Hugo van der Sanden for the patches.
- Refactoring of the test suite.
2.12 2016-11-09 Shlomif
- Add support for testing methods that return lists.
- Add broot, brootrem, bsqrtrem, is_perfect_power, is_perfect_square
- Thanks to Hugo van der Sanden for the patches
- https://rt.cpan.org/Ticket/Display.html?id=118677
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-----------------------------------------
2017-02-05 v1.6004 pjacklam
* Fix typos in POD.
* Update link in SUPPORT section.
* Minor improvements to the documentation (POD).
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---------------------------------------
2017-02-10 v1.999809 pjacklam
* When a new method is added to Math::BigInt or Math::BigFloat, and this new
method requires a new backend library method, die with a suitable error
message if the installed backend library does not support this new method.
The error message says that the method requires a newer version of the
backend library.
* Fix typos in Math::BigFloat and Math::BigInt.
* Add bfib() and blucas() to Math::BigInt. They return Fibonacci and Lucas
numbers, respectively. The actual computation of the numbers is done by the
backend library. Documented both methods in POD. Add test files bfib-mbi.t
and blucas-mbi.t.
* Add _fib() and _lucas() to Math::BigInt::Lib. They return Fibonacci and
Lucas numbers, respectively. Document both methods in POD. Add test files
author-lib-arithmetic-unary-_fib.t and author-lib-arithmetic-unary-_lucas.t.
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-------------------------------------
From: https://cran.r-project.org/web/packages/quantreg/ChangeLog
5.21
1. Allowed ... to be passed in plot.summary.crqs.
2. Fixed namespace bug in dynrq, and added an Edgeworth wacky AR(1) example
to dynrq.Rd.
3. Fixed rqss bug about length of residual vector
5.23
1. Added a "cluster" option for summary.rq() when using the bootstrap option
this option implements the wild gradient bootstrap method of Hagemann (2016).
See boot.rq for further details. [Needs further testing.]
2. Added a sfn method for rq models, and in the process modified somewhat
the return object for both rq.fit.sfn and rq.fit.sfnc so that it is compatible
with other rq.fit objects.
5.24
1. Reverted to the old fortran versions of srqfn.f and srqfnc.f, ie removed
Martin Maechler's C versions, in preparation for some new sparse forms of the
bootstrapping functions. Made a couple of slight changes in the return object
for these functions.
2. Fixed a sihttps://cran.r-project.org/web/packages/quantreg/ChangeLoggn error in the cluster option pointed out in an email of
Andreas on May 9 2016.
3. Added jackknife option to boot.rq for the proposal of Portnoy.
4. Adapted boot.rq and friends so that when there are multiple taus
summary.rqs reuses the same randomization for each of the taus to facilitate
joint inference with the bootstrap realizations.
5.25
1. When method = "sfn" store model$x in sparse form. Then when
bootstrapping use method = "sfn" rather than the usual "br" method.
2. When using the "cluster" option for bootstrap allow "sfn" as above.
3. When na.action = "omit" and length(fit$na.action) > 0, then omit
these values from the strata indicator "cluster". This would seem to
help bring together the survey package and quantreg as desired by
email correspondance with donald706.
5.26
1. Fixed long line per Kurt's suggestion.
2. Added some comments about method "sfn" in the man page for rq.
5.27
1. removed lines that cat'd taus from rqprocess in the khmal.R
2. fixed environment problem in nlrq, according to suggestion of
Vaidotas Zemlys-Balevicius email August 9 2016.
5.28
1. Cleaned up the fortran source a bit in accordance with Kurt's mandate
of late August 2016. There are still some offensive items mainly in crq.f
that should be dealt with, but I wasn't able to dig into this at the moment.
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Since arpack installs a dynamic library, its BUILDLINK_DEPMETHOD
shouldn't be set to "build" by default.
Bump PKGREVISION of octave for its runtime dependency change.
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Otherwise, the library refers to a nonexistent lib in /usr/lib on Darwin.
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Features a case sensitive command line interface, internal IEEE 754
calculations with 15 significant digits, calculations with real and
complex numbers, variables and user defined functions, logarithmic
and exponential functions, trigonometric and hyperbolic function
and selected mathematical constants and rounding functions.
Packaged by Carsten Larsen via PR pkg/51922
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* Linear Least Squares / Minimum Norm solution
* Symmetric-indefinite Factorization: Aasen’s tridiagonalization
* Symmetric-indefinite Factorization: New storage format for L factor in Rook Pivoting and Bunch Kaufman of LDLT
* Symmetric eigenvalue problem: Two-stage algorithm for reduction to tridiagonal form
* Improved Complex Jacobi SVD
* LAPACKE interfaces
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The following modules were renamed to simplify maintenance.
* src/prob.h RENAMED -> src/api/prob.h
* src/glpapi01.c RENAMED -> src/api/prob1.c
* src/glpapi02.c RENAMED -> src/api/prob2.c
* src/glpapi03.c RENAMED -> src/api/prob3.c
* src/glpapi04.c RENAMED -> src/api/prob4.c
* src/glpapi05.c RENAMED -> src/api/prob5.c
* src/env/tls.c
TLS (thread local storage class specifier) option was added;
see comments in tls.c for details.
* configure.ac, config.h.in
Test for TLS was added.
* src/env/tls.c
Dll support was added.
The following modules were changed to add __cdecl specifier
for functions passed to qsort (this is needed only on compiling
GLPK with MSVC to run under MS Windows).
* src/api/cpxbas.c
* src/cglib/cfg1.c
* src/cglib/gmigen.c
* src/cglib/mirgen.c
* src/misc/wclique1.c
* src/simplex/spychuzc.c
* src/glpios10.c
* src/glpios11.c
* examples/glpsol.c
* src/glpk.h, src/env/env.c
The API routine glp_version was changed to avoid initialization
of the GLPK environment. The new API routine glp_config was
added (but not documented yet).
* INSTALL
Description of the configure option '--with-zlib' was removed.
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more convenient.
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FFTW 3.3.6-pl1:
* Bugfix: FFTW 3.3.6 had the wrong libtool version number, and generated
shared libraries of the form libfftw3.so.2.6.6 instead of
libfftw3.so.3.*.
FFTW 3.3.6:
* The fftw_make_planner_thread_safe() API introduced in 3.3.5 didn't
work, and this 3.3.6 fixes it. Sorry about that.
* compilation fixes for IBM XLC
* compilation fixes for threads on Windows
* fix SIMD autodetection on amd64 when (_MSC_VER > 1500)
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FAILED (KNOWNFAIL=8, SKIP=9, errors=1, failures=1)
==========================
NumPy 1.12.0 Release Notes
==========================
This release supports Python 2.7 and 3.4 - 3.6.
Highlights
==========
The NumPy 1.12.0 release contains a large number of fixes and improvements, but
few that stand out above all others. That makes picking out the highlights
somewhat arbitrary but the following may be of particular interest or indicate
areas likely to have future consequences.
* Order of operations in ``np.einsum`` can now be optimized for large speed improvements.
* New ``signature`` argument to ``np.vectorize`` for vectorizing with core dimensions.
* The ``keepdims`` argument was added to many functions.
* New context manager for testing warnings
* Support for BLIS in numpy.distutils
* Much improved support for PyPy (not yet finished)
Dropped Support
===============
* Support for Python 2.6, 3.2, and 3.3 has been dropped.
Added Support
=============
* Support for PyPy 2.7 v5.6.0 has been added. While not complete (nditer
``updateifcopy`` is not supported yet), this is a milestone for PyPy's
C-API compatibility layer.
Build System Changes
====================
* Library order is preserved, instead of being reordered to match that of
the directories.
Deprecations
============
Assignment of ndarray object's ``data`` attribute
-------------------------------------------------
Assigning the 'data' attribute is an inherently unsafe operation as pointed
out in gh-7083. Such a capability will be removed in the future.
Unsafe int casting of the num attribute in ``linspace``
-------------------------------------------------------
``np.linspace`` now raises DeprecationWarning when num cannot be safely
interpreted as an integer.
Insufficient bit width parameter to ``binary_repr``
---------------------------------------------------
If a 'width' parameter is passed into ``binary_repr`` that is insufficient to
represent the number in base 2 (positive) or 2's complement (negative) form,
the function used to silently ignore the parameter and return a representation
using the minimal number of bits needed for the form in question. Such behavior
is now considered unsafe from a user perspective and will raise an error in the
future.
Future Changes
==============
* In 1.13 NAT will always compare False except for ``NAT != NAT``,
which will be True. In short, NAT will behave like NaN
* In 1.13 np.average will preserve subclasses, to match the behavior of most
other numpy functions such as np.mean. In particular, this means calls which
returned a scalar may return a 0-d subclass object instead.
Multiple-field manipulation of structured arrays
------------------------------------------------
In 1.13 the behavior of structured arrays involving multiple fields will change
in two ways:
First, indexing a structured array with multiple fields (eg,
``arr[['f1', 'f3']]``) will return a view into the original array in 1.13,
instead of a copy. Note the returned view will have extra padding bytes
corresponding to intervening fields in the original array, unlike the copy in
1.12, which will affect code such as ``arr[['f1', 'f3']].view(newdtype)``.
Second, for numpy versions 1.6 to 1.12 assignment between structured arrays
occurs "by field name": Fields in the destination array are set to the
identically-named field in the source array or to 0 if the source does not have
a field::
>>> a = np.array([(1,2),(3,4)], dtype=[('x', 'i4'), ('y', 'i4')])
>>> b = np.ones(2, dtype=[('z', 'i4'), ('y', 'i4'), ('x', 'i4')])
>>> b[:] = a
>>> b
array([(0, 2, 1), (0, 4, 3)],
dtype=[('z', '<i4'), ('y', '<i4'), ('x', '<i4')])
In 1.13 assignment will instead occur "by position": The Nth field of the
destination will be set to the Nth field of the source regardless of field
name. The old behavior can be obtained by using indexing to reorder the fields
before
assignment, e.g., ``b[['x', 'y']] = a[['y', 'x']]``.
Compatibility notes
===================
DeprecationWarning to error
---------------------------
* Indexing with floats raises ``IndexError``,
e.g., a[0, 0.0].
* Indexing with non-integer array_like raises ``IndexError``,
e.g., ``a['1', '2']``
* Indexing with multiple ellipsis raises ``IndexError``,
e.g., ``a[..., ...]``.
* Non-integers used as index values raise ``TypeError``,
e.g., in ``reshape``, ``take``, and specifying reduce axis.
FutureWarning to changed behavior
---------------------------------
* ``np.full`` now returns an array of the fill-value's dtype if no dtype is
given, instead of defaulting to float.
* np.average will emit a warning if the argument is a subclass of ndarray,
as the subclass will be preserved starting in 1.13. (see Future Changes)
``power`` and ``**`` raise errors for integer to negative integer powers
------------------------------------------------------------------------
The previous behavior depended on whether numpy scalar integers or numpy
integer arrays were involved.
For arrays
* Zero to negative integer powers returned least integral value.
* Both 1, -1 to negative integer powers returned correct values.
* The remaining integers returned zero when raised to negative integer powers.
For scalars
* Zero to negative integer powers returned least integral value.
* Both 1, -1 to negative integer powers returned correct values.
* The remaining integers sometimes returned zero, sometimes the
correct float depending on the integer type combination.
All of these cases now raise a ``ValueError`` except for those integer
combinations whose common type is float, for instance uint64 and int8. It was
felt that a simple rule was the best way to go rather than have special
exceptions for the integer units. If you need negative powers, use an inexact
type.
Relaxed stride checking is the default
--------------------------------------
This will have some impact on code that assumed that ``F_CONTIGUOUS`` and
``C_CONTIGUOUS`` were mutually exclusive and could be set to determine the
default order for arrays that are now both.
The ``np.percentile`` 'midpoint' interpolation method fixed for exact indices
-----------------------------------------------------------------------------
The 'midpoint' interpolator now gives the same result as 'lower' and 'higher' when
the two coincide. Previous behavior of 'lower' + 0.5 is fixed.
``keepdims`` kwarg is passed through to user-class methods
----------------------------------------------------------
numpy functions that take a ``keepdims`` kwarg now pass the value
through to the corresponding methods on ndarray sub-classes. Previously the
``keepdims`` keyword would be silently dropped. These functions now have
the following behavior:
1. If user does not provide ``keepdims``, no keyword is passed to the underlying
method.
2. Any user-provided value of ``keepdims`` is passed through as a keyword
argument to the method.
This will raise in the case where the method does not support a
``keepdims`` kwarg and the user explicitly passes in ``keepdims``.
The following functions are changed: ``sum``, ``product``,
``sometrue``, ``alltrue``, ``any``, ``all``, ``amax``, ``amin``,
``prod``, ``mean``, ``std``, ``var``, ``nanmin``, ``nanmax``,
``nansum``, ``nanprod``, ``nanmean``, ``nanmedian``, ``nanvar``,
``nanstd``
``bitwise_and`` identity changed
--------------------------------
The previous identity was 1, it is now -1. See entry in `Improvements`_ for
more explanation.
ma.median warns and returns nan when unmasked invalid values are encountered
----------------------------------------------------------------------------
Similar to unmasked median the masked median `ma.median` now emits a Runtime
warning and returns `NaN` in slices where an unmasked `NaN` is present.
Greater consistancy in ``assert_almost_equal``
----------------------------------------------
The precision check for scalars has been changed to match that for arrays. It
is now::
abs(actual - desired) < 1.5 * 10**(-decimal)
Note that this is looser than previously documented, but agrees with the
previous implementation used in ``assert_array_almost_equal``. Due to the
change in implementation some very delicate tests may fail that did not
fail before.
``NoseTester`` behaviour of warnings during testing
---------------------------------------------------
When ``raise_warnings="develop"`` is given, all uncaught warnings will now
be considered a test failure. Previously only selected ones were raised.
Warnings which are not caught or raised (mostly when in release mode)
will be shown once during the test cycle similar to the default python
settings.
``assert_warns`` and ``deprecated`` decorator more specific
-----------------------------------------------------------
The ``assert_warns`` function and context manager are now more specific
to the given warning category. This increased specificity leads to them
being handled according to the outer warning settings. This means that
no warning may be raised in cases where a wrong category warning is given
and ignored outside the context. Alternatively the increased specificity
may mean that warnings that were incorrectly ignored will now be shown
or raised. See also the new ``suppress_warnings`` context manager.
The same is true for the ``deprecated`` decorator.
C API
-----
No changes.
New Features
============
Writeable keyword argument for ``as_strided``
---------------------------------------------
``np.lib.stride_tricks.as_strided`` now has a ``writeable``
keyword argument. It can be set to False when no write operation
to the returned array is expected to avoid accidental
unpredictable writes.
``axes`` keyword argument for ``rot90``
---------------------------------------
The ``axes`` keyword argument in ``rot90`` determines the plane in which the
array is rotated. It defaults to ``axes=(0,1)`` as in the originial function.
Generalized ``flip``
--------------------
``flipud`` and ``fliplr`` reverse the elements of an array along axis=0 and
axis=1 respectively. The newly added ``flip`` function reverses the elements of
an array along any given axis.
* ``np.count_nonzero`` now has an ``axis`` parameter, allowing
non-zero counts to be generated on more than just a flattened
array object.
BLIS support in ``numpy.distutils``
-----------------------------------
Building against the BLAS implementation provided by the BLIS library is now
supported. See the ``[blis]`` section in ``site.cfg.example`` (in the root of
the numpy repo or source distribution).
Hook in ``numpy/__init__.py`` to run distribution-specific checks
-----------------------------------------------------------------
Binary distributions of numpy may need to run specific hardware checks or load
specific libraries during numpy initialization. For example, if we are
distributing numpy with a BLAS library that requires SSE2 instructions, we
would like to check the machine on which numpy is running does have SSE2 in
order to give an informative error.
Add a hook in ``numpy/__init__.py`` to import a ``numpy/_distributor_init.py``
file that will remain empty (bar a docstring) in the standard numpy source,
but that can be overwritten by people making binary distributions of numpy.
New nanfunctions ``nancumsum`` and ``nancumprod`` added
-------------------------------------------------------
Nan-functions ``nancumsum`` and ``nancumprod`` have been added to
compute ``cumsum`` and ``cumprod`` by ignoring nans.
``np.interp`` can now interpolate complex values
------------------------------------------------
``np.lib.interp(x, xp, fp)`` now allows the interpolated array ``fp``
to be complex and will interpolate at ``complex128`` precision.
New polynomial evaluation function ``polyvalfromroots`` added
-------------------------------------------------------------
The new function ``polyvalfromroots`` evaluates a polynomial at given points
from the roots of the polynomial. This is useful for higher order polynomials,
where expansion into polynomial coefficients is inaccurate at machine
precision.
New array creation function ``geomspace`` added
-----------------------------------------------
The new function ``geomspace`` generates a geometric sequence. It is similar
to ``logspace``, but with start and stop specified directly:
``geomspace(start, stop)`` behaves the same as
``logspace(log10(start), log10(stop))``.
New context manager for testing warnings
----------------------------------------
A new context manager ``suppress_warnings`` has been added to the testing
utils. This context manager is designed to help reliably test warnings.
Specifically to reliably filter/ignore warnings. Ignoring warnings
by using an "ignore" filter in Python versions before 3.4.x can quickly
result in these (or similar) warnings not being tested reliably.
The context manager allows to filter (as well as record) warnings similar
to the ``catch_warnings`` context, but allows for easier specificity.
Also printing warnings that have not been filtered or nesting the
context manager will work as expected. Additionally, it is possible
to use the context manager as a decorator which can be useful when
multiple tests give need to hide the same warning.
New masked array functions ``ma.convolve`` and ``ma.correlate`` added
---------------------------------------------------------------------
These functions wrapped the non-masked versions, but propagate through masked
values. There are two different propagation modes. The default causes masked
values to contaminate the result with masks, but the other mode only outputs
masks if there is no alternative.
New ``float_power`` ufunc
-------------------------
The new ``float_power`` ufunc is like the ``power`` function except all
computation is done in a minimum precision of float64. There was a long
discussion on the numpy mailing list of how to treat integers to negative
integer powers and a popular proposal was that the ``__pow__`` operator should
always return results of at least float64 precision. The ``float_power``
function implements that option. Note that it does not support object arrays.
``np.loadtxt`` now supports a single integer as ``usecol`` argument
-------------------------------------------------------------------
Instead of using ``usecol=(n,)`` to read the nth column of a file
it is now allowed to use ``usecol=n``. Also the error message is
more user friendly when a non-integer is passed as a column index.
Improved automated bin estimators for ``histogram``
---------------------------------------------------
Added 'doane' and 'sqrt' estimators to ``histogram`` via the ``bins``
argument. Added support for range-restricted histograms with automated
bin estimation.
``np.roll`` can now roll multiple axes at the same time
-------------------------------------------------------
The ``shift`` and ``axis`` arguments to ``roll`` are now broadcast against each
other, and each specified axis is shifted accordingly.
The ``__complex__`` method has been implemented for the ndarrays
----------------------------------------------------------------
Calling ``complex()`` on a size 1 array will now cast to a python
complex.
``pathlib.Path`` objects now supported
--------------------------------------
The standard ``np.load``, ``np.save``, ``np.loadtxt``, ``np.savez``, and similar
functions can now take ``pathlib.Path`` objects as an argument instead of a
filename or open file object.
New ``bits`` attribute for ``np.finfo``
---------------------------------------
This makes ``np.finfo`` consistent with ``np.iinfo`` which already has that
attribute.
New ``signature`` argument to ``np.vectorize``
----------------------------------------------
This argument allows for vectorizing user defined functions with core
dimensions, in the style of NumPy's
:ref:`generalized universal functions<c-api.generalized-ufuncs>`. This allows
for vectorizing a much broader class of functions. For example, an arbitrary
distance metric that combines two vectors to produce a scalar could be
vectorized with ``signature='(n),(n)->()'``. See ``np.vectorize`` for full
details.
Emit py3kwarnings for division of integer arrays
------------------------------------------------
To help people migrate their code bases from Python 2 to Python 3, the
python interpreter has a handy option -3, which issues warnings at runtime.
One of its warnings is for integer division::
$ python -3 -c "2/3"
-c:1: DeprecationWarning: classic int division
In Python 3, the new integer division semantics also apply to numpy arrays.
With this version, numpy will emit a similar warning::
$ python -3 -c "import numpy as np; np.array(2)/np.array(3)"
-c:1: DeprecationWarning: numpy: classic int division
numpy.sctypes now includes bytes on Python3 too
-----------------------------------------------
Previously, it included str (bytes) and unicode on Python2, but only str
(unicode) on Python3.
Improvements
============
``bitwise_and`` identity changed
--------------------------------
The previous identity was 1 with the result that all bits except the LSB were
masked out when the reduce method was used. The new identity is -1, which
should work properly on twos complement machines as all bits will be set to
one.
Generalized Ufuncs will now unlock the GIL
------------------------------------------
Generalized Ufuncs, including most of the linalg module, will now unlock
the Python global interpreter lock.
Caches in `np.fft` are now bounded in total size and item count
---------------------------------------------------------------
The caches in `np.fft` that speed up successive FFTs of the same length can no
longer grow without bounds. They have been replaced with LRU (least recently
used) caches that automatically evict no longer needed items if either the
memory size or item count limit has been reached.
Improved handling of zero-width string/unicode dtypes
-----------------------------------------------------
Fixed several interfaces that explicitly disallowed arrays with zero-width
string dtypes (i.e. ``dtype('S0')`` or ``dtype('U0')``, and fixed several
bugs where such dtypes were not handled properly. In particular, changed
``ndarray.__new__`` to not implicitly convert ``dtype('S0')`` to
``dtype('S1')`` (and likewise for unicode) when creating new arrays.
Integer ufuncs vectorized with AVX2
-----------------------------------
If the cpu supports it at runtime the basic integer ufuncs now use AVX2
instructions. This feature is currently only available when compiled with GCC.
Order of operations optimization in ``np.einsum``
--------------------------------------------------
``np.einsum`` now supports the ``optimize`` argument which will optimize the
order of contraction. For example, ``np.einsum`` would complete the chain dot
example ``np.einsum(‘ij,jk,kl->il’, a, b, c)`` in a single pass which would
scale like ``N^4``; however, when ``optimize=True`` ``np.einsum`` will create
an intermediate array to reduce this scaling to ``N^3`` or effectively
``np.dot(a, b).dot(c)``. Usage of intermediate tensors to reduce scaling has
been applied to the general einsum summation notation. See ``np.einsum_path``
for more details.
quicksort has been changed to an introsort
------------------------------------------
The quicksort kind of ``np.sort`` and ``np.argsort`` is now an introsort which
is regular quicksort but changing to a heapsort when not enough progress is
made. This retains the good quicksort performance while changing the worst case
runtime from ``O(N^2)`` to ``O(N*log(N))``.
``ediff1d`` improved performance and subclass handling
------------------------------------------------------
The ediff1d function uses an array instead on a flat iterator for the
subtraction. When to_begin or to_end is not None, the subtraction is performed
in place to eliminate a copy operation. A side effect is that certain
subclasses are handled better, namely astropy.Quantity, since the complete
array is created, wrapped, and then begin and end values are set, instead of
using concatenate.
Improved precision of ``ndarray.mean`` for float16 arrays
---------------------------------------------------------
The computation of the mean of float16 arrays is now carried out in float32 for
improved precision. This should be useful in packages such as Theano
where the precision of float16 is adequate and its smaller footprint is
desireable.
Changes
=======
All array-like methods are now called with keyword arguments in fromnumeric.py
------------------------------------------------------------------------------
Internally, many array-like methods in fromnumeric.py were being called with
positional arguments instead of keyword arguments as their external signatures
were doing. This caused a complication in the downstream 'pandas' library
that encountered an issue with 'numpy' compatibility. Now, all array-like
methods in this module are called with keyword arguments instead.
Operations on np.memmap objects return numpy arrays in most cases
-----------------------------------------------------------------
Previously operations on a memmap object would misleadingly return a memmap
instance even if the result was actually not memmapped. For example,
``arr + 1`` or ``arr + arr`` would return memmap instances, although no memory
from the output array is memmaped. Version 1.12 returns ordinary numpy arrays
from these operations.
Also, reduction of a memmap (e.g. ``.sum(axis=None``) now returns a numpy
scalar instead of a 0d memmap.
stacklevel of warnings increased
--------------------------------
The stacklevel for python based warnings was increased so that most warnings
will report the offending line of the user code instead of the line the
warning itself is given. Passing of stacklevel is now tested to ensure that
new warnings will receive the ``stacklevel`` argument.
This causes warnings with the "default" or "module" filter to be shown once
for every offending user code line or user module instead of only once. On
python versions before 3.4, this can cause warnings to appear that were falsely
ignored before, which may be surprising especially in test suits.
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Bugfix: FFTW 3.3.6 had the wrong libtool version number, and generated shared libraries of the form libfftw3.so.2.6.6 instead of libfftw3.so.3.*.
FFTW 3.3.6
The fftw_make_planner_thread_safe() API introduced in 3.3.5 didn't work, and this 3.3.6 fixes it. Sorry about that.
Compilation fixes for IBM XLC.
Compilation fixes for threads on Windows.
fix SIMD autodetection on amd64 when (_MSC_VER > 1500)
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MASTER_SITES= site1 \
site2
style continuation lines to be simple repeated
MASTER_SITES+= site1
MASTER_SITES+= site2
lines. As previewed on tech-pkg. With thanks to rillig for fixing pkglint
accordingly.
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Update DEPENDS
Upstream changes:
2017-01-11 v1.6003 pjacklam
* Fix syntax for required version of Math::BigInt::Lib.
* Better checking of POD coverage.
* Sync test files with Math-BigInt-1.999808.
2016-12-03 v1.6002 pjacklam
* Use ExtUtils::MakeMaker rather than Module::Install in Makefile.PL
* Don't use Devel::CheckLib. It fails on Windows even in cases where
this distribution would build just fine.
* Update BUGS file.
* Remove author information in LICENSE file.
* Inform that the TODO file is not up to date.
* Remove INSTALL file. The information is in the README file.
2016-11-23 v1.6001 pjacklam
* Sync test files with Math-BigInt-1.999801.
* Correct version number in CHANGES file.
2016-11-15 v1.6000 pjacklam
* Sync test files with Math-BigInt-1.999800.
* Update bundled Devel::CheckLib from v1.03 to v1.07.
* Math::BigInt::GMP is now a subclass of Math::BigInt::Lib, so remove pure
Perl methods from Math::BigInt::GMP that are implemented in the superclass
Math::BigInt::Lib. The methods removed are _digit(), _num(), _nok(), and
_log_int(). The version of _log_int() implemented in Math::BigInt::GMP was
buggy anyway.
* Fix _check() so it doesn't give a "use of uninitialized value" warning if
given an undefined "object".
* Trim whitespace in all files.
* Better use of the functionality in Test::More in t/bigintg.t.
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Update DEPENDS
Upstream changes:
2017-01-11 v1.3003 pjacklam
* Fix syntax for required version of Math::BigInt::Lib.
* Better checking of POD coverage.
* Sync test files with Math-BigInt-1.999808.
* _from_hex() now accepts input without a "0x" prefix.
* _from_bin() is more now efficient as it utilises the fact that
Math::Pari::_hex_cvt() assumes the input is binary if the strings is
prefixed by "0b".
* Implement _to_hex(), _to_oct(), and _to_bin() for conversion to hexadecimal,
octal, and binary without prefix.
* Fix _nok() to work around a bug in Math::Pari::binomial(). It doesn't
correctly handle cases where both n and k are very large.
* Correct a few cases where non-OO syntax was used, e.g., "$x = _one();"
should be "$x = $class -> _one();".
* _inc() and _dec() now uses post-increment and post-decrement, respectively,
rather than adding or subtracting one.
* In test file t/01load.t, display the PARI library version number.
2016-12-03 v1.3002 pjacklam
* Use ExtUtils::MakeMaker rather than Module::Install in Makefile.PL
* Remove author information in LICENSE file.
2016-11-23 v1.3001 pjacklam
* Sync test files with Math-BigInt-1.999801. Add t/mbi_rand.t, t/mbimbf.t,
and t/mbimbf.inc since these are included in the test suite for the other
backend libraries (GMP and Pari).
* Add _nok() by using Pari's binomial() function.
* Add _lcm() by using Pari's lcm() function.
2016-11-15 v1.3000 pjacklam
* Sync test files with Math-BigInt-1.999800.
* Math::BigInt::Pari is now a subclass of Math::BigInt::Lib, so remove pure
Perl methods from Math::BigInt::Pari that are implemented in the superclass
Math::BigInt::Lib. The methods removed are _modinv() and _log_int(). The
version of _log_int() implemented in Math::BigInt::GMP was buggy anyway.
* Add methods _str() and _set(), and correct _num() method.
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Upstream changes:
2017-01-11 v1.999808 pjacklam
* In Math::BigInt and Math::BigFloat, add methods bdfac() for double
factorial. Add tests for this method.
* In Math::BigInt and Math::BigFloat, add methods to_hex(), to_oct(), and
to_bin() for hexadecimal, octal, and binary string output without prefix.
Even for Math::BigFloat there is still only support for integer output. Add
tests for these methods.
* Add test for as_oct() corresponding to the old tests for as_hex() and
as_bin().
* In Math::BigInt::Lib, add method _dfac() for double factorial. Add
corresponding tests.
* In Math::BigInt::Lib, fix bug in overloaded "int".
* In Math::BigInt::Lib, implement much faster versions of _from_hex(),
_from_oct(), and _from_bin().
* In Makefile.PL, improve the wording in the message displayed if some of
the installed backend libraries are not a subclass of Math::BigInt::Lib (and
hence will not provide
* Fix minor bugs in some of the author library test files (t/author-lib*.t).
* Allow leading and trailing whitespace in the input to from_hex(),
from_oct(), and from_bin(). Add tests to verify. This is a regressions
(CPAN RT #119805).
2016-12-23 v1.999807 pjacklam
* Add a message to Makefile.PL recommending upgrade if old libraries are
installed. This message is more or less equivalent to the one appearing in
Math-BigInt up until v1.997.
* Improve the documentation (POD) in Math::BigInt::Lib.
* Speed up _sqrt() and _root() in Math::BigInt::Lib.
* Remove checking for exception cases (cases that would return +Inf, -Inf, or
NaN) in Math::BigInt::Lib. It has been documented for a long time that such
checking should be done by the caller.
* Add library methods _to_bin(), _to_oct(), _to_hex(), which are equivalent to
the _as_bin(), _as_oct(), and _as_hex() methods respectively, except that
the _to_*() methods don't use a prefix in the output. This removes the need
for the frequent removal of the various prefixes. Now each _as_*() method
calls the equivalent _to_*() method, adds a prefix, and returns the output.
The _to_*() methods are faster than the equivalent _as_*() methods were.
* Add author test files for the methods _to_bin(), _to_oct(), and _to_hex().
* Add library method _to_bytes(). The method _as_bytes() would have been
called _to_bytes() if I had thought of it earlier. The method _as_bytes() is
now just an alias to _to_bytes(). The _to_bytes() method also fixes a bug
that was present in the _as_bytes() method. (CPAN RT #119346).
* Add author test files for the method _to_bytes().
* Add more tests for library methods _inc() and _dec(). When trying to bring
the Math::BigInt::BitVect library back to life I realized that the test
suite didn't catch certain errors in _inc() and _dec().
* Die if trying to use as_bytes() or from_bytes() with a backend library that
doesn't support the corresponding library methods.
* Correct minor errors in the output messages in the test files.
* Improve/correct various comments in the source code.
* More diagnostic output is displayed by the author test files if the
AUTHOR_DEBUGGING environment variable is set.
2016-12-13 v1.999806 pjacklam
* Add more logic to Makefile.PL regarding INSTALLDIRS (CPAN RT #119199
and #119225).
* In the TODO file, remove stuff that has been implemented.
2016-12-11 v1.999805 pjacklam
* Fix Makefile.PL so that this module installs over the core version.
* Add more tests for _nok() (binomial coefficient "n over k"). These new tests
revealed some problems with some of the backend libraries when _nok() was
given very large arguments.
* Remove t/Math/BigFloat/#Subclass.pm#, which is an Emacs temporary file
included by accident.
2016-12-07 v1.999804 pjacklam
* Implement as_bytes(), as requested (CPAN RT 119096). Also implement the
inverse conversion from_bytes(). This applies to Math::BigInt only. (Alas,
these methods will be inherited from Math::BigInt into Math::BigFloat,
Math::BigRat etc. where the methods won't work. Fixing this class
relationship is an issue of its own.)
* Implement _as_bytes() and _from_bytes() in Math::BigInt::Lib. Preferably,
the various backend libraries will implement faster versions of their
own. Add author test files for testing these methods thorougly.
* Fix from_hex(), from_oct(), and from_bin().
- When called as instance methods, the new value should be assigned to the
invocand unless the invocand is read-only (a constant).
- When called as instance methods, the assigned value was incorrect, if the
invocand was inf or NaN.
- Add tests to t/from_hex-mbf.t, t/from_oct-mbf.t, and t/from_bin-mbf.t
to confirm the fix.
- Add new test files t/from_hex-mbi.t, t/from_oct-mbi.t, and
t/from_bin-mbi.t for better testing of these methods with Math::BigInt.
* Correct typo in Math/BigInt/Lib.pm (otherise -> otherwise) (CPAN RT 118829).
* Add POD coverage testing of Math::BigInt::Lib to t/03podcov.t.
2016-12-03 v1.999803 pjacklam
* Remove BENCHMARK file. The information was obsolete.
* Use ExtUtils::MakeMaker rather than Module::Install in Makefile.PL
* Reorder CHANGES file (this file) so the newest entries appear at the top.
* Fix error in test information text in various author test files.
* Remove author information in LICENSE file.
* Inform that the TODO file is not up to date.
2016-11-28 v1.999802 pjacklam
* When bzero(), bone(), binf(), and bnan() are used as constructors, don't
check whether the class allows the object to be modified. A constructor
isn't modifying any existing object. This applies to both Math::BigInt and
Math::BigFloat.
* Improve bgcd() and blcm(). This applies to both Math::BigInt and
Math::BigFloat.
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will likely fix it so the previous target works - it is mentioned in their
documentation. (scipy issue #6498)
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## [2.7.1] 2017-01-03
### Fixed
- Fixed regression where a CSV's encoding was being ignored [372](https://github.com/roo-rb/roo/pull/372)
## [2.7.0] 2016-12-31
### Fixed
- Added rack server for testing Roo's download capabilities [365](https://github.com/roo-rb/roo/pull/365)
- Refactored tests into different formats [365](https://github.com/roo-rb/roo/pull/365)
- Fixed OpenOffice for JRuby [362](https://github.com/roo-rb/roo/pull/362)
- Added '0.000000' => '%.6f' number format [354](https://github.com/roo-rb/roo/pull/354)
- Add additional formula cell types for to_csv [367][https://github.com/roo-rb/roo/pull/367]
### Added
- Extracted formatters from Roo::Base#to_* methods [364](https://github.com/roo-rb/roo/pull/364)
## [2.6.0] 2016-12-28
### Fixed
- Fixed error if sheet name starts with a slash [348](https://github.com/roo-rb/roo/pull/348)
- Fixed loading to support files on ftp [355](https://github.com/roo-rb/roo/pull/355)
- Fixed Ruby 2.4.0 deprecation warnings [356](https://github.com/roo-rb/roo/pull/356)
- properly return date as string [359](https://github.com/roo-rb/roo/pull/359)
### Added
- Cell values can be set in a CSV [350](https://github.com/roo-rb/roo/pull/350/)
- Raise an error Roo::Excelx::Extractor document is missing [358](https://github.com/roo-rb/roo/pull/358/)
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it)
Discussed with <roy>
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Change bl3 to pdflib-lite to fix binary package distribution.
Grace-5.1.25
- killing set data from GUI and scripts now clears set comments
- undid "always overwrite set comments when reading data in" from 5.1.24
- fixed Fourier transform DC-term amplitude (rep. #630)
- newer versions of "make" tried to regenerate documentation (rep. #2240)
Grace-5.1.24
- fixed detection of dynamic loading libraries (rep. # 2238)
- install PDF docs instead of the DVI ones
- added cephes/COPYING (from Debian)
- a workaround for broken input of non-ASCII text under UTF8 locales
- always overwrite set comments when reading data in
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==========================
NumPy 1.11.3 Release Notes
==========================
Numpy 1.11.3 fixes a bug that leads to file corruption when very large files
opened in append mode are used in ``ndarray.tofile``. It supports Python
versions 2.6 - 2.7 and 3.2 - 3.5. Wheels for Linux, Windows, and OS X can be
found on PyPI.
Contributors to maintenance/1.11.3
==================================
A total of 2 people contributed to this release. People with a "+" by their
names contributed a patch for the first time.
- Charles Harris
- Pavel Potocek +
Pull Requests Merged
====================
- `#8341 <https://github.com/numpy/numpy/pull/8341>`__: BUG: Fix ndarray.tofile large file corruption in append mode.
- `#8346 <https://github.com/numpy/numpy/pull/8346>`__: TST: Fix tests in PR #8341 for NumPy 1.11.x
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library name in devel/ncurses changed.
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Upstream changes:
gtools 3.5.0 - 2015-04-28
-------------------------
New Functions:
- New roman2int() functon to convert roman numerals to integers
without the range restriction of utils::as.roman().
- New asc() and chr() functions to convert between ASCII codes and
characters. (Based on the 'Data Debrief' blog entry for 2011-03-09
at http://datadebrief.blogspot.com/2011/03/ascii-code-table-in-r.html).
- New unByteCode() and unByteCodeAssign() functions to convert a
byte-code functon to an interpeted code function.
- New assignEdgewise() function for making assignments into locked
environments. (Used by unByteCodeAssign().)
Enhacements:
- mixedsort() and mixedorder() now have arguments 'decreasing',
'na.last', and 'blank.last' arguments to control sort ordering.
- mixedsort() and mixedirdeR() now support Roman numerals via the
arguments 'numeric.type', and 'roman.case'. (Request by David
Winsemius, suggested code changes by Henrik Bengtsson.)
- speed up mixedorder() (and hence mixedsort()) by moving
suppressWarnings() outside of lapply loops. (Suggestion by Henrik
Bengtsson.)
- The 'q' argument to quantcut() now accept an integer
indicating the number of equally spaced quantile groups to
create. (Suggestion and patch submitted by Ryan C. Thompson.)
Bug fixes:
- Removed stray browser() call in smartbind().
- ddirichlet(x, alpha) was incorrectly returning NA when for any i,
x[i]=0 and alpha[i]=1. (Bug report by John Nolan.)
Other changes:
- Correct typographical errors in package description.
gtools 3.4.2 - 2015-04-06
-------------------------
New features:
- New function loadedPackages() to display name, version, and path of
loaded packages (package namespaces).
- New function: na.replace() to replace missing values within a
vector with a specified value.`
Bug fixes:
- Modify keywords() to work properly in R 3.4.X and later.
gtools 3.4.1 - 2014-05-27
-------------------------
Bug fixes:
- smartbind() now converts all non-atomic type columns (except factor)
to type character instead of generating an opaque error message.
Other changes:
- the argument to ASCIIfy() is now named 'x' instead of 'string'.
- minor formatting changes to ASCIIfy() man page.
gtools 3.4.0 - 2014-04-14
-------------------------
New features:
- New ASCIIfy() function to converts character vectors to ASCII
representation by escaping them as \x00 or \u0000 codes.
Contributed by Arni Magnusson.
gtools 3.3.1 - 2014-03-01
-------------------------
Bug fixes:
- 'mixedorder' (and hence 'mixedsort') not properly handling
single-character strings between numbers, so that '1a2' was being
handled as a single string rather than being properly handled as
c('1', 'a', '2').
gtools 3.3.0 - 2014-02-11
-------------------------
New features:
- Add the getDependencies() function to return a list of dependencies
for the specified package(s). Includes arguments to control whether
these dependencies should be constructed using information from
locally installed packages ('installed', default is TRUE), avilable
CRAN packages ('available', default is TRUE) and whether to include
base ('base', default=FALSE) and recommended ('recommended', default
is FALSE) packages.
Bug fixes:
- binsearch() was returning the wrong endpoint & value when the found
value was at the upper endpoint.
gtools 3.2.1 - 2014-01-13
-------------------------
Bug fixes:
- Resolve circular dependency with gdata
gtools 3.2.0 - 2014-01-11
-------------------------
New features:
- The keywords() function now accepts a function or function name as
an argument and will return the list of keywords associated with the
named function.
- New function stars.pval() which will generate p-value significance
symbols ('***', '**', etc.)
Bug fixes:
- R/mixedsort.R: mixedorder() was failing to correctly handle numbers
including decimals due to a faulty regular expression.
Other changes:
- capture() and sprint() are now defunct.
gtools 3.1.1 - 2013-11-06
-------------------------
Bug fixes:
- Fix problem with mixedorder/mixedsort when there is zero or one
elements in the argument vector.
gtools 3.1.0 - 2013-09-22
-------------------------
Major changes:
- The function 'addLast()' (deprecated since gtools 3.0.0) is no
longer available, and has been marked defunct.
Bug fixes:
- Modified 'mixedorder()' to use Use 'suppressWarnings() instead of
'options(warn=-1)'. This will avoid egregious warning messages when
called from within a nested environment, such as when run from
within 'knitr'
gtools 3.0.0 - 2013-07-06
-------------------------
Major changes:
- The function 'addLast()' has been deprecated because it directly
manipulates the global environment, which is expressly prohibited by
the CRAN policies.
- A new function, 'lastAdd()' has been created to replace 'addLast()'.
The name has been changed because the two functions require
different syntax. 'addLast()' was used like this:
byeWorld <- function() cat("\nGoodbye World!\n")
addLast(byeWorld)
The new 'lastAdd()' function is used like this:
byeWorld <- function() cat("\nGoodbye World!\n")
.Last <- lastAdd(byeWorld)
Bug fixes:
- Update checkRVersion() to work with R version 3.0.0 and later.
Other changes:
- Remove cross-reference to (obsolete?) moc package
- The function 'assert()' (deprecated since gtools 2.5.0) is no longer
available and has been marked defunct.
gtools 2.7.1 - 2013-03-17
-------------------------
Bug fixes:
- smartbind() was not properly handling factor columns when the first
data frame did not include the relevant column.
gtools 2.7.0 - 2012-06-19
-------------------------
New features:
- smartbind() has a new 'sep' argument to allow specification of the
character(s) used to separate components of constructed column names
- smartbind() has a new 'verbose' argument to provide details on how
coluumns are being processed
Bug fixes:
- smartbind() has been enhanced to improve handling of factor and
ordered factor columns.
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* What is new in gsl-2.3:
** bug fix in documentation for gsl_linalg_LU_refine
(bug #49728, Joey De Pauw)
** added gsl_multifit_linear_tsvd and gsl_multifit_wlinear_tsvd
to give user more control over cutoff for truncated SVD
** added routines for Generalized Cross Validation for
regularized linear least squares
** improved rstat example program and added documentation for
gsl_rstat_sd_mean (Jonathan Leto)
** added function gsl_multifit_linear_rank
** bug fix in nonlinear least squares when using data weights with
finite-difference Jacobian
** add 2D subspace method for large systems (multilarge_nlinear)
** bug fix in gsl_ran_beta for small parameters
(bug #47646, Yu Liu)
** bug fix in gsl_complex_tan for negative imaginary arguments
(bug #47347, Yu Liu)
** doc bug fix: value of golden ratio
** fixed scaling issue in 2D subspace nonlinear least squares
method
** optimize dogleg methods to calculate Gauss-Newton point
only when needed
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Thanks, jperkin!
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