Mailman 3 February 2017 - SciPy-Dev

FFTLog
by Dieter Werthmüller 17 Apr '17

17 Apr '17

Dear SciPy-devs, I recently had the need for a logarithmic FFT routine, and did a quick f2py around Andrew Hamilton's FFTLog: http://casa.colorado.edu/~ajsh/FFTLog I put my f2py-setup and my pyf-file up on GitHub: https://github.com/prisae/fftlog I thought it might be a useful addition to the SciPy FFTPack. Specifically as three out of the five fortran-files, of which FFTLog consists, are already in scipy/fftpack. I have never contributed to SciPy and therefore do not know how much work it would involve to get it into SciPy. However, I thought I ask. If there is interest I expect that it would not take long for an experienced person, as it is a fairly small addition. Or someone could point me to the right direction on what to do to get it in. I append some comments on the involved files of FFTLog and some comments regarding their licenses. I believe it is compatible with SciPy. Thanks for all your good work! Dieter Files and Licenses/Permissions ------------------------------ Files of FFTLog [1] cdgamma.f [2] drfftb.f [3] drfftf.f [4] drffti.f [5] fftlog.f (plus a test routine, fftlogtest.f) -- [1] -- The original FFTLog states about this file: FFTLog uses [...] and a modified version of the complex Gamma function from the gamerf package at momonga.t.u-tokyo.ac.jp/~ooura/gamerf.html. The original gamerf copyright statement states: Copyright(C) 1996 Takuya OOURA (email: ooura(a)mmm.t.u-tokyo.ac.jp). You may use, copy, modify this code for any purpose and without fee. You may distribute this ORIGINAL package. Permission to distribute the modified gamma function code with the FFTLog package has been granted (email from Takuya Ooura to Andrew Hamilton dated 16 March 1999). Hence I think it is compatible with SciPy, or am I wrong? Alternatively it could be replaced with scipy.special.loggamma, I think, but I do not know if it is possible to mix Fortran and Python code with f2py. -- [2], [3], [4] -- They are from the NCAR suite of FFT routines (Swarztrauber 1979). As far as I can see they are already in SciPy, in scipy/fftpack/src/dfftpack/ (dfftb.f, dfftf.f, and dffti.f). So there is definitely not a licensing problem here. -- [5] -- This is the actual FFTLog routine from Hamilton. I asked Hamilton for permission before publishing his source code at github.com/prisae/fftlog. His email response was: -- start email from 28/09/2016 -- Dieter, You are welcome to use fftlog in any way you choose. Please note the credits commented in the code: c FFTLog uses the NCAR suite of FFT routines, c and a modified version of the complex Gamma function c from the gamerf package at c http://momonga.t.u-tokyo.ac.jp/~ooura/gamerf.html . c The original gamerf copyright statement states: c Copyright(C) 1996 Takuya OOURA (email: ooura(a)mmm.t.u-tokyo.ac.jp). c You may use, copy, modify this code for any purpose and c without fee. You may distribute this ORIGINAL package. c c Permission to distribute the modified gamma function code c with the FFTLog package has been granted c (email from Takuya Ooura to Andrew Hamilton dated 16 March 1999). Andrew -- end email from 28/09/2016 --

5 22

Drop i386 part of OSX wheel build?
by Matthew Brett 08 Mar '17

08 Mar '17

Hi, We're running into travis-ci time limits when building OSX wheels: https://travis-ci.org/MacPython/scipy-wheels/builds/204105101 The main reason for this is that, for OSX, we are building twice, first for i386, then for x86_64, and then combining these builds into a 'fat' binary to be compatible with either architecture. The builds take a long time, hence the timeout. I believe that the i386 architecture on OSX is pretty much unused now. For example, it looks like south of 0.5% of CPUs running OSX cannot do 64-bit: https://www.adium.im/sparkle/#cpu64bit I propose that we drop the i386 part of the scipy build, but continue to distribute apparently dual-arch wheels (architecture 'intel') so that the wheel installs into the Python.org and System Python builds [1]. This has the added advantage of making the wheel build process a lot simpler. Thoughts? Best, Matthew [1] https://bitbucket.org/pygame/pygame/issues/300/os-x-wheels-dmg-and-zip-buil…

5 4

GSoC'17 candidate - Interested in Nose to Pytest Migration.
by Karan Desai 02 Mar '17

02 Mar '17

Hello developers, I am Karan Desai, a third year undergraduate from Indian Institute of technology, Roorkee. I went through the GSoC Ideas page on Scipy github wiki, and I think that I'll be most comfortable with the idea "Make the SciPy test suite work with pytest". I believe that I match the required prerequisites, and I'll present some facts to support my belief. 1. I have completed my GSoC'16 with TARDIS. Their integration tests took more than a day to execute, hence Travis was not fit for that. I developed an Integration Testing Framework inpytest to schedule their execution on a local server when a commit occurs on Github. Also, it generated an automated HTML Report with comparison plots between various astronomical quantities in order to debug failed tests. 2. I have contributed to joblib, a multiprocessing library in Python. I have helped with the migration of joblib testing framework from nose to pytest. Including review cycles, it took about 25 days to do so. Scipy and numpy will be bigger than that. With sufficient knowledge of how pytest flavored tests are designed, and some important differences between nose and pytest styles, I think I'll be very much comfortable with this project.I saw recent mail threads in the archive and I was happily surprised to see a few familiar names, Gael Varoquaux and Olivier Grisel might have remembered my contributions in Joblib back in December… Relevant Links: 1. Github Profile:https://www.github.com/karandesai-96/ 2. Issues and Pull Request thread about Pytest Migration: https://www.github.com/joblib/joblib/issues/411 3. GSoC 2016 project: https://summerofcode.withgoogle.com/archive/2016/projects/4796129849901056/ I will be happy to hear from the community. Thanks. Karan Desai,Department of Electrical Engineering, IIT Roorkee.

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Interested in contributing BILP solver and interior-point method for linprog; SciPy-dev search down?
by Matt Haberland 02 Mar '17

02 Mar '17

Hi all, I'm new to the list. 1. I am interested in contributing a binary integer linear programming solver now, and possibly a more general MILP solver in the future. Existing solutions (lp_solve, cvxopt, PuLp w/ GLPK) are not as easy to use as they should be, at least for Windows users. As I was writing the BILP code, I found a bug in linprog in which it would report success, yet the bounds were not at all respected by the returned solution. I will report that bug, but in the meantime I started writing an interior-point linear programming solver, which I'd be interested in contributing as well. Please let me know if you'd be interested in me contributing: * A binary integer linear programming solver similar to Matlab's old bintprog, but with options for both Balas' method and bintprog's branch and bound algorithm * A primal-dual interior-point method for linprog 2. I was trying to search the archives to see if there is already discussion about integer programming or additional methods for linprog, but it seems that the server: http://dir.gmane.org/ isn't working? I checked: http://www.isitdownrightnow.com/dir.gmane.org.html and it's down for everyone. I just thought I should report that. Thanks! Matt -- Matt Haberland Assistant Adjunct Professor in the Program in Computing Department of Mathematics 7620E Math Sciences Building, UCLA

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GSoC17 - Question about candidacy
by Євгеній Гизила 01 Mar '17

01 Mar '17

Dear developers I'm Yevhenii Hyzyla and I'm an undergraduate student from Taras Shevchenko National University of Kyiv in Ukraine. I don't have any experience of open source contributing, but I want to start this way from SciPy. I have good knowledge of Python (some small pet project) and C on sufficient level (university course). Also, I have an experience of working with SciPy library and SciPy stack in general. After seeing the wiki page with ideas and I think I could develop scipy.diff, because I have good knowledge about differential and how to calculate them using numerical or symbolic methods. (I had courses at university from Mathematical analysis and Numerical analysis). And my hobbies are Math and Python. 1) If I make some patches to scipy, what chance of being accepted will be? 2) How many students applies to scipy each year? Could I get feedback about my candidacy from developers? Thank for reading! Yevhenii

2 1

ANN: SfePy 2017.1
by Robert Cimrman 28 Feb '17

28 Feb '17

I am pleased to announce release 2017.1 of SfePy. Description ----------- SfePy (simple finite elements in Python) is a software for solving systems of coupled partial differential equations by the finite element method or by the isogeometric analysis (limited support). It is distributed under the new BSD license. Home page: http://sfepy.org Mailing list: http://groups.google.com/group/sfepy-devel Git (source) repository, issue tracker: https://github.com/sfepy/sfepy Highlights of this release -------------------------- - spline-box parametrization of an arbitrary field - conda-forge recipe (thanks to Daniel Wheeler) - fixes for Python 3.6 For full release notes see http://docs.sfepy.org/doc/release_notes.html#id1 (rather long and technical). Cheers, Robert Cimrman --- Contributors to this release in alphabetical order: Siwei Chen Robert Cimrman Jan Heczko Vladimir Lukes Matyas Novak

1 0

ANN: Scipy 0.19.0 release candidate 2
by Evgeni Burovski 24 Feb '17

24 Feb '17

Hi, I'm pleased to announce the availability of the second release candidate for Scipy 0.19.0. It contains contributions from 121 people over the course of seven months. The main difference to the rc1 is several Windows specific issues that were fixed (special thanks to Christoph Gohlke). Please try this release and report any issues on Github tracker, https://github.com/scipy/scipy, or scipy-dev mailing list. Source tarballs and release notes are available from Github releases, https://github.com/scipy/scipy/releases/tag/v0.19.0rc2 We appreciate if you could both run self-tests on your hardware, and test your code against this release. If no issues are reported, this will graduate to Scipy 0.19.0 final on the 9th March 2017. Thanks to everyone who contributed to this release! Cheers, Evgeni -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA256 ========================== SciPy 0.19.0 Release Notes ========================== .. note:: Scipy 0.19.0 is not released yet! .. contents:: SciPy 0.19.0 is the culmination of X months of hard work. It contains many new features, numerous bug-fixes, improved test coverage and better documentation. There have been a number of deprecations and API changes in this release, which are documented below. All users are encouraged to upgrade to this release, as there are a large number of bug-fixes and optimizations. Moreover, our development attention will now shift to bug-fix releases on the 0.19.x branch, and on adding new features on the master branch. This release requires Python 2.7 or 3.4-3.6 and NumPy 1.8.2 or greater. Highlights of this release include: - - A unified foreign function interface layer, `scipy.LowLevelCallable`. - - Cython API for scalar, typed versions of the universal functions from the `scipy.special` module, via `cimport scipy.special.cython_special`. New features ============ Foreign function interface improvements - --------------------------------------- `scipy.LowLevelCallable` provides a new unified interface for wrapping low-level compiled callback functions in the Python space. It supports Cython imported "api" functions, ctypes function pointers, CFFI function pointers, ``PyCapsules``, Numba jitted functions and more. See `gh-6509 <https://github.com/scipy/scipy/pull/6509>`_ for details. `scipy.linalg` improvements - --------------------------- The function `scipy.linalg.solve` obtained two more keywords ``assume_a`` and ``transposed``. The underlying LAPACK routines are replaced with "expert" versions and now can also be used to solve symmetric, hermitian and positive definite coefficient matrices. Moreover, ill-conditioned matrices now cause a warning to be emitted with the estimated condition number information. Old ``sym_pos`` keyword is kept for backwards compatibility reasons however it is identical to using ``assume_a='pos'``. Moreover, the ``debug`` keyword, which had no function but only printing the ``overwrite_<a, b>`` values, is deprecated. The function `scipy.linalg.matrix_balance` was added to perform the so-called matrix balancing using the LAPACK xGEBAL routine family. This can be used to approximately equate the row and column norms through diagonal similarity transformations. The functions `scipy.linalg.solve_continuous_are` and `scipy.linalg.solve_discrete_are` have numerically more stable algorithms. These functions can also solve generalized algebraic matrix Riccati equations. Moreover, both gained a ``balanced`` keyword to turn balancing on and off. `scipy.spatial` improvements - ---------------------------- `scipy.spatial.SphericalVoronoi.sort_vertices_of_regions` has been re-written in Cython to improve performance. `scipy.spatial.SphericalVoronoi` can handle > 200 k points (at least 10 million) and has improved performance. The function `scipy.spatial.distance.directed_hausdorff` was added to calculate the directed Hausdorff distance. ``count_neighbors`` method of `scipy.spatial.cKDTree` gained an ability to perform weighted pair counting via the new keywords ``weights`` and ``cumulative``. See `gh-5647 <https://github.com/scipy/scipy/pull/5647>`_ for details. `scipy.spatial.distance.pdist` and `scipy.spatial.distance.cdist` now support non-double custom metrics. `scipy.ndimage` improvements - ---------------------------- The callback function C API supports PyCapsules in Python 2.7 Multidimensional filters now allow having different extrapolation modes for different axes. `scipy.optimize` improvements - ----------------------------- The `scipy.optimize.basinhopping` global minimizer obtained a new keyword, `seed`, which can be used to seed the random number generator and obtain repeatable minimizations. The keyword `sigma` in `scipy.optimize.curve_fit` was overloaded to also accept the covariance matrix of errors in the data. `scipy.signal` improvements - --------------------------- The function `scipy.signal.correlate` and `scipy.signal.convolve` have a new optional parameter `method`. The default value of `auto` estimates the fastest of two computation methods, the direct approach and the Fourier transform approach. A new function has been added to choose the convolution/correlation method, `scipy.signal.choose_conv_method` which may be appropriate if convolutions or correlations are performed on many arrays of the same size. New functions have been added to calculate complex short time fourier transforms of an input signal, and to invert the transform to recover the original signal: `scipy.signal.stft` and `scipy.signal.istft`. This implementation also fixes the previously incorrect ouput of `scipy.signal.spectrogram` when complex output data were requested. The function `scipy.signal.sosfreqz` was added to compute the frequency response from second-order sections. The function `scipy.signal.unit_impulse` was added to conveniently generate an impulse function. The function `scipy.signal.iirnotch` was added to design second-order IIR notch filters that can be used to remove a frequency component from a signal. The dual function `scipy.signal.iirpeak` was added to compute the coefficients of a second-order IIR peak (resonant) filter. The function `scipy.signal.minimum_phase` was added to convert linear-phase FIR filters to minimum phase. The functions `scipy.signal.upfirdn` and `scipy.signal.resample_poly` are now substantially faster when operating on some n-dimensional arrays when n > 1. The largest reduction in computation time is realized in cases where the size of the array is small (<1k samples or so) along the axis to be filtered. `scipy.fftpack` improvements - ---------------------------- Fast Fourier transform routines now accept `np.float16` inputs and upcast them to `np.float32`. Previously, they would raise an error. `scipy.cluster` improvements - ---------------------------- Methods ``"centroid"`` and ``"median"`` of `scipy.cluster.hierarchy.linkage` have been significantly sped up. Long-standing issues with using ``linkage`` on large input data (over 16 GB) have been resolved. `scipy.sparse` improvements - --------------------------- The functions `scipy.sparse.save_npz` and `scipy.sparse.load_npz` were added, providing simple serialization for some sparse formats. The `prune` method of classes `bsr_matrix`, `csc_matrix`, and `csr_matrix` was updated to reallocate backing arrays under certain conditions, reducing memory usage. The methods `argmin` and `argmax` were added to classes `coo_matrix`, `csc_matrix`, `csr_matrix`, and `bsr_matrix`. New function `scipy.sparse.csgraph.structural_rank` computes the structural rank of a graph with a given sparsity pattern. New function `scipy.sparse.linalg.spsolve_triangular` solves a sparse linear system with a triangular left hand side matrix. `scipy.special` improvements - ---------------------------- Scalar, typed versions of universal functions from `scipy.special` are available in the Cython space via ``cimport`` from the new module `scipy.special.cython_special`. These scalar functions can be expected to be significantly faster then the universal functions for scalar arguments. See the `scipy.special` tutorial for details. Better control over special-function errors is offered by the functions `scipy.special.geterr` and `scipy.special.seterr` and the context manager `scipy.special.errstate`. The names of orthogonal polynomial root functions have been changed to be consistent with other functions relating to orthogonal polynomials. For example, `scipy.special.j_roots` has been renamed `scipy.special.roots_jacobi` for consistency with the related functions `scipy.special.jacobi` and `scipy.special.eval_jacobi`. To preserve back-compatibility the old names have been left as aliases. Wright Omega function is implemented as `scipy.special.wrightomega`. `scipy.stats` improvements - -------------------------- The function `scipy.stats.weightedtau` was added. It provides a weighted version of Kendall's tau. New class `scipy.stats.multinomial` implements the multinomial distribution. New class `scipy.stats.rv_histogram` constructs a continuous univariate distribution with a piecewise linear CDF from a binned data sample. New class `scipy.stats.argus` implements the Argus distribution. `scipy.interpolate` improvements - -------------------------------- New class `scipy.interpolate.BSpline` represents splines. ``BSpline`` objects contain knots and coefficients and can evaluate the spline. The format is consistent with FITPACK, so that one can do, for example:: >>> t, c, k = splrep(x, y, s=0) >>> spl = BSpline(t, c, k) >>> np.allclose(spl(x), y) ``spl*`` functions, `scipy.interpolate.splev`, `scipy.interpolate.splint`, `scipy.interpolate.splder` and `scipy.interpolate.splantider`, accept both ``BSpline`` objects and ``(t, c, k)`` tuples for backwards compatibility. For multidimensional splines, ``c.ndim > 1``, ``BSpline`` objects are consistent with piecewise polynomials, `scipy.interpolate.PPoly`. This means that ``BSpline`` objects are not immediately consistent with `scipy.interpolate.splprep`, and one *cannot* do ``>>> BSpline(*splprep([x, y])[0])``. Consult the `scipy.interpolate` test suite for examples of the precise equivalence. In new code, prefer using ``scipy.interpolate.BSpline`` objects instead of manipulating ``(t, c, k)`` tuples directly. New function `scipy.interpolate.make_interp_spline` constructs an interpolating spline given data points and boundary conditions. New function `scipy.interpolate.make_lsq_spline` constructs a least-squares spline approximation given data points. `scipy.integrate` improvements - ------------------------------ Now `scipy.integrate.fixed_quad` supports vector-valued functions. Deprecated features =================== `scipy.interpolate.splmake`, `scipy.interpolate.spleval` and `scipy.interpolate.spline` are deprecated. The format used by `splmake/spleval` was inconsistent with `splrep/splev` which was confusing to users. `scipy.special.errprint` is deprecated. Improved functionality is available in `scipy.special.seterr`. calling `scipy.spatial.distance.pdist` or `scipy.spatial.distance.cdist` with arguments not needed by the chosen metric is deprecated. Also, metrics `"old_cosine"` and `"old_cos"` are deprecated. Backwards incompatible changes ============================== The deprecated ``scipy.weave`` submodule was removed. `scipy.spatial.distance.squareform` now returns arrays of the same dtype as the input, instead of always float64. `scipy.special.errprint` now returns a boolean. The function `scipy.signal.find_peaks_cwt` now returns an array instead of a list. `scipy.stats.kendalltau` now computes the correct p-value in case the input contains ties. The p-value is also identical to that computed by `scipy.stats.mstats.kendalltau` and by R. If the input does not contain ties there is no change w.r.t. the previous implementation. The function `scipy.linalg.block_diag` will not ignore zero-sized matrices anymore. Instead it will insert rows or columns of zeros of the appropriate size. See gh-4908 for more details. Other changes ============= SciPy wheels will now report their dependency on ``numpy`` on all platforms. This change was made because Numpy wheels are available, and because the pip upgrade behavior is finally changing for the better (use ``--upgrade-strategy=only-if-needed`` for ``pip >= 8.2``; that behavior will become the default in the next major version of ``pip``). Numerical values returned by `scipy.interpolate.interp1d` with ``kind="cubic"`` and ``"quadratic"`` may change relative to previous scipy versions. If your code depended on specific numeric values (i.e., on implementation details of the interpolators), you may want to double-check your results. Authors ======= * @endolith * Max Argus + * Hervé Audren * Alessandro Pietro Bardelli + * Michael Benfield + * Felix Berkenkamp * Matthew Brett * Per Brodtkorb * Evgeni Burovski * Pierre de Buyl * CJ Carey * Brandon Carter + * Tim Cera * Klesk Chonkin * Christian Häggström + * Luca Citi * Peadar Coyle + * Daniel da Silva + * Greg Dooper + * John Draper + * drlvk + * David Ellis + * Yu Feng * Baptiste Fontaine + * Jed Frey + * Siddhartha Gandhi + * GiggleLiu + * Wim Glenn + * Akash Goel + * Christoph Gohlke * Ralf Gommers * Alexander Goncearenco + * Richard Gowers + * Alex Griffing * Radoslaw Guzinski + * Charles Harris * Callum Jacob Hays + * Ian Henriksen * Randy Heydon + * Lindsey Hiltner + * Gerrit Holl + * Hiroki IKEDA + * jfinkels + * Mher Kazandjian + * Thomas Keck + * keuj6 + * Kornel Kielczewski + * Sergey B Kirpichev + * Vasily Kokorev + * Eric Larson * Denis Laxalde * Gregory R. Lee * Josh Lefler + * Julien Lhermitte + * Evan Limanto + * Nikolay Mayorov * Geordie McBain + * Josue Melka + * Matthieu Melot * michaelvmartin15 + * Surhud More + * Brett M. Morris + * Chris Mutel + * Paul Nation * Andrew Nelson * David Nicholson + * Aaron Nielsen + * Joel Nothman * nrnrk + * Juan Nunez-Iglesias * Mikhail Pak + * Gavin Parnaby + * Thomas Pingel + * Ilhan Polat + * Aman Pratik + * Sebastian Pucilowski * Ted Pudlik * puenka + * Eric Quintero * Tyler Reddy * Joscha Reimer * Antonio Horta Ribeiro + * Edward Richards + * Roman Ring + * Rafael Rossi + * Colm Ryan + * Sami Salonen + * Alvaro Sanchez-Gonzalez + * Johannes Schmitz * Kari Schoonbee * Yurii Shevchuk + * Jonathan Siebert + * Jonathan Tammo Siebert + * Scott Sievert + * Sourav Singh * Byron Smith + * Srikiran + * Samuel St-Jean + * Yoni Teitelbaum + * Bhavika Tekwani * Martin Thoma * timbalam + * Svend Vanderveken + * Sebastiano Vigna + * Aditya Vijaykumar + * Santi Villalba + * Ze Vinicius * Pauli Virtanen * Matteo Visconti * Yusuke Watanabe + * Warren Weckesser * Phillip Weinberg + * Nils Werner * Jakub Wilk * Josh Wilson * wirew0rm + * David Wolever + * Nathan Woods * ybeltukov + * G Young * Evgeny Zhurko + A total of 121 people contributed to this release. People with a "+" by their names contributed a patch for the first time. This list of names is automatically generated, and may not be fully complete. Issues closed for 0.19.0 - ------------------------ - - `#1767 <https://github.com/scipy/scipy/issues/1767>`__: Function definitions in __fitpack.h should be moved. (Trac #1240) - - `#1774 <https://github.com/scipy/scipy/issues/1774>`__: _kmeans chokes on large thresholds (Trac #1247) - - `#2089 <https://github.com/scipy/scipy/issues/2089>`__: Integer overflows cause segfault in linkage function with large... - - `#2190 <https://github.com/scipy/scipy/issues/2190>`__: Are odd-length window functions supposed to be always symmetrical?... - - `#2251 <https://github.com/scipy/scipy/issues/2251>`__: solve_discrete_are in scipy.linalg does (sometimes) not solve... - - `#2580 <https://github.com/scipy/scipy/issues/2580>`__: scipy.interpolate.UnivariateSpline (or a new superclass of it)... - - `#2592 <https://github.com/scipy/scipy/issues/2592>`__: scipy.stats.anderson assumes gumbel_l - - `#3054 <https://github.com/scipy/scipy/issues/3054>`__: scipy.linalg.eig does not handle infinite eigenvalues - - `#3160 <https://github.com/scipy/scipy/issues/3160>`__: multinomial pmf / logpmf - - `#3904 <https://github.com/scipy/scipy/issues/3904>`__: scipy.special.ellipj dn wrong values at quarter period - - `#4044 <https://github.com/scipy/scipy/issues/4044>`__: Inconsistent code book initialization in kmeans - - `#4234 <https://github.com/scipy/scipy/issues/4234>`__: scipy.signal.flattop documentation doesn't list a source for... - - `#4831 <https://github.com/scipy/scipy/issues/4831>`__: Bugs in C code in __quadpack.h - - `#4908 <https://github.com/scipy/scipy/issues/4908>`__: bug: unnessesary validity check for block dimension in scipy.sparse.block_diag - - `#4917 <https://github.com/scipy/scipy/issues/4917>`__: BUG: indexing error for sparse matrix with ix_ - - `#4938 <https://github.com/scipy/scipy/issues/4938>`__: Docs on extending ndimage need to be updated. - - `#5056 <https://github.com/scipy/scipy/issues/5056>`__: sparse matrix element-wise multiplying dense matrix returns dense... - - `#5337 <https://github.com/scipy/scipy/issues/5337>`__: Formula in documentation for correlate is wrong - - `#5537 <https://github.com/scipy/scipy/issues/5537>`__: use OrderedDict in io.netcdf - - `#5750 <https://github.com/scipy/scipy/issues/5750>`__: [doc] missing data index value in KDTree, cKDTree - - `#5755 <https://github.com/scipy/scipy/issues/5755>`__: p-value computation in scipy.stats.kendalltau() in broken in... - - `#5757 <https://github.com/scipy/scipy/issues/5757>`__: BUG: Incorrect complex output of signal.spectrogram - - `#5964 <https://github.com/scipy/scipy/issues/5964>`__: ENH: expose scalar versions of scipy.special functions to cython - - `#6107 <https://github.com/scipy/scipy/issues/6107>`__: scipy.cluster.hierarchy.single segmentation fault with 2**16... - - `#6278 <https://github.com/scipy/scipy/issues/6278>`__: optimize.basinhopping should take a RandomState object - - `#6296 <https://github.com/scipy/scipy/issues/6296>`__: InterpolatedUnivariateSpline: check_finite fails when w is unspecified - - `#6306 <https://github.com/scipy/scipy/issues/6306>`__: Anderson-Darling bad results - - `#6314 <https://github.com/scipy/scipy/issues/6314>`__: scipy.stats.kendaltau() p value not in agreement with R, SPSS... - - `#6340 <https://github.com/scipy/scipy/issues/6340>`__: Curve_fit bounds and maxfev - - `#6377 <https://github.com/scipy/scipy/issues/6377>`__: expm_multiply, complex matrices not working using start,stop,ect... - - `#6382 <https://github.com/scipy/scipy/issues/6382>`__: optimize.differential_evolution stopping criterion has unintuitive... - - `#6391 <https://github.com/scipy/scipy/issues/6391>`__: Global Benchmarking times out at 600s. - - `#6397 <https://github.com/scipy/scipy/issues/6397>`__: mmwrite errors with large (but still 64-bit) integers - - `#6413 <https://github.com/scipy/scipy/issues/6413>`__: scipy.stats.dirichlet computes multivariate gaussian differential... - - `#6428 <https://github.com/scipy/scipy/issues/6428>`__: scipy.stats.mstats.mode modifies input - - `#6440 <https://github.com/scipy/scipy/issues/6440>`__: Figure out ABI break policy for scipy.special Cython API - - `#6441 <https://github.com/scipy/scipy/issues/6441>`__: Using Qhull for halfspace intersection : segfault - - `#6442 <https://github.com/scipy/scipy/issues/6442>`__: scipy.spatial : In incremental mode volume is not recomputed - - `#6451 <https://github.com/scipy/scipy/issues/6451>`__: Documentation for scipy.cluster.hierarchy.to_tree is confusing... - - `#6490 <https://github.com/scipy/scipy/issues/6490>`__: interp1d (kind=zero) returns wrong value for rightmost interpolation... - - `#6521 <https://github.com/scipy/scipy/issues/6521>`__: scipy.stats.entropy does *not* calculate the KL divergence - - `#6530 <https://github.com/scipy/scipy/issues/6530>`__: scipy.stats.spearmanr unexpected NaN handling - - `#6541 <https://github.com/scipy/scipy/issues/6541>`__: Test runner does not run scipy._lib/tests? - - `#6552 <https://github.com/scipy/scipy/issues/6552>`__: BUG: misc.bytescale returns unexpected results when using cmin/cmax... - - `#6556 <https://github.com/scipy/scipy/issues/6556>`__: RectSphereBivariateSpline(u, v, r) fails if min(v) >= pi - - `#6559 <https://github.com/scipy/scipy/issues/6559>`__: Differential_evolution maxiter causing memory overflow - - `#6565 <https://github.com/scipy/scipy/issues/6565>`__: Coverage of spectral functions could be improved - - `#6628 <https://github.com/scipy/scipy/issues/6628>`__: Incorrect parameter name in binomial documentation - - `#6634 <https://github.com/scipy/scipy/issues/6634>`__: Expose LAPACK's xGESVX family for linalg.solve ill-conditioned... - - `#6657 <https://github.com/scipy/scipy/issues/6657>`__: Confusing documentation for `scipy.special.sph_harm` - - `#6676 <https://github.com/scipy/scipy/issues/6676>`__: optimize: Incorrect size of Jacobian returned by `minimize(...,... - - `#6681 <https://github.com/scipy/scipy/issues/6681>`__: add a new context manager to wrap `scipy.special.seterr` - - `#6700 <https://github.com/scipy/scipy/issues/6700>`__: BUG: scipy.io.wavfile.read stays in infinite loop, warns on wav... - - `#6721 <https://github.com/scipy/scipy/issues/6721>`__: scipy.special.chebyt(N) throw a 'TypeError' when N > 64 - - `#6727 <https://github.com/scipy/scipy/issues/6727>`__: Documentation for scipy.stats.norm.fit is incorrect - - `#6764 <https://github.com/scipy/scipy/issues/6764>`__: Documentation for scipy.spatial.Delaunay is partially incorrect - - `#6811 <https://github.com/scipy/scipy/issues/6811>`__: scipy.spatial.SphericalVoronoi fails for large number of points - - `#6841 <https://github.com/scipy/scipy/issues/6841>`__: spearmanr fails when nan_policy='omit' is set - - `#6869 <https://github.com/scipy/scipy/issues/6869>`__: Currently in gaussian_kde, the logpdf function is calculated... - - `#6875 <https://github.com/scipy/scipy/issues/6875>`__: SLSQP inconsistent handling of invalid bounds - - `#6876 <https://github.com/scipy/scipy/issues/6876>`__: Python stopped working (Segfault?) with minimum/maximum filter... - - `#6889 <https://github.com/scipy/scipy/issues/6889>`__: dblquad gives different results under scipy 0.17.1 and 0.18.1 - - `#6898 <https://github.com/scipy/scipy/issues/6898>`__: BUG: dblquad ignores error tolerances - - `#6901 <https://github.com/scipy/scipy/issues/6901>`__: Solving sparse linear systems in CSR format with complex values - - `#6903 <https://github.com/scipy/scipy/issues/6903>`__: issue in spatial.distance.pdist docstring - - `#6917 <https://github.com/scipy/scipy/issues/6917>`__: Problem in passing drop_rule to scipy.sparse.linalg.spilu - - `#6926 <https://github.com/scipy/scipy/issues/6926>`__: signature mismatches for LowLevelCallable - - `#6961 <https://github.com/scipy/scipy/issues/6961>`__: Scipy contains shebang pointing to /usr/bin/python and /bin/bash... - - `#6972 <https://github.com/scipy/scipy/issues/6972>`__: BUG: special: `generate_ufuncs.py` is broken - - `#6984 <https://github.com/scipy/scipy/issues/6984>`__: Assert raises test failure for test_ill_condition_warning - - `#6990 <https://github.com/scipy/scipy/issues/6990>`__: BUG: sparse: Bad documentation of the `k` argument in `sparse.linalg.eigs` - - `#6991 <https://github.com/scipy/scipy/issues/6991>`__: Division by zero in linregress() - - `#7011 <https://github.com/scipy/scipy/issues/7011>`__: possible speed improvment in rv_continuous.fit() - - `#7015 <https://github.com/scipy/scipy/issues/7015>`__: Test failure with Python 3.5 and numpy master Pull requests for 0.19.0 - ------------------------ - - `#2908 <https://github.com/scipy/scipy/pull/2908>`__: Scipy 1.0 Roadmap - - `#3174 <https://github.com/scipy/scipy/pull/3174>`__: add b-splines - - `#4606 <https://github.com/scipy/scipy/pull/4606>`__: ENH: Add a unit impulse waveform function - - `#5608 <https://github.com/scipy/scipy/pull/5608>`__: Adds keyword argument to choose faster convolution method - - `#5647 <https://github.com/scipy/scipy/pull/5647>`__: ENH: Faster count_neighour in cKDTree / + weighted input data - - `#6021 <https://github.com/scipy/scipy/pull/6021>`__: Netcdf append - - `#6058 <https://github.com/scipy/scipy/pull/6058>`__: ENH: scipy.signal - Add stft and istft - - `#6059 <https://github.com/scipy/scipy/pull/6059>`__: ENH: More accurate signal.freqresp for zpk systems - - `#6195 <https://github.com/scipy/scipy/pull/6195>`__: ENH: Cython interface for special - - `#6234 <https://github.com/scipy/scipy/pull/6234>`__: DOC: Fixed a typo in ward() help - - `#6261 <https://github.com/scipy/scipy/pull/6261>`__: ENH: add docstring and clean up code for signal.normalize - - `#6270 <https://github.com/scipy/scipy/pull/6270>`__: MAINT: special: add tests for cdflib - - `#6271 <https://github.com/scipy/scipy/pull/6271>`__: Fix for scipy.cluster.hierarchy.is_isomorphic - - `#6273 <https://github.com/scipy/scipy/pull/6273>`__: optimize: rewrite while loops as for loops - - `#6279 <https://github.com/scipy/scipy/pull/6279>`__: MAINT: Bessel tweaks - - `#6291 <https://github.com/scipy/scipy/pull/6291>`__: Fixes gh-6219: remove runtime warning from genextreme distribution - - `#6294 <https://github.com/scipy/scipy/pull/6294>`__: STY: Some PEP8 and cleaning up imports in stats/_continuous_distns.py - - `#6297 <https://github.com/scipy/scipy/pull/6297>`__: Clarify docs in misc/__init__.py - - `#6300 <https://github.com/scipy/scipy/pull/6300>`__: ENH: sparse: Loosen input validation for `diags` with empty inputs - - `#6301 <https://github.com/scipy/scipy/pull/6301>`__: BUG: standardizes check_finite behavior re optional weights,... - - `#6303 <https://github.com/scipy/scipy/pull/6303>`__: Fixing example in _lazyselect docstring. - - `#6307 <https://github.com/scipy/scipy/pull/6307>`__: MAINT: more improvements to gammainc/gammaincc - - `#6308 <https://github.com/scipy/scipy/pull/6308>`__: Clarified documentation of hypergeometric distribution. - - `#6309 <https://github.com/scipy/scipy/pull/6309>`__: BUG: stats: Improve calculation of the Anderson-Darling statistic. - - `#6315 <https://github.com/scipy/scipy/pull/6315>`__: ENH: Descending order of x in PPoly - - `#6317 <https://github.com/scipy/scipy/pull/6317>`__: ENH: stats: Add support for nan_policy to stats.median_test - - `#6321 <https://github.com/scipy/scipy/pull/6321>`__: TST: fix a typo in test name - - `#6328 <https://github.com/scipy/scipy/pull/6328>`__: ENH: sosfreqz - - `#6335 <https://github.com/scipy/scipy/pull/6335>`__: Define LinregressResult outside of linregress - - `#6337 <https://github.com/scipy/scipy/pull/6337>`__: In anderson test, added support for right skewed gumbel distribution. - - `#6341 <https://github.com/scipy/scipy/pull/6341>`__: Accept several spellings for the curve_fit max number of function... - - `#6342 <https://github.com/scipy/scipy/pull/6342>`__: DOC: cluster: clarify hierarchy.linkage usage - - `#6352 <https://github.com/scipy/scipy/pull/6352>`__: DOC: removed brentq from its own 'see also' - - `#6362 <https://github.com/scipy/scipy/pull/6362>`__: ENH: stats: Use explicit formulas for sf, logsf, etc in weibull... - - `#6369 <https://github.com/scipy/scipy/pull/6369>`__: MAINT: special: add a comment to hyp0f1_complex - - `#6375 <https://github.com/scipy/scipy/pull/6375>`__: Added the multinomial distribution. - - `#6387 <https://github.com/scipy/scipy/pull/6387>`__: MAINT: special: improve accuracy of ellipj's `dn` at quarter... - - `#6388 <https://github.com/scipy/scipy/pull/6388>`__: BenchmarkGlobal - getting it to work in Python3 - - `#6394 <https://github.com/scipy/scipy/pull/6394>`__: ENH: scipy.sparse: add save and load functions for sparse matrices - - `#6400 <https://github.com/scipy/scipy/pull/6400>`__: MAINT: moves global benchmark run from setup_cache to track_all - - `#6403 <https://github.com/scipy/scipy/pull/6403>`__: ENH: seed kwd for basinhopping. Closes #6278 - - `#6404 <https://github.com/scipy/scipy/pull/6404>`__: ENH: signal: added irrnotch and iirpeak functions. - - `#6406 <https://github.com/scipy/scipy/pull/6406>`__: ENH: special: extend `sici`/`shichi` to complex arguments - - `#6407 <https://github.com/scipy/scipy/pull/6407>`__: ENH: Window functions should not accept non-integer or negative... - - `#6408 <https://github.com/scipy/scipy/pull/6408>`__: MAINT: _differentialevolution now uses _lib._util.check_random_state - - `#6427 <https://github.com/scipy/scipy/pull/6427>`__: MAINT: Fix gmpy build & test that mpmath uses gmpy - - `#6439 <https://github.com/scipy/scipy/pull/6439>`__: MAINT: ndimage: update callback function c api - - `#6443 <https://github.com/scipy/scipy/pull/6443>`__: BUG: Fix volume computation in incremental mode - - `#6447 <https://github.com/scipy/scipy/pull/6447>`__: Fixes issue #6413 - Minor documentation fix in the entropy function... - - `#6448 <https://github.com/scipy/scipy/pull/6448>`__: ENH: Add halfspace mode to Qhull - - `#6449 <https://github.com/scipy/scipy/pull/6449>`__: ENH: rtol and atol for differential_evolution termination fixes... - - `#6453 <https://github.com/scipy/scipy/pull/6453>`__: DOC: Add some See Also links between similar functions - - `#6454 <https://github.com/scipy/scipy/pull/6454>`__: DOC: linalg: clarify callable signature in `ordqz` - - `#6457 <https://github.com/scipy/scipy/pull/6457>`__: ENH: spatial: enable non-double dtypes in squareform - - `#6459 <https://github.com/scipy/scipy/pull/6459>`__: BUG: Complex matrices not handled correctly by expm_multiply... - - `#6465 <https://github.com/scipy/scipy/pull/6465>`__: TST DOC Window docs, tests, etc. - - `#6469 <https://github.com/scipy/scipy/pull/6469>`__: ENH: linalg: better handling of infinite eigenvalues in `eig`/`eigvals` - - `#6475 <https://github.com/scipy/scipy/pull/6475>`__: DOC: calling interp1d/interp2d with NaNs is undefined - - `#6477 <https://github.com/scipy/scipy/pull/6477>`__: Document magic numbers in optimize.py - - `#6481 <https://github.com/scipy/scipy/pull/6481>`__: TST: Supress some warnings from test_windows - - `#6485 <https://github.com/scipy/scipy/pull/6485>`__: DOC: spatial: correct typo in procrustes - - `#6487 <https://github.com/scipy/scipy/pull/6487>`__: Fix Bray-Curtis formula in pdist docstring - - `#6493 <https://github.com/scipy/scipy/pull/6493>`__: ENH: Add covariance functionality to scipy.optimize.curve_fit - - `#6494 <https://github.com/scipy/scipy/pull/6494>`__: ENH: stats: Use log1p() to improve some calculations. - - `#6495 <https://github.com/scipy/scipy/pull/6495>`__: BUG: Use MST algorithm instead of SLINK for single linkage clustering - - `#6497 <https://github.com/scipy/scipy/pull/6497>`__: MRG: Add minimum_phase filter function - - `#6505 <https://github.com/scipy/scipy/pull/6505>`__: reset scipy.signal.resample window shape to 1-D - - `#6507 <https://github.com/scipy/scipy/pull/6507>`__: BUG: linkage: Raise exception if y contains non-finite elements - - `#6509 <https://github.com/scipy/scipy/pull/6509>`__: ENH: _lib: add common machinery for low-level callback functions - - `#6520 <https://github.com/scipy/scipy/pull/6520>`__: scipy.sparse.base.__mul__ non-numpy/scipy objects with 'shape'... - - `#6522 <https://github.com/scipy/scipy/pull/6522>`__: Replace kl_div by rel_entr in entropy - - `#6524 <https://github.com/scipy/scipy/pull/6524>`__: DOC: add next_fast_len to list of functions - - `#6527 <https://github.com/scipy/scipy/pull/6527>`__: DOC: Release notes to reflect the new covariance feature in optimize.curve_fit - - `#6532 <https://github.com/scipy/scipy/pull/6532>`__: ENH: Simplify _cos_win, document it, add symmetric/periodic arg - - `#6535 <https://github.com/scipy/scipy/pull/6535>`__: MAINT: sparse.csgraph: updating old cython loops - - `#6540 <https://github.com/scipy/scipy/pull/6540>`__: DOC: add to documentation of orthogonal polynomials - - `#6544 <https://github.com/scipy/scipy/pull/6544>`__: TST: Ensure tests for scipy._lib are run by scipy.test() - - `#6546 <https://github.com/scipy/scipy/pull/6546>`__: updated docstring of stats.linregress - - `#6553 <https://github.com/scipy/scipy/pull/6553>`__: commited changes that I originally submitted for scipy.signal.cspline… - - `#6561 <https://github.com/scipy/scipy/pull/6561>`__: BUG: modify signal.find_peaks_cwt() to return array and accept... - - `#6562 <https://github.com/scipy/scipy/pull/6562>`__: DOC: Negative binomial distribution clarification - - `#6563 <https://github.com/scipy/scipy/pull/6563>`__: MAINT: be more liberal in requiring numpy - - `#6567 <https://github.com/scipy/scipy/pull/6567>`__: MAINT: use xrange for iteration in differential_evolution fixes... - - `#6572 <https://github.com/scipy/scipy/pull/6572>`__: BUG: "sp.linalg.solve_discrete_are" fails for random data - - `#6578 <https://github.com/scipy/scipy/pull/6578>`__: BUG: misc: allow both cmin/cmax and low/high params in bytescale - - `#6581 <https://github.com/scipy/scipy/pull/6581>`__: Fix some unfortunate typos - - `#6582 <https://github.com/scipy/scipy/pull/6582>`__: MAINT: linalg: make handling of infinite eigenvalues in `ordqz`... - - `#6585 <https://github.com/scipy/scipy/pull/6585>`__: DOC: interpolate: correct seealso links to ndimage - - `#6588 <https://github.com/scipy/scipy/pull/6588>`__: Update docstring of scipy.spatial.distance_matrix - - `#6592 <https://github.com/scipy/scipy/pull/6592>`__: DOC: Replace 'first' by 'smallest' in mode - - `#6593 <https://github.com/scipy/scipy/pull/6593>`__: MAINT: remove scipy.weave submodule - - `#6594 <https://github.com/scipy/scipy/pull/6594>`__: DOC: distance.squareform: fix html docs, add note about dtype... - - `#6598 <https://github.com/scipy/scipy/pull/6598>`__: [DOC] Fix incorrect error message in medfilt2d - - `#6599 <https://github.com/scipy/scipy/pull/6599>`__: MAINT: linalg: turn a `solve_discrete_are` test back on - - `#6600 <https://github.com/scipy/scipy/pull/6600>`__: DOC: Add SOS goals to roadmap - - `#6601 <https://github.com/scipy/scipy/pull/6601>`__: DEP: Raise minimum numpy version to 1.8.2 - - `#6605 <https://github.com/scipy/scipy/pull/6605>`__: MAINT: 'new' module is deprecated, don't use it - - `#6607 <https://github.com/scipy/scipy/pull/6607>`__: DOC: add note on change in wheel dependency on numpy and pip... - - `#6609 <https://github.com/scipy/scipy/pull/6609>`__: Fixes #6602 - Typo in docs - - `#6616 <https://github.com/scipy/scipy/pull/6616>`__: ENH: generalization of continuous and discrete Riccati solvers... - - `#6621 <https://github.com/scipy/scipy/pull/6621>`__: DOC: improve cluster.hierarchy docstrings. - - `#6623 <https://github.com/scipy/scipy/pull/6623>`__: CS matrix prune method should copy data from large unpruned arrays - - `#6625 <https://github.com/scipy/scipy/pull/6625>`__: DOC: special: complete documentation of `eval_*` functions - - `#6626 <https://github.com/scipy/scipy/pull/6626>`__: TST: special: silence some deprecation warnings - - `#6631 <https://github.com/scipy/scipy/pull/6631>`__: fix parameter name doc for discrete distributions - - `#6632 <https://github.com/scipy/scipy/pull/6632>`__: MAINT: stats: change some instances of `special` to `sc` - - `#6633 <https://github.com/scipy/scipy/pull/6633>`__: MAINT: refguide: py2k long integers are equal to py3k integers - - `#6638 <https://github.com/scipy/scipy/pull/6638>`__: MAINT: change type declaration in cluster.linkage, prevent overflow - - `#6640 <https://github.com/scipy/scipy/pull/6640>`__: BUG: fix issue with duplicate values used in cluster.vq.kmeans - - `#6641 <https://github.com/scipy/scipy/pull/6641>`__: BUG: fix corner case in cluster.vq.kmeans for large thresholds - - `#6643 <https://github.com/scipy/scipy/pull/6643>`__: MAINT: clean up truncation modes of dendrogram - - `#6645 <https://github.com/scipy/scipy/pull/6645>`__: MAINT: special: rename `*_roots` functions - - `#6646 <https://github.com/scipy/scipy/pull/6646>`__: MAINT: clean up mpmath imports - - `#6647 <https://github.com/scipy/scipy/pull/6647>`__: DOC: add sqrt to Mahalanobis description for pdist - - `#6648 <https://github.com/scipy/scipy/pull/6648>`__: DOC: special: add a section on `cython_special` to the tutorial - - `#6649 <https://github.com/scipy/scipy/pull/6649>`__: ENH: Added scipy.spatial.distance.directed_hausdorff - - `#6650 <https://github.com/scipy/scipy/pull/6650>`__: DOC: add Sphinx roles for DOI and arXiv links - - `#6651 <https://github.com/scipy/scipy/pull/6651>`__: BUG: mstats: make sure mode(..., None) does not modify its input - - `#6652 <https://github.com/scipy/scipy/pull/6652>`__: DOC: special: add section to tutorial on functions not in special - - `#6653 <https://github.com/scipy/scipy/pull/6653>`__: ENH: special: add the Wright Omega function - - `#6656 <https://github.com/scipy/scipy/pull/6656>`__: ENH: don't coerce input to double with custom metric in cdist... - - `#6658 <https://github.com/scipy/scipy/pull/6658>`__: Faster/shorter code for computation of discordances - - `#6659 <https://github.com/scipy/scipy/pull/6659>`__: DOC: special: make __init__ summaries and html summaries match - - `#6661 <https://github.com/scipy/scipy/pull/6661>`__: general.rst: Fix a typo - - `#6664 <https://github.com/scipy/scipy/pull/6664>`__: TST: Spectral functions' window correction factor - - `#6665 <https://github.com/scipy/scipy/pull/6665>`__: [DOC] Conditions on v in RectSphereBivariateSpline - - `#6668 <https://github.com/scipy/scipy/pull/6668>`__: DOC: Mention negative masses for center of mass - - `#6675 <https://github.com/scipy/scipy/pull/6675>`__: MAINT: special: remove outdated README - - `#6677 <https://github.com/scipy/scipy/pull/6677>`__: BUG: Fixes computation of p-values. - - `#6679 <https://github.com/scipy/scipy/pull/6679>`__: BUG: optimize: return correct Jacobian for method 'SLSQP' in... - - `#6680 <https://github.com/scipy/scipy/pull/6680>`__: ENH: Add structural rank to sparse.csgraph - - `#6686 <https://github.com/scipy/scipy/pull/6686>`__: TST: Added Airspeed Velocity benchmarks for SphericalVoronoi - - `#6687 <https://github.com/scipy/scipy/pull/6687>`__: DOC: add section "deciding on new features" to developer guide. - - `#6691 <https://github.com/scipy/scipy/pull/6691>`__: ENH: Clearer error when fmin_slsqp obj doesn't return scalar - - `#6702 <https://github.com/scipy/scipy/pull/6702>`__: TST: Added airspeed velocity benchmarks for scipy.spatial.distance.cdist - - `#6707 <https://github.com/scipy/scipy/pull/6707>`__: TST: interpolate: test fitpack wrappers, not _impl - - `#6709 <https://github.com/scipy/scipy/pull/6709>`__: TST: fix a number of test failures on 32-bit systems - - `#6711 <https://github.com/scipy/scipy/pull/6711>`__: MAINT: move function definitions from __fitpack.h to _fitpackmodule.c - - `#6712 <https://github.com/scipy/scipy/pull/6712>`__: MAINT: clean up wishlist in stats.morestats, and copyright statement. - - `#6715 <https://github.com/scipy/scipy/pull/6715>`__: DOC: update the release notes with BSpline et al. - - `#6716 <https://github.com/scipy/scipy/pull/6716>`__: MAINT: scipy.io.wavfile: No infinite loop when trying to read... - - `#6717 <https://github.com/scipy/scipy/pull/6717>`__: some style cleanup - - `#6723 <https://github.com/scipy/scipy/pull/6723>`__: BUG: special: cast to float before in-place multiplication in... - - `#6726 <https://github.com/scipy/scipy/pull/6726>`__: address performance regressions in interp1d - - `#6728 <https://github.com/scipy/scipy/pull/6728>`__: DOC: made code examples in `integrate` tutorial copy-pasteable - - `#6731 <https://github.com/scipy/scipy/pull/6731>`__: DOC: scipy.optimize: Added an example for wrapping complex-valued... - - `#6732 <https://github.com/scipy/scipy/pull/6732>`__: MAINT: cython_special: remove `errprint` - - `#6733 <https://github.com/scipy/scipy/pull/6733>`__: MAINT: special: fix some pyflakes warnings - - `#6734 <https://github.com/scipy/scipy/pull/6734>`__: DOC: sparse.linalg: fixed matrix description in `bicgstab` doc - - `#6737 <https://github.com/scipy/scipy/pull/6737>`__: BLD: update `cythonize.py` to detect changes in pxi files - - `#6740 <https://github.com/scipy/scipy/pull/6740>`__: DOC: special: some small fixes to docstrings - - `#6741 <https://github.com/scipy/scipy/pull/6741>`__: MAINT: remove dead code in interpolate.py - - `#6742 <https://github.com/scipy/scipy/pull/6742>`__: BUG: fix ``linalg.block_diag`` to support zero-sized matrices. - - `#6744 <https://github.com/scipy/scipy/pull/6744>`__: ENH: interpolate: make PPoly.from_spline accept BSpline objects - - `#6746 <https://github.com/scipy/scipy/pull/6746>`__: DOC: special: clarify use of Condon-Shortley phase in `sph_harm`/`lpmv` - - `#6750 <https://github.com/scipy/scipy/pull/6750>`__: ENH: sparse: avoid densification on broadcasted elem-wise mult - - `#6751 <https://github.com/scipy/scipy/pull/6751>`__: sinm doc explained cosm - - `#6753 <https://github.com/scipy/scipy/pull/6753>`__: ENH: special: allow for more fine-tuned error handling - - `#6759 <https://github.com/scipy/scipy/pull/6759>`__: Move logsumexp and pade from scipy.misc to scipy.special and... - - `#6761 <https://github.com/scipy/scipy/pull/6761>`__: ENH: argmax and argmin methods for sparse matrices - - `#6762 <https://github.com/scipy/scipy/pull/6762>`__: DOC: Improve docstrings of sparse matrices - - `#6763 <https://github.com/scipy/scipy/pull/6763>`__: ENH: Weighted tau - - `#6768 <https://github.com/scipy/scipy/pull/6768>`__: ENH: cythonized spherical Voronoi region polygon vertex sorting - - `#6770 <https://github.com/scipy/scipy/pull/6770>`__: Correction of Delaunay class' documentation - - `#6775 <https://github.com/scipy/scipy/pull/6775>`__: ENH: Integrating LAPACK "expert" routines with conditioning warnings... - - `#6776 <https://github.com/scipy/scipy/pull/6776>`__: MAINT: Removing the trivial f2py warnings - - `#6777 <https://github.com/scipy/scipy/pull/6777>`__: DOC: Update rv_continuous.fit doc. - - `#6778 <https://github.com/scipy/scipy/pull/6778>`__: MAINT: cluster.hierarchy: Improved wording of error msgs - - `#6786 <https://github.com/scipy/scipy/pull/6786>`__: BLD: increase minimum Cython version to 0.23.4 - - `#6787 <https://github.com/scipy/scipy/pull/6787>`__: DOC: expand on ``linalg.block_diag`` changes in 0.19.0 release... - - `#6789 <https://github.com/scipy/scipy/pull/6789>`__: ENH: Add further documentation for norm.fit - - `#6790 <https://github.com/scipy/scipy/pull/6790>`__: MAINT: Fix a potential problem in nn_chain linkage algorithm - - `#6791 <https://github.com/scipy/scipy/pull/6791>`__: DOC: Add examples to scipy.ndimage.fourier - - `#6792 <https://github.com/scipy/scipy/pull/6792>`__: DOC: fix some numpydoc / Sphinx issues. - - `#6793 <https://github.com/scipy/scipy/pull/6793>`__: MAINT: fix circular import after moving functions out of misc - - `#6796 <https://github.com/scipy/scipy/pull/6796>`__: TST: test importing each submodule. Regression test for gh-6793. - - `#6799 <https://github.com/scipy/scipy/pull/6799>`__: ENH: stats: Argus distribution - - `#6801 <https://github.com/scipy/scipy/pull/6801>`__: ENH: stats: Histogram distribution - - `#6803 <https://github.com/scipy/scipy/pull/6803>`__: TST: make sure tests for ``_build_utils`` are run. - - `#6804 <https://github.com/scipy/scipy/pull/6804>`__: MAINT: more fixes in `loggamma` - - `#6806 <https://github.com/scipy/scipy/pull/6806>`__: ENH: Faster linkage for 'centroid' and 'median' methods - - `#6810 <https://github.com/scipy/scipy/pull/6810>`__: ENH: speed up upfirdn and resample_poly for n-dimensional arrays - - `#6812 <https://github.com/scipy/scipy/pull/6812>`__: TST: Added ConvexHull asv benchmark code - - `#6814 <https://github.com/scipy/scipy/pull/6814>`__: ENH: Different extrapolation modes for different dimensions in... - - `#6826 <https://github.com/scipy/scipy/pull/6826>`__: Signal spectral window default fix - - `#6828 <https://github.com/scipy/scipy/pull/6828>`__: BUG: SphericalVoronoi Space Complexity (Fixes #6811) - - `#6830 <https://github.com/scipy/scipy/pull/6830>`__: RealData docstring correction - - `#6834 <https://github.com/scipy/scipy/pull/6834>`__: DOC: Added reference for skewtest function. See #6829 - - `#6836 <https://github.com/scipy/scipy/pull/6836>`__: DOC: Added mode='mirror' in the docstring for the functions accepting... - - `#6838 <https://github.com/scipy/scipy/pull/6838>`__: MAINT: sparse: start removing old BSR methods - - `#6844 <https://github.com/scipy/scipy/pull/6844>`__: handle incompatible dimensions when input is not an ndarray in... - - `#6847 <https://github.com/scipy/scipy/pull/6847>`__: Added maxiter to golden search. - - `#6850 <https://github.com/scipy/scipy/pull/6850>`__: BUG: added check for optional param scipy.stats.spearmanr - - `#6858 <https://github.com/scipy/scipy/pull/6858>`__: MAINT: Removing redundant tests - - `#6861 <https://github.com/scipy/scipy/pull/6861>`__: DEP: Fix escape sequences deprecated in Python 3.6. - - `#6862 <https://github.com/scipy/scipy/pull/6862>`__: DOC: dx should be float, not int - - `#6863 <https://github.com/scipy/scipy/pull/6863>`__: updated documentation curve_fit - - `#6866 <https://github.com/scipy/scipy/pull/6866>`__: DOC : added some documentation to j1 referring to spherical_jn - - `#6867 <https://github.com/scipy/scipy/pull/6867>`__: DOC: cdist move long examples list into Notes section - - `#6868 <https://github.com/scipy/scipy/pull/6868>`__: BUG: Make stats.mode return a ModeResult namedtuple on empty... - - `#6871 <https://github.com/scipy/scipy/pull/6871>`__: Corrected documentation. - - `#6874 <https://github.com/scipy/scipy/pull/6874>`__: ENH: gaussian_kde.logpdf based on logsumexp - - `#6877 <https://github.com/scipy/scipy/pull/6877>`__: BUG: ndimage: guard against footprints of all zeros - - `#6881 <https://github.com/scipy/scipy/pull/6881>`__: python 3.6 - - `#6885 <https://github.com/scipy/scipy/pull/6885>`__: Vectorized integrate.fixed_quad - - `#6886 <https://github.com/scipy/scipy/pull/6886>`__: fixed typo - - `#6891 <https://github.com/scipy/scipy/pull/6891>`__: TST: fix failures for linalg.dare/care due to tightened test... - - `#6892 <https://github.com/scipy/scipy/pull/6892>`__: DOC: fix a bunch of Sphinx errors. - - `#6894 <https://github.com/scipy/scipy/pull/6894>`__: TST: Added asv benchmarks for scipy.spatial.Voronoi - - `#6908 <https://github.com/scipy/scipy/pull/6908>`__: BUG: Fix return dtype for complex input in spsolve - - `#6909 <https://github.com/scipy/scipy/pull/6909>`__: ENH: fftpack: use float32 routines for float16 inputs. - - `#6911 <https://github.com/scipy/scipy/pull/6911>`__: added min/max support to binned_statistic - - `#6913 <https://github.com/scipy/scipy/pull/6913>`__: Fix 6875: SLSQP raise ValueError for all invalid bounds. - - `#6914 <https://github.com/scipy/scipy/pull/6914>`__: DOCS: GH6903 updating docs of Spatial.distance.pdist - - `#6916 <https://github.com/scipy/scipy/pull/6916>`__: MAINT: fix some issues for 32-bit Python - - `#6924 <https://github.com/scipy/scipy/pull/6924>`__: BLD: update Bento build for scipy.LowLevelCallable - - `#6932 <https://github.com/scipy/scipy/pull/6932>`__: ENH: Use OrderedDict in io.netcdf. Closes gh-5537 - - `#6933 <https://github.com/scipy/scipy/pull/6933>`__: BUG: fix LowLevelCallable issue on 32-bit Python. - - `#6936 <https://github.com/scipy/scipy/pull/6936>`__: BUG: sparse: handle size-1 2D indexes correctly - - `#6938 <https://github.com/scipy/scipy/pull/6938>`__: TST: fix test failures in special on 32-bit Python. - - `#6939 <https://github.com/scipy/scipy/pull/6939>`__: Added attributes list to cKDTree docstring - - `#6940 <https://github.com/scipy/scipy/pull/6940>`__: improve efficiency of dok_matrix.tocoo - - `#6942 <https://github.com/scipy/scipy/pull/6942>`__: DOC: add link to liac-arff package in the io.arff docstring. - - `#6943 <https://github.com/scipy/scipy/pull/6943>`__: MAINT: Docstring fixes and an additional test for linalg.solve - - `#6944 <https://github.com/scipy/scipy/pull/6944>`__: DOC: Add example of odeint with a banded Jacobian to the integrate... - - `#6946 <https://github.com/scipy/scipy/pull/6946>`__: ENH: hypergeom.logpmf in terms of betaln - - `#6947 <https://github.com/scipy/scipy/pull/6947>`__: TST: speedup distance tests - - `#6948 <https://github.com/scipy/scipy/pull/6948>`__: DEP: Deprecate the keyword "debug" from linalg.solve - - `#6950 <https://github.com/scipy/scipy/pull/6950>`__: BUG: Correctly treat large integers in MMIO (fixes #6397) - - `#6952 <https://github.com/scipy/scipy/pull/6952>`__: ENH: Minor user-friendliness cleanup in LowLevelCallable - - `#6956 <https://github.com/scipy/scipy/pull/6956>`__: DOC: improve description of 'output' keyword for convolve - - `#6957 <https://github.com/scipy/scipy/pull/6957>`__: ENH more informative error in sparse.bmat - - `#6962 <https://github.com/scipy/scipy/pull/6962>`__: Shebang fixes - - `#6964 <https://github.com/scipy/scipy/pull/6964>`__: DOC: note argmin/argmax addition - - `#6965 <https://github.com/scipy/scipy/pull/6965>`__: BUG: Fix issues passing error tolerances in dblquad and tplquad. - - `#6971 <https://github.com/scipy/scipy/pull/6971>`__: fix the docstring of signaltools.correlate - - `#6973 <https://github.com/scipy/scipy/pull/6973>`__: Silence expected numpy warnings in scipy.ndimage.interpolation.zoom() - - `#6975 <https://github.com/scipy/scipy/pull/6975>`__: BUG: special: fix regex in `generate_ufuncs.py` - - `#6976 <https://github.com/scipy/scipy/pull/6976>`__: Update docstring for griddata - - `#6978 <https://github.com/scipy/scipy/pull/6978>`__: Avoid division by zero in zoom factor calculation - - `#6979 <https://github.com/scipy/scipy/pull/6979>`__: BUG: ARE solvers did not check the generalized case carefully - - `#6985 <https://github.com/scipy/scipy/pull/6985>`__: ENH: sparse: add scipy.sparse.linalg.spsolve_triangular - - `#6994 <https://github.com/scipy/scipy/pull/6994>`__: MAINT: spatial: updates to plotting utils - - `#6995 <https://github.com/scipy/scipy/pull/6995>`__: DOC: Bad documentation of k in sparse.linalg.eigs See #6990 - - `#6997 <https://github.com/scipy/scipy/pull/6997>`__: TST: Changed the test with a less singular example - - `#7000 <https://github.com/scipy/scipy/pull/7000>`__: DOC: clarify interp1d 'zero' argument - - `#7007 <https://github.com/scipy/scipy/pull/7007>`__: BUG: Fix division by zero in linregress() for 2 data points - - `#7009 <https://github.com/scipy/scipy/pull/7009>`__: BUG: Fix problem in passing drop_rule to scipy.sparse.linalg.spilu - - `#7012 <https://github.com/scipy/scipy/pull/7012>`__: speed improvment in _distn_infrastructure.py - - `#7014 <https://github.com/scipy/scipy/pull/7014>`__: Fix Typo: add a single quotation mark to fix a slight typo - - `#7021 <https://github.com/scipy/scipy/pull/7021>`__: MAINT: stats: use machine constants from np.finfo, not machar - - `#7026 <https://github.com/scipy/scipy/pull/7026>`__: MAINT: update .mailmap - - `#7032 <https://github.com/scipy/scipy/pull/7032>`__: Fix layout of rv_histogram docs - - `#7035 <https://github.com/scipy/scipy/pull/7035>`__: DOC: update 0.19.0 release notes - - `#7036 <https://github.com/scipy/scipy/pull/7036>`__: ENH: Add more boundary options to signal.stft - - `#7040 <https://github.com/scipy/scipy/pull/7040>`__: TST: stats: skip too slow tests - - `#7042 <https://github.com/scipy/scipy/pull/7042>`__: MAINT: sparse: speed up setdiag tests - - `#7043 <https://github.com/scipy/scipy/pull/7043>`__: MAINT: refactory and code cleaning Xdist - - `#7053 <https://github.com/scipy/scipy/pull/7053>`__: Fix msvc 9 and 10 compile errors - - `#7060 <https://github.com/scipy/scipy/pull/7060>`__: DOC: updated release notes with #7043 and #6656 - - `#7062 <https://github.com/scipy/scipy/pull/7062>`__: MAINT: Change defaut STFT boundary kwarg to "zeros" - - `#7064 <https://github.com/scipy/scipy/pull/7064>`__: Fix ValueError: path is on mount 'X:', start on mount 'D:' on... - - `#7067 <https://github.com/scipy/scipy/pull/7067>`__: TST: Fix PermissionError: [Errno 13] Permission denied on Windows - - `#7068 <https://github.com/scipy/scipy/pull/7068>`__: TST: Fix UnboundLocalError: local variable 'data' referenced... - - `#7069 <https://github.com/scipy/scipy/pull/7069>`__: Fix OverflowError: Python int too large to convert to C long... - - `#7071 <https://github.com/scipy/scipy/pull/7071>`__: TST: silence RuntimeWarning for nan test of stats.spearmanr - 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1 0

dense output option in integrate.ode
by Evgeni Burovski 20 Feb '17

20 Feb '17

Hi David, Hi Jim, > I am new to SciPy-dev. Will the dense output option in scipy.integrate.ode > become available in 0.17.0? This is a feature already available in the > original FORTAN, but wasn't implemented in the wrapper. If the feature is sent as a pull request against the scipy master branch, the PR is reviewed by the maintainers of the integrate package and merged into master before the release split, then yes, it would be available in 0.17.0. So far I do not see any progress towards it. > I wrote these dense output extensions that you listed: > > https://github.com/jddmartin/scipy/tree/dense_output_from_dopri5_and_dop853 > https://github.com/jddmartin/dense_output_example_usage > > but I didn't issue any pull request to scipy. I sent this message to the > scipy developers list: > http://article.gmane.org/gmane.comp.python.scientific.devel/19635/ > explaining the changes. I was hoping for some feedback before issuing a > pull request. Ah, I see that the email likely fell through the cracks back in April. Sorry about that. You might want to ping that email thread once more or send a pull request on github (or both). <snip> Cheers, Evgeni

3 5

Documentation of scipy.interpolate.splprep
by ashwin.pathak 18 Feb '17

18 Feb '17

I was solving the issue #6618, but I could not find the part of the source code where doc-string of scipy.interpolate.splprep is written. Can someone please point me out where I can find the doc-string?

2 1

tricky unary versus binary minus
by josef.pktd＠gmail.com 18 Feb '17

18 Feb '17

just an observation >>> bwi 25 >>> - bwi // 2 # not what I wanted -13 >>> 0 - bwi // 2 -12 >>> - (bwi // 2) -12 different rules from float division >>> 0 - bwi / 2 -12.5 >>> - bwi / 2 -12.5 bug in my code Josef

3 4