SciPy-Dev

Download

scipy-dev@python.org

January 2022

9 participants
12 discussions

New feature: fitting distributions to censored data.
by Warren Weckesser 29 Aug '22

29 Aug '22

Hey folks, A new enhancement for fitting probability distributions to censored data by maximum likelihood estimation is in progress in https://github.com/scipy/scipy/pull/13699 This is a feature in the statistics roadmap, and is part of the work for the CZI EOSS cycle 1 grant. Censored data is data where the true value of the measurement is unknown, but there is a known bound. The common terminology is: * left-censored: The true value is greater than some known bound. * right-censored: The true value is less than some known bound. * interval-censored: The true value is between known bounds. (By allowing the bounds to be +inf and -inf, we can think of all these cases as interval-censored.) In the PR, a new class, `CensoredData`, is defined to represent censored data. The `fit` method of the univariate continuous distributions is updated to accept an instance of `CensoredData`. The `CensoredData` class constructor accepts two arrays, `lower` and `upper`, to hold the known bounds of the data. (If `lower[i] == upper[i]`, it means that data value is not censored.) Because it is quite common for data to be encountered where the only censored values in the data set are either all right-censored or all left-censored, two convenience methods, `CensoredData.right_censored(x, censored)` and `CensoredData.left_censored(x, censored)`, are provide to create a `CensoredData` instance from an array of values and a corresponding boolean array that indicates if the value is censored. Here's a quick example, with data from https://www.itl.nist.gov/div898/handbook/apr/section4/apr413.htm. The data table shows 10 regular values and 10 right-censored values. The results reported there for fitting the two-parameter Weibull distribution (location fixed at 0) to that data are shape = 1.7208 scale = 606.5280 Here's the calculation using the proposed API in SciPy: In [55]: from scipy.stats import weibull_min, CensoredData Create the `CensoredData` instance: In [56]: x = np.array([54, 187, 216, 240, 244, 335, 361, 373, 375, 386] + [500]*10) In [57]: data = CensoredData.right_censored(x, x == 500) In [58]: print(data) CensoredData(20 values: 10 not censored, 10 right-censored) Fit `weibull_min` (with the location fixed at 0) to the censored data: In [59]: shape, loc, scale = weibull_min.fit(data, floc=0) In [60]: shape Out[60]: 1.720797180719942 In [61]: scale Out[61]: 606.527565269458 Matt Haberland has already suggested quite a few improvements to the PR. Additional comments would be appreciated. Warren

4 7

proposal to use SciPy project funds for build and CI improvements
by Ralf Gommers 13 Apr '22

13 Apr '22

Hi all, I'd like to make a proposal to use some project funds to make faster progress on moving to a new build system and improving our CI timeout issues. Because this is the first such proposal, let me first deal with the meta issue of _how_ to deal with this. At the start of the year I co-wrote NEP 48 (https://numpy.org/neps/nep-0048-spending-project-funds.html) to have a framework for NumPy for spending project funds. I'd like to follow that NEP also for SciPy. So I'll make the proposal here, in accordance with that NEP, and then the other thing is to figure out where to put it up as a PR (or wiki page, or ...). For that my proposal is: create a new repo called something like `project-mgmt`, where we can put such proposals as well as meeting minutes, presentations, and other content. And have a single summary page in Markdown format with a list of all proposals made, linking out to the full proposals. On to the actual proposal, keeping in mind https://numpy.org/neps/nep-0048-spending-project-funds.html#defining-fundab… . Title: Accelerating the move to Meson as the SciPy build system Cost: $12,000 Time duration: 3 months Team members: Matthew Brett (funded), Ralf Gommers (unfunded), Gagandeep Singh (unfunded), Smit Lunagariya (funded) Context: 1. Multiple people recently told me that our current build system and CI issues are a pain point for working on SciPy. We have CI timeouts on our main repo, scipy-wheels is a pain, conda-forge is also timing out on aarch64 and ppc64le build. And I've found myself spending a whole day or weekend several times in the past months to fix broken CI jobs due to build/packaging issues. 2. About 4 months ago, I wrote an RFC to move to Meson as a build system, see https://github.com/scipy/scipy/issues/13615. Since then I have spent a lot of time on this, and also used Quansight Labs funding to get one of my colleagues, Gagandeep Singh, to help me move this forward faster (and he has been super helpful). Getting a Linux + OpenBLAS dev build is close to done (16 of 20 modules complete, all that's left is `misc`, `io`, `integrate` and `signal` - probably those can be completed in the coming week). 3. Doing everything else, like adding support for Windows/aarch64/MKL/ILP64/etc. is still a lot of work. There's a tracking issue at https://github.com/rgommers/scipy/issues/22. Some of this stuff is pretty specialized, e.g., building wheels, and Fortran-on-Windows. It will take a long time to complete if it's just me spending time on the weekends. 4. Matthew Brett is available to help soon. He has written multibuild and dealt with build/packaging topics for a long time, so I think he would be able to make progress quickly. He wants to work on this topic as an independent contractor (I won't add rates here, that's for the core team to look at - but they're very reasonable). The overall goals of this effort are: 1. Get a (mostly) feature-complete Meson based build system in place by the end of October, so we can ship it in the 1.8.0 release. If all goes well, get rid of the `numpy.distutils` based build 1 release later. 2. Resolve all our CI timeout issues. If the build system alone isn't enough (it should be though), analyze the remaining issues and figure out how to tackle whatever is still problematic. The deliverables are, in order of priority: 1. Add capability to build release artifacts (wheels, sdist). I did some initial tests at the start with mesonpep517, but I have no idea if it works for SciPy and what bugs are lurking there. 2. macOS support 3. Add support for things we need to a dev.py interface (basically, like runtests.py in that it can do everything, like building docs, running benchmarks, etc.) 4. Contribute a few things we need, or that would make the build setup better, to Meson. For example, I think we'd want to be able to use `py3.install_sources` on generated targets. Of course I'm still new-ish to Meson, so it could well be that after making a proposal on the Meson issue tracker, another solution will be preferred. 5. Windows support 6. Improve build dependency detection and configuration - in particular BLAS/LAPACK flavors. 7. Clean up as many build warnings as possible, and silence the rest. The goal is to have a CI job that is completely silent (passes with `-Werror`). 8. Optimize build time further, including on CI (e.g., reuse build cache between jobs). I'd like to use 75% of the funds to pay Matthew, and 25% of the funds to take on a talented intern, Smit Lunagariya. He is comfortable working in Python, C and C++, and will be able to help with deliverables 7 and 8, as well as with testing and other tasks. Overall I'm not certain that this amount of funds is enough to complete every last deliverable on this list; it's hard to estimate. But we should certainly get close, and be able to ship a Meson build in 1.8.0. For a quick sketch of the benefits: - On my machine the build time is currently 13 minutes with numpy.distutils and 90 seconds with Meson - The build log goes from >10,000 lines (mostly noise) to ~100 lines (mostly configuration info). Why should this be a funded activity? For two reasons: (1) build and CI issues are probably the number one maintenance issue we have, and (2) most people find working on build/CI boring and painful, and hence it doesn't happen with volunteer-only activities. Even regular maintenance of our CI is hard - recently jobs have been broken for 1-2 weeks at a time a couple of times. And the scipy-wheels repo is in even worse shape. My proposal is to designate this topic as high priority, let the core team approve the compensation levels for the funded people, and get the work started. For reporting on progress and to have some accountability about how we spent the funds, I propose a short report (say 1 page, giving a status update and linking the main PRs made or issues closed) when half the funds are spent, and another such report at the end. In addition I'll plan to write a small development grant for this when the next call for that opens up, because I think we want Matthew to continue working on this after this $12,000 has been spent. I'd like to get everything as good as it can be, so other projects can easily adopt Meson as well - to also achieve my not-so-secret goal of not having to integrate numpy.distutils capabilities into setuptools once distutils is removed from Python. Thoughts? Cheers, Ralf

5 6

Contributor experience and community meetings
by Melissa Mendonça 02 Feb '22

02 Feb '22

Hello, all! As some of you may know, recently we have been awarded a joint grant for NumPy, SciPy, matplotlib and pandas, aiming to improve contributor experience and hopefully explore and execute actions that help sustain and improve our communities. You can read the full grant proposal here [1]. As part of this grant, I will be dedicating some time to SciPy. Currently, I am an active contributor to NumPy but have only started with tiny contributions to SciPy. One action that we think might be beneficial to the projects is setting up community meetings, in this case picking up on the work Pamphile Roy was doing last year. Of course, the maintainers have the final word here, but I'd like to offer help with organizing, archiving notes, and whatever else you all feel might be helpful :) For this, we must first decide on a time and date. If you can, please answer this poll with your preferred times: https://whenisgood.net/mfd5qhz We can re-use the hackmd that Pamphile set up for the notes: https://hackmd.io/pyhudrC5TgSwdJtpPldHgQ Feel free to add to this hackmd anything you think might be worth discussing to the agenda. Depending on the poll results we can figure out frequency, but initially I would be happy to organize this every two weeks, alternating time zones if we feel this would include more people. Please let me know if there are any questions, concerns or suggestions - I am looking forward to getting more involved and helping in any way I can. Cheers, Melissa [1] https://figshare.com/articles/online_resource/Advancing_an_inclusive_cultur…

3 5

ANN: SciPy 1.8.0rc4 -- please test
by Tyler Reddy 30 Jan '22

30 Jan '22

Hi all, On behalf of the SciPy development team I'm pleased to announce the release candidate SciPy 1.8.0rc4. Please help us test this pre-release. Sources and binary wheels can be found at: https://pypi.org/project/scipy/ and at: https://github.com/scipy/scipy/releases/tag/v1.8.0rc4 One of a few ways to install the release candidate with pip: pip install scipy==1.8.0rc4 ===================== SciPy 1.8.0 Release Notes ===================== Note: SciPy 1.8.0 is not released yet! SciPy 1.8.0 is the culmination of 6 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. Before upgrading, we recommend that users check that their own code does not use deprecated SciPy functionality (to do so, run your code with ``python -Wd`` and check for ``DeprecationWarning`` s). Our development attention will now shift to bug-fix releases on the 1.8.x branch, and on adding new features on the master branch. This release requires Python 3.8+ and NumPy 1.17.3 or greater. For running on PyPy, PyPy3 6.0+ is required. **************************** Highlights of this release **************************** - A sparse array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. - The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. It is currently default-off due to potential issues on Windows that we aim to resolve in the next release, but can be optionally enabled at runtime for friendly testing with an environment variable setting of ``USE_PROPACK=1``. - A new `scipy.stats.sampling` submodule that leverages the ``UNU.RAN`` C library to sample from arbitrary univariate non-uniform continuous and discrete distributions - All namespaces that were private but happened to miss underscores in their names have been deprecated. *************** New features *************** `scipy.fft` improvements ================== Added an ``orthogonalize=None`` parameter to the real transforms in `scipy.fft` which controls whether the modified definition of DCT/DST is used without changing the overall scaling. `scipy.fft` backend registration is now smoother, operating with a single registration call and no longer requiring a context manager. `scipy.integrate` improvements ======================== `scipy.integrate.quad_vec` introduces a new optional keyword-only argument, ``args``. ``args`` takes in a tuple of extra arguments if any (default is ``args=()``), which is then internally used to pass into the callable function (needing these extra arguments) which we wish to integrate. `scipy.interpolate` improvements ========================= `scipy.interpolate.BSpline` has a new method, ``design_matrix``, which constructs a design matrix of b-splines in the sparse CSR format. A new method ``from_cubic`` in ``BSpline`` class allows to convert a ``CubicSpline`` object to ``BSpline`` object. `scipy.linalg` improvements ===================== `scipy.linalg` gained three new public array structure investigation functions. `scipy.linalg.bandwidth` returns information about the bandedness of an array and can be used to test for triangular structure discovery, while `scipy.linalg.issymmetric` and `scipy.linalg.ishermitian` test the array for exact and approximate symmetric/Hermitian structure. `scipy.optimize` improvements ======================== `scipy.optimize.check_grad` introduces two new optional keyword only arguments, ``direction`` and ``seed``. ``direction`` can take values, ``'all'`` (default), in which case all the one hot direction vectors will be used for verifying the input analytical gradient function and ``'random'``, in which case a random direction vector will be used for the same purpose. ``seed`` (default is ``None``) can be used for reproducing the return value of ``check_grad`` function. It will be used only when ``direction='random'``. The `scipy.optimize.minimize` ``TNC`` method has been rewritten to use Cython bindings. This also fixes an issue with the callback altering the state of the optimization. Added optional parameters ``target_accept_rate`` and ``stepwise_factor`` for adapative step size adjustment in ``basinhopping``. The ``epsilon`` argument to ``approx_fprime`` is now optional so that it may have a default value consistent with most other functions in `scipy.optimize`. `scipy.signal` improvements ===================== Add ``analog`` argument, default ``False``, to ``zpk2sos``, and add new pairing option ``'minimal'`` to construct analog and minimal discrete SOS arrays. ``tf2sos`` uses zpk2sos; add ``analog`` argument here as well, and pass it on to ``zpk2sos``. ``savgol_coeffs`` and ``savgol_filter`` now work for even window lengths. Added the Chirp Z-transform and Zoom FFT available as `scipy.signal.CZT` and `scipy.signal.ZoomFFT`. `scipy.sparse` improvements ====================== An array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. Please refer to the `scipy.sparse` docstring for more information. ``maximum_flow`` introduces optional keyword only argument, ``method`` which accepts either, ``'edmonds-karp'`` (Edmonds Karp algorithm) or ``'dinic'`` (Dinic's algorithm). Moreover, ``'dinic'`` is used as default value for ``method`` which means that Dinic's algorithm is used for computing maximum flow unless specified. See, the comparison between the supported algorithms in `this comment <https://github.com/scipy/scipy/pull/14358#issue-684212523>`_. Parameters ``atol``, ``btol`` now default to 1e-6 in `scipy.sparse.linalg.lsmr` to match with default values in `scipy.sparse.linalg.lsqr`. Add the Transpose-Free Quasi-Minimal Residual algorithm (TFQMR) for general nonsingular non-Hermitian linear systems in `scipy.sparse.linalg.tfqmr`. The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. For some problems, this may be faster and/or more accurate than the default, ARPACK. PROPACK functionality is currently opt-in--you must specify ``USE_PROPACK=1`` at runtime to use it due to potential issues on Windows that we aim to resolve in the next release. ``sparse.linalg`` iterative solvers now have a nonzero initial guess option, which may be specified as ``x0 = 'Mb'``. The ``trace`` method has been added for sparse matrices. `scipy.spatial` improvements ====================== `scipy.spatial.transform.Rotation` now supports item assignment and has a new ``concatenate`` method. Add `scipy.spatial.distance.kulczynski1` in favour of `scipy.spatial.distance.kulsinski` which will be deprecated in the next release. `scipy.spatial.distance.minkowski` now also supports ``0<p<1``. `scipy.special` improvements ====================== The new function `scipy.special.log_expit` computes the logarithm of the logistic sigmoid function. The function is formulated to provide accurate results for large positive and negative inputs, so it avoids the problems that would occur in the naive implementation ``log(expit(x))``. A suite of five new functions for elliptic integrals: ``scipy.special.ellipr{c,d,f,g,j}``. These are the `Carlson symmetric elliptic integrals <https://dlmf.nist.gov/19.16>`_, which have computational advantages over the classical Legendre integrals. Previous versions included some elliptic integrals from the Cephes library (``scipy.special.ellip{k,km1,kinc,e,einc}``) but was missing the integral of third kind (Legendre's Pi), which can be evaluated using the new Carlson functions. The new Carlson elliptic integral functions can be evaluated in the complex plane, whereas the Cephes library's functions are only defined for real inputs. Several defects in `scipy.special.hyp2f1` have been corrected. Approximately correct values are now returned for ``z`` near ``exp(+-i*pi/3)``, fixing `#8054 <https://github.com/scipy/scipy/issues/8054>`_. Evaluation for such ``z`` is now calculated through a series derived by `López and Temme (2013) <https://arxiv.org/abs/1306.2046>`_ that converges in these regions. In addition, degenerate cases with one or more of ``a``, ``b``, and/or ``c`` a non-positive integer are now handled in a manner consistent with `mpmath's hyp2f1 implementation < https://mpmath.org/doc/current/functions/hypergeometric.html>`_, which fixes `#7340 <https://github.com/scipy/scipy/issues/7340>`_. These fixes were made as part of an effort to rewrite the Fortran 77 implementation of hyp2f1 in Cython piece by piece. This rewriting is now roughly 50% complete. `scipy.stats` improvements ===================== `scipy.stats.qmc.LatinHypercube` introduces two new optional keyword-only arguments, ``optimization`` and ``strength``. ``optimization`` is either ``None`` or ``random-cd``. In the latter, random permutations are performed to improve the centered discrepancy. ``strength`` is either 1 or 2. 1 corresponds to the classical LHS while 2 has better sub-projection properties. This construction is referred to as an orthogonal array based LHS of strength 2. In both cases, the output is still a LHS. `scipy.stats.qmc.Halton` is faster as the underlying Van der Corput sequence was ported to Cython. The ``alternative`` parameter was added to the ``kendalltau`` and ``somersd`` functions to allow one-sided hypothesis testing. Similarly, the masked versions of ``skewtest``, ``kurtosistest``, ``ttest_1samp``, ``ttest_ind``, and ``ttest_rel`` now also have an ``alternative`` parameter. Add `scipy.stats.gzscore` to calculate the geometrical z score. Random variate generators to sample from arbitrary univariate non-uniform continuous and discrete distributions have been added to the new `scipy.stats.sampling` submodule. Implementations of a C library `UNU.RAN <http://statmath.wu.ac.at/software/unuran/>`_ are used for performance. The generators added are: - TransformedDensityRejection - DiscreteAliasUrn - NumericalInversePolynomial - DiscreteGuideTable - SimpleRatioUniforms The ``binned_statistic`` set of functions now have improved performance for the ``std``, ``min``, ``max``, and ``median`` statistic calculations. ``somersd`` and ``_tau_b`` now have faster Pythran-based implementations. Some general efficiency improvements to handling of ``nan`` values in several ``stats`` functions. Added the Tukey-Kramer test as `scipy.stats.tukey_hsd`. Improved performance of `scipy.stats.argus` ``rvs`` method. Added the parameter ``keepdims`` to `scipy.stats.variation` and prevent the undesirable return of a masked array from the function in some cases. ``permutation_test`` performs an exact or randomized permutation test of a given statistic on provided data. *********************** Deprecated features *********************** Clear split between public and private API ================================ SciPy has always documented what its public API consisted of in :ref:`its API reference docs <scipy-api>`, however there never was a clear split between public and private namespaces in the code base. In this release, all namespaces that were private but happened to miss underscores in their names have been deprecated. These include (as examples, there are many more): - ``scipy.signal.spline`` - ``scipy.ndimage.filters`` - ``scipy.ndimage.fourier`` - ``scipy.ndimage.measurements`` - ``scipy.ndimage.morphology`` - ``scipy.ndimage.interpolation`` - ``scipy.sparse.linalg.solve`` - ``scipy.sparse.linalg.eigen`` - ``scipy.sparse.linalg.isolve`` All functions and other objects in these namespaces that were meant to be public are accessible from their respective public namespace (e.g. `scipy.signal`). The design principle is that any public object must be accessible from a single namespace only; there are a few exceptions, mostly for historical reasons (e.g., ``stats`` and ``stats.distributions`` overlap). For other libraries aiming to provide a SciPy-compatible API, it is now unambiguous what namespace structure to follow. See `gh-14360 <https://github.com/scipy/scipy/issues/14360>`_ for more details. Other deprecations =============== ``NumericalInverseHermite`` has been deprecated from `scipy.stats` and moved to the `scipy.stats.sampling` submodule. It now uses the C implementation of the UNU.RAN library so the result of methods like ``ppf`` may vary slightly. Parameter ``tol`` has been deprecated and renamed to ``u_resolution``. The parameter ``max_intervals`` has also been deprecated and will be removed in a future release of SciPy. *************************************** Backwards incompatible changes *************************************** - SciPy has raised the minimum compiler versions to GCC 6.3 on linux and VS2019 on windows. In particular, this means that SciPy may now use C99 and C++14 features. For more details see `here <https://docs.scipy.org/doc/scipy/reference/dev/toolchain.html>`_. - The result for empty bins for `scipy.stats.binned_statistic` with the builtin ``'std'`` metric is now ``nan``, for consistency with ``np.std``. - The function `scipy.spatial.distance.wminkowski` has been removed. To achieve the same results as before, please use the ``minkowski`` distance function with the (optional) ``w=`` keyword-argument for the given weight. ***************** Other changes ***************** Some Fortran 77 code was modernized to be compatible with NAG's nagfor Fortran compiler (see, e.g., `PR 13229 <https://github.com/scipy/scipy/pull/13229 >`_). ``threadpoolctl`` may now be used by our test suite to substantially improve the efficiency of parallel test suite runs. ********** Authors ********** * @endolith * adamadanandy + * akeemlh + * Anton Akhmerov * Marvin Albert + * alegresor + * Andrew Annex + * Pantelis Antonoudiou + * Ross Barnowski + * Christoph Baumgarten * Stephen Becker + * Nickolai Belakovski * Peter Bell * berberto + * Georgii Bocharov + * Evgeni Burovski * Matthias Bussonnier * CJ Carey * Justin Charlong + * Hood Chatham + * Dennis Collaris + * David Cottrell + * cruyffturn + * da-woods + * Anirudh Dagar * Tiger Du + * Thomas Duvernay * Dani El-Ayyass + * Castedo Ellerman + * Donnie Erb + * Andreas Esders-Kopecky + * Livio F + * Isuru Fernando * Evelyn Fitzgerald + * Sara Fridovich-Keil + * Mark E Fuller + * Ralf Gommers * Kevin Richard Green + * guiweber + * Nitish Gupta + * h-vetinari * Matt Haberland * J. Hariharan + * Charles Harris * Jonathan Helgert + * Trever Hines * Nadav Horesh * Ian Hunt-Isaak + * ich + * Itrimel + * Jan-Hendrik Müller + * Jebby993 + * Yikun Jiang + * Evan W Jones + * Nathaniel Jones + * Jeffrey Kelling + * Malik Idrees Hasan Khan + * Paul Kienzle * Sergey B Kirpichev * Kadatatlu Kishore + * Andrew Knyazev * Ravin Kumar + * Peter Mahler Larsen * Eric Larson * Antony Lee * Gregory R. Lee * Tim Leslie * lezcano + * Xingyu Liu * Christian Lorentzen * Lorenzo + * Smit Lunagariya + * Lv101Magikarp + * Yair M + * Cong Ma * Lorenzo Maffioli + * majiang + * Brian McFee + * Nicholas McKibben * John Speed Meyers + * millivolt9 + * Jarrod Millman * Harsh Mishra + * Boaz Mohar + * naelsondouglas + * Andrew Nelson * Nico Schlömer * Thomas Nowotny + * nullptr + * Teddy Ort + * Nick Papior * ParticularMiner + * Dima Pasechnik * Tirth Patel * Matti Picus * Ilhan Polat * Adrian Price-Whelan + * Quentin Barthélemy + * Sundar R + * Judah Rand + * Tyler Reddy * Renal-Of-Loon + * Frederic Renner + * Pamphile Roy * Bharath Saiguhan + * Atsushi Sakai * Eric Schanet + * Sebastian Wallkötter * serge-sans-paille * Reshama Shaikh + * Namami Shanker * siddhantwahal + * Walter Simson + * Gagandeep Singh + * Leo C. Stein + * Albert Steppi * Kai Striega * Diana Sukhoverkhova * Søren Fuglede Jørgensen * Masayuki Takagi + * Mike Taves * Ben Thompson + * Bas van Beek * Jacob Vanderplas * Dhruv Vats + * H. Vetinari + * Thomas Viehmann + * Pauli Virtanen * Vlad + * Arthur Volant * Samuel Wallan * Stefan van der Walt * Warren Weckesser * Josh Wilson * Haoyin Xu + * Rory Yorke * Egor Zemlyanoy * Gang Zhao + * 赵丰 (Zhao Feng) + A total of 139 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 1.8.0 ************************** * `#592 <https://github.com/scipy/scipy/issues/592>`__: Statistics Review: variation (Trac #65) * `#857 <https://github.com/scipy/scipy/issues/857>`__: A Wrapper for PROPACK (Trac #330) * `#2009 <https://github.com/scipy/scipy/issues/2009>`__: "Kulsinski" dissimilarity seems wrong (Trac #1484) * `#2063 <https://github.com/scipy/scipy/issues/2063>`__: callback functions for COBYLA and TNC (Trac #1538) * `#2358 <https://github.com/scipy/scipy/issues/2358>`__: ndimage.center_of_mass doesnt return all for all labelled objects... * `#5668 <https://github.com/scipy/scipy/issues/5668>`__: Need zpk2sos for analog filters * `#7340 <https://github.com/scipy/scipy/issues/7340>`__: SciPy Hypergeometric function hyp2f1 producing infinities * `#8774 <https://github.com/scipy/scipy/issues/8774>`__: In \`optimize.basinhopping\`, the target acceptance rate should... * `#10497 <https://github.com/scipy/scipy/issues/10497>`__: scipy.sparse.csc_matrix.toarray docstring is wrong * `#10888 <https://github.com/scipy/scipy/issues/10888>`__: Check finite difference gradient approximation in a random direction * `#10974 <https://github.com/scipy/scipy/issues/10974>`__: Non explicit error message in lobpcg * `#11452 <https://github.com/scipy/scipy/issues/11452>`__: Normalisation requirement for \`Wn\` unclear in \`scipy.signal.butter\` * `#11700 <https://github.com/scipy/scipy/issues/11700>`__: solve_ivp errors out instead of simply quitting after the solve... * `#12006 <https://github.com/scipy/scipy/issues/12006>`__: newton: Shouldn't it take a Jacobian for multivariate problems... * `#12100 <https://github.com/scipy/scipy/issues/12100>`__: solve_ivp: custom t_eval list and the terminating event * `#12106 <https://github.com/scipy/scipy/issues/12106>`__: \`axis\` option for \`stats.tmean\` do not appear to be working... * `#12192 <https://github.com/scipy/scipy/issues/12192>`__: \`scipy.stats.rv_continuous.moment\` does not accept array input * `#12502 <https://github.com/scipy/scipy/issues/12502>`__: Divide by zero in Jacobian numerical differentiation when equality... * `#12981 <https://github.com/scipy/scipy/issues/12981>`__: SLSQP constrained minimization error in 1.5.2 * `#12999 <https://github.com/scipy/scipy/issues/12999>`__: Bug in scipy.stats.ks_2samp for two-sided auto and exact modes... * `#13402 <https://github.com/scipy/scipy/issues/13402>`__: ENH: Faster Max Flow algorithm in scipy.sparse.csgraph * `#13580 <https://github.com/scipy/scipy/issues/13580>`__: truncnorm gives incorrect means and variances * `#13642 <https://github.com/scipy/scipy/issues/13642>`__: stats.truncnorm variance works incorrectly when input is an array. * `#13659 <https://github.com/scipy/scipy/issues/13659>`__: Orthogonal Array for Latin hypercube in \`scipy.stats.qmc\` * `#13737 <https://github.com/scipy/scipy/issues/13737>`__: brentq can overflow / underflow * `#13745 <https://github.com/scipy/scipy/issues/13745>`__: different default atol, btol for lsqr, lsmr * `#13898 <https://github.com/scipy/scipy/issues/13898>`__: Savitzky-Golay filter for even number data * `#13902 <https://github.com/scipy/scipy/issues/13902>`__: Different solvers of \`svds\` return quite different results * `#13922 <https://github.com/scipy/scipy/issues/13922>`__: Need Exception / Error for Incorrect and/or misleading analog... * `#14122 <https://github.com/scipy/scipy/issues/14122>`__: Item assignement for spatial.transform.Rotation objects * `#14140 <https://github.com/scipy/scipy/issues/14140>`__: Likely unnecessary invalid value warning from PchipInterpolator * `#14152 <https://github.com/scipy/scipy/issues/14152>`__: zpk2sos not working correctly when butterworth band-pass filter... * `#14165 <https://github.com/scipy/scipy/issues/14165>`__: scipy.optimize.minimize method='Nelder-Mead': 'maxfev' is not... * `#14168 <https://github.com/scipy/scipy/issues/14168>`__: Missing "inverse" word in the multidimensional Discrete Cosine/Sine... * `#14189 <https://github.com/scipy/scipy/issues/14189>`__: Incorrect shape handling in \`scipy.stat.multivariate_t.rvs\`... * `#14190 <https://github.com/scipy/scipy/issues/14190>`__: Links in documentation of Dirichlet distribution are a mess * `#14193 <https://github.com/scipy/scipy/issues/14193>`__: Implementation of scrambled Van der Corput sequence differs from... * `#14217 <https://github.com/scipy/scipy/issues/14217>`__: Error in documentation for \`scipy.stats.gaussian_kde.factor\` * `#14235 <https://github.com/scipy/scipy/issues/14235>`__: Should this be $y$ only, instead of $m_y$? * `#14236 <https://github.com/scipy/scipy/issues/14236>`__: BUG: discrete isf is wrong at boundary if loc != 0 * `#14277 <https://github.com/scipy/scipy/issues/14277>`__: Broken reference in docstring of scipy.stats.power_divergence * `#14324 <https://github.com/scipy/scipy/issues/14324>`__: BUG: scipy.stats.theilslopes intercept calculation can produce... * `#14332 <https://github.com/scipy/scipy/issues/14332>`__: Strange output of \`binned_statistic_dd\` with \`statistic=sum\` * `#14340 <https://github.com/scipy/scipy/issues/14340>`__: Initialize Rotation using list or array of Rotations * `#14346 <https://github.com/scipy/scipy/issues/14346>`__: scipy.stats.rv_continuous.fit returns wrapper instead of fit... * `#14360 <https://github.com/scipy/scipy/issues/14360>`__: Making clearer what namespaces are public by use of underscores * `#14385 <https://github.com/scipy/scipy/issues/14385>`__: csgraph.maximum_flow can cause Python crash for large but very... * `#14409 <https://github.com/scipy/scipy/issues/14409>`__: Lagrange polynomials and numpy Polynomials * `#14412 <https://github.com/scipy/scipy/issues/14412>`__: Extra function arguments to \`scipy.integrate.quad_vec\` * `#14416 <https://github.com/scipy/scipy/issues/14416>`__: Is the r-value outputted by scipy.stats.linregress always the... * `#14420 <https://github.com/scipy/scipy/issues/14420>`__: BUG: RBFInterpolator fails when calling it with a slice of a... * `#14425 <https://github.com/scipy/scipy/issues/14425>`__: Running tests in parallel is not any faster than without pytest-xdist... * `#14445 <https://github.com/scipy/scipy/issues/14445>`__: BUG: out of bounds indexing issue in \`prini.f\` * `#14482 <https://github.com/scipy/scipy/issues/14482>`__: Azure CI jobs do not set exit status for build stage correctly * `#14491 <https://github.com/scipy/scipy/issues/14491>`__: MAINT: Replace np.rollaxis with np.moveaxis * `#14501 <https://github.com/scipy/scipy/issues/14501>`__: runtests.py overrides \`$PYTHONPATH\` * `#14514 <https://github.com/scipy/scipy/issues/14514>`__: linprog kwargs not recognised * `#14529 <https://github.com/scipy/scipy/issues/14529>`__: CI: Azure pipelines don't appear to be running * `#14535 <https://github.com/scipy/scipy/issues/14535>`__: hess option does not work in minimize function * `#14551 <https://github.com/scipy/scipy/issues/14551>`__: Cannot create Compressed sparse column matrix of shape N x N-2 * `#14568 <https://github.com/scipy/scipy/issues/14568>`__: \`stats.norminvgauss\` incorrect implementation? * `#14585 <https://github.com/scipy/scipy/issues/14585>`__: DOC: toolchain updates and max Python * `#14607 <https://github.com/scipy/scipy/issues/14607>`__: scipy.sparse.linalg.inv cannot take ndarray as argument despite... * `#14608 <https://github.com/scipy/scipy/issues/14608>`__: BUG: scipy.stats.multivariate_t distribution math documentation * `#14623 <https://github.com/scipy/scipy/issues/14623>`__: BUG: Error constructing sparse matrix with indices larger than... * `#14654 <https://github.com/scipy/scipy/issues/14654>`__: DOC: Linux Devdocs workflow requires installing packages that... * `#14680 <https://github.com/scipy/scipy/issues/14680>`__: BUG: misleading documentation in scipy.stats.entropy * `#14683 <https://github.com/scipy/scipy/issues/14683>`__: DOC: OptimizeResult Notes are placed before attribute section,... * `#14733 <https://github.com/scipy/scipy/issues/14733>`__: BUG: resample_poly does not preserve dtype * `#14746 <https://github.com/scipy/scipy/issues/14746>`__: site.cfg: [ALL] or [DEFAULT]? * `#14770 <https://github.com/scipy/scipy/issues/14770>`__: BUG: lpmn ref broken link * `#14807 <https://github.com/scipy/scipy/issues/14807>`__: BUG: wrong weights of the 7-point gauss rule in QUADPACK: dqk15w.f * `#14830 <https://github.com/scipy/scipy/issues/14830>`__: do CDF inversion methods have to be public? * `#14859 <https://github.com/scipy/scipy/issues/14859>`__: BUG: constraint function is overwritten when equal bounds are... * `#14873 <https://github.com/scipy/scipy/issues/14873>`__: ENH: get the driver used in scipy.linalg.eigh * `#14879 <https://github.com/scipy/scipy/issues/14879>`__: BUG: TNC output is different if a callback is used. * `#14891 <https://github.com/scipy/scipy/issues/14891>`__: DOC: \`directed_hausdorff\` expects 2D array despite docs stating... * `#14910 <https://github.com/scipy/scipy/issues/14910>`__: \`stats.contingency\` not listed as public API * `#14911 <https://github.com/scipy/scipy/issues/14911>`__: MAINT, DOC: CI failure for doc building * `#14942 <https://github.com/scipy/scipy/issues/14942>`__: DOC: Ambiguous command instruction for running tests in Mac docs * `#14968 <https://github.com/scipy/scipy/issues/14968>`__: Debug build CI job crashes on \`stats._unuran\` threading test * `#14984 <https://github.com/scipy/scipy/issues/14984>`__: BUG: scipy.sparse.linalg.spsolve: runtime memory error caused... * `#14987 <https://github.com/scipy/scipy/issues/14987>`__: ENH: The knot interval lookup for BSpline.design_matrix is inefficient * `#15025 <https://github.com/scipy/scipy/issues/15025>`__: Might be j<=i+k? * `#15033 <https://github.com/scipy/scipy/issues/15033>`__: BUG: scipy.fft.dct type I with norm = "ortho" leads to wrong... * `#15051 <https://github.com/scipy/scipy/issues/15051>`__: BUG: test failures on aarch in wheel builder repo * `#15064 <https://github.com/scipy/scipy/issues/15064>`__: MAINT: \`interpolation\` keyword is renamed to \`method\` in... * `#15103 <https://github.com/scipy/scipy/issues/15103>`__: BUG: scipy.stats.chi.mean returns nan for large df due to use... * `#15186 <https://github.com/scipy/scipy/issues/15186>`__: Fix use of \`pytest.warns(None)\` for pytest 7.0.0 * `#15206 <https://github.com/scipy/scipy/issues/15206>`__: BUG: Minor issue with suggestions in scipy.sparse DeprecationWarnings... * `#15224 <https://github.com/scipy/scipy/issues/15224>`__: BUG: 0th power of sparse array/matrix always returns the identity... * `#15228 <https://github.com/scipy/scipy/issues/15228>`__: BUG: bounded L-BFGS-B doesn't work with a scalar. * `#15254 <https://github.com/scipy/scipy/issues/15254>`__: BUG: \`DeprecationWarning: distutils Version classes are deprecated\` * `#15267 <https://github.com/scipy/scipy/issues/15267>`__: Windows CI jobs have a build issue with Pythran 0.11 * `#15276 <https://github.com/scipy/scipy/issues/15276>`__: Boost and PROPACK git submodules are too easy to commit changes... * `#15316 <https://github.com/scipy/scipy/issues/15316>`__: BUG: Failed to install scipy 1.7.x with pypy 3.7 in aarch64 * `#15339 <https://github.com/scipy/scipy/issues/15339>`__: BUG: \`highs-ds\` returns memoryviews instead of np.arrays for... * `#15375 <https://github.com/scipy/scipy/issues/15375>`__: BUG: axis argument to scipy.stats.mode does not accept negative... ************************** Pull requests for 1.8.0 ************************** * `#4607 <https://github.com/scipy/scipy/pull/4607>`__: Add Chirp Z-transform, zoom FFT * `#10504 <https://github.com/scipy/scipy/pull/10504>`__: ENH: Carlson symmetric elliptic integrals. * `#11263 <https://github.com/scipy/scipy/pull/11263>`__: MAINT:optimize: Comply with user-specified rel_step * `#11754 <https://github.com/scipy/scipy/pull/11754>`__: ENH: stats: Updates to \`variation\`. * `#11954 <https://github.com/scipy/scipy/pull/11954>`__: ENH: improve ARGUS rv generation in scipy.stats * `#12143 <https://github.com/scipy/scipy/pull/12143>`__: BUG: Correctly use \`axis\` in \`scipy.stats.tmean\` * `#12146 <https://github.com/scipy/scipy/pull/12146>`__: DOC: add docs to explain behaviour of newton's mehod on arrays * `#12197 <https://github.com/scipy/scipy/pull/12197>`__: BUG: fix moments method to support arrays and list * `#12889 <https://github.com/scipy/scipy/pull/12889>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any() * `#13002 <https://github.com/scipy/scipy/pull/13002>`__: ENH: stats: Tukey's honestly significant difference test * `#13096 <https://github.com/scipy/scipy/pull/13096>`__: BUG: optimize: alternative fix for minimize issues with lb==ub * `#13143 <https://github.com/scipy/scipy/pull/13143>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any()... * `#13229 <https://github.com/scipy/scipy/pull/13229>`__: ENH: modernise some Fortran code, needed for nagfor compiler * `#13312 <https://github.com/scipy/scipy/pull/13312>`__: ENH: stats: add \`axis\` and \`nan_policy\` parameters to functions... * `#13347 <https://github.com/scipy/scipy/pull/13347>`__: CI: bump gcc from 4.8 to 5.x * `#13392 <https://github.com/scipy/scipy/pull/13392>`__: MAINT: streamlined kwargs for minimizer in dual_annealing * `#13419 <https://github.com/scipy/scipy/pull/13419>`__: BUG: Fix group delay singularity check * `#13471 <https://github.com/scipy/scipy/pull/13471>`__: ENH: LHS based OptimalDesign (scipy.stats.qmc) * `#13581 <https://github.com/scipy/scipy/pull/13581>`__: MAINT: stats: fix truncnorm stats with array shapes * `#13839 <https://github.com/scipy/scipy/pull/13839>`__: MAINT: set same tolerance between LSMR and LSQR * `#13864 <https://github.com/scipy/scipy/pull/13864>`__: Array scalar conversion deprecation * `#13883 <https://github.com/scipy/scipy/pull/13883>`__: MAINT: move LSAP maximization handling into solver code * `#13899 <https://github.com/scipy/scipy/pull/13899>`__: ENH: stats: add general permutation hypothesis test * `#13921 <https://github.com/scipy/scipy/pull/13921>`__: BUG: optimize: fix max function call validation for \`minimize\`... * `#13958 <https://github.com/scipy/scipy/pull/13958>`__: ENH: stats: add \`alternative\` to masked version of T-Tests * `#13960 <https://github.com/scipy/scipy/pull/13960>`__: ENH: stats: add \`alternative\` to masked normality tests * `#14007 <https://github.com/scipy/scipy/pull/14007>`__: BUG: Fix root bracketing logic in Brent's method (issue #13737) * `#14024 <https://github.com/scipy/scipy/pull/14024>`__: ENH: Add annotations for \`scipy.spatial.cKDTree\` * `#14049 <https://github.com/scipy/scipy/pull/14049>`__: MAINT: Change special.orthogonal.orthopoly1d type hints to ArrayLike * `#14132 <https://github.com/scipy/scipy/pull/14132>`__: DOC: badge with version of the doc in the navbar * `#14144 <https://github.com/scipy/scipy/pull/14144>`__: REL: set version to 1.8.0.dev0 * `#14151 <https://github.com/scipy/scipy/pull/14151>`__: BLD: update pyproject.toml - add macOS M1, drop py36 * `#14153 <https://github.com/scipy/scipy/pull/14153>`__: BUG: stats: Implementing boost's hypergeometric distribution... * `#14160 <https://github.com/scipy/scipy/pull/14160>`__: ENH: sparse.linalg: Add TFQMR algorithm for non-Hermitian sparse... * `#14163 <https://github.com/scipy/scipy/pull/14163>`__: BENCH: add benchmark for energy_distance and wasserstein_distance * `#14173 <https://github.com/scipy/scipy/pull/14173>`__: BUG: Fixed an issue wherein \`geometric_slerp\` would return... * `#14174 <https://github.com/scipy/scipy/pull/14174>`__: ENH: Add annotations to \`scipy.spatial.geometric_slerp\` * `#14183 <https://github.com/scipy/scipy/pull/14183>`__: DOC: add examples/ update mstats doc of pearsonr in scipy.stats * `#14186 <https://github.com/scipy/scipy/pull/14186>`__: TST, MAINT: hausdorff test cleanups * `#14187 <https://github.com/scipy/scipy/pull/14187>`__: DOC: interpolate: rbf has kwargs too. * `#14191 <https://github.com/scipy/scipy/pull/14191>`__: MAINT:TST:linalg modernize the test assertions * `#14192 <https://github.com/scipy/scipy/pull/14192>`__: BUG: stats: fix shape handing in multivariate_t.rvs * `#14197 <https://github.com/scipy/scipy/pull/14197>`__: CI: azure: Fix handling of 'skip azp'. * `#14200 <https://github.com/scipy/scipy/pull/14200>`__: DOC: Remove link to alpha in scipy.stats.dirichlet * `#14201 <https://github.com/scipy/scipy/pull/14201>`__: TST: cleanup in lsqr and lsmr tests * `#14204 <https://github.com/scipy/scipy/pull/14204>`__: Improve error message for index dimension * `#14208 <https://github.com/scipy/scipy/pull/14208>`__: MAINT: add invalid='ignore' to np.errstate block in PchipInterpolator * `#14209 <https://github.com/scipy/scipy/pull/14209>`__: ENH: stats: kendalltau: add alternative parameter * `#14210 <https://github.com/scipy/scipy/pull/14210>`__: BUG: Fix Nelder-Mead logic when using a non-1D x0 and adapative * `#14211 <https://github.com/scipy/scipy/pull/14211>`__: Fixed doc for gaussian_kde (kde.factor description) * `#14213 <https://github.com/scipy/scipy/pull/14213>`__: ENH: stats: somersd: add alternative parameter * `#14214 <https://github.com/scipy/scipy/pull/14214>`__: ENH: Improve the \`scipy.spatial.qhull\` annotations * `#14215 <https://github.com/scipy/scipy/pull/14215>`__: ENH: stats: Integrate library UNU.RAN in \`scipy.stats\` [GSoC... * `#14218 <https://github.com/scipy/scipy/pull/14218>`__: DOC: clarify \`ndimage.center_of_mass\` docstring * `#14219 <https://github.com/scipy/scipy/pull/14219>`__: ENH: sparse.linalg: Use the faster "sqrt" from "math" and be... * `#14222 <https://github.com/scipy/scipy/pull/14222>`__: MAINT: stats: remove unused 'type: ignore' comment * `#14224 <https://github.com/scipy/scipy/pull/14224>`__: MAINT: Modify to use new random API in benchmarks * `#14225 <https://github.com/scipy/scipy/pull/14225>`__: MAINT: fix missing LowLevelCallable in \`dir(scipy)\` * `#14226 <https://github.com/scipy/scipy/pull/14226>`__: BLD: fix warning for missing dependency, and dev version number * `#14227 <https://github.com/scipy/scipy/pull/14227>`__: MAINT: fix maybe-uninitialized warnings in lbfgbf.f * `#14228 <https://github.com/scipy/scipy/pull/14228>`__: BENCH: add more benchmarks for inferential statistics tests * `#14237 <https://github.com/scipy/scipy/pull/14237>`__: Removes unused variable * `#14240 <https://github.com/scipy/scipy/pull/14240>`__: ENH: sparse.linalg: Normalize type descriptions * `#14242 <https://github.com/scipy/scipy/pull/14242>`__: BUG: stats: fix discrete \`.isf\` to work at boundaries when... * `#14250 <https://github.com/scipy/scipy/pull/14250>`__: Error in parameter checking in cdfbin.f * `#14254 <https://github.com/scipy/scipy/pull/14254>`__: BUG: Fixed an issue wherein \`SphericalVoronoi\` could raise... * `#14255 <https://github.com/scipy/scipy/pull/14255>`__: BUG: Numerical stability for large N BarycentricInterpolator * `#14257 <https://github.com/scipy/scipy/pull/14257>`__: MAINT: Fixed deprecated API calls in scipy.optimize * `#14258 <https://github.com/scipy/scipy/pull/14258>`__: DOC: fix stats.pearsonr example that was failing in CI * `#14259 <https://github.com/scipy/scipy/pull/14259>`__: CI: pin mypy to 0.902 and fix one CI failure * `#14260 <https://github.com/scipy/scipy/pull/14260>`__: BLD: optimize: fix some warnings in moduleTNC and minpack.h * `#14261 <https://github.com/scipy/scipy/pull/14261>`__: BLD: fix include order and build warnings for \`optimize/_trlib\` * `#14263 <https://github.com/scipy/scipy/pull/14263>`__: DOC: forward port 1.7.0 relnotes * `#14268 <https://github.com/scipy/scipy/pull/14268>`__: MAINT: Replaced direct field access in PyArrayObject\* with wrapper... * `#14274 <https://github.com/scipy/scipy/pull/14274>`__: MAINT: more scalar array conversion fixes for optimize * `#14275 <https://github.com/scipy/scipy/pull/14275>`__: MAINT: Update vendored uarray, required for auto-dispatching * `#14278 <https://github.com/scipy/scipy/pull/14278>`__: MAINT: two small fixes for implicit scalar-array-conversions * `#14281 <https://github.com/scipy/scipy/pull/14281>`__: ENH: Annotate the array dtypes of \`scipy.spatial.qhull\` * `#14285 <https://github.com/scipy/scipy/pull/14285>`__: DEV: remove scikit-umfpack from environment.yml * `#14287 <https://github.com/scipy/scipy/pull/14287>`__: TST: Add testing for hyp2f1 for complex values in anticipation... * `#14291 <https://github.com/scipy/scipy/pull/14291>`__: TST: split combined LSAP input validation tests up * `#14293 <https://github.com/scipy/scipy/pull/14293>`__: MAINT: remove the last deprecated \`PyEval_\*\` usages * `#14294 <https://github.com/scipy/scipy/pull/14294>`__: ENH: Annotate array dtypes in \`scipy.spatial.ckdtree\` and \`distance\` * `#14295 <https://github.com/scipy/scipy/pull/14295>`__: MAINT: move LSAP input validation into lsap_module * `#14297 <https://github.com/scipy/scipy/pull/14297>`__: DOC: Make code block an Item List * `#14301 <https://github.com/scipy/scipy/pull/14301>`__: MAINT: fix the last build warning in \`optimize/_trlib/\` * `#14302 <https://github.com/scipy/scipy/pull/14302>`__: BLD: fix build warnings for \`stats/biasedurn\` * `#14305 <https://github.com/scipy/scipy/pull/14305>`__: MAINT: silence warning in odepackmodule.c * `#14308 <https://github.com/scipy/scipy/pull/14308>`__: ENH: use Pythran to speedup somersd and _tau_b * `#14309 <https://github.com/scipy/scipy/pull/14309>`__: BLD: fix build warnings for scipy.special * `#14310 <https://github.com/scipy/scipy/pull/14310>`__: ENH: make epsilon optional in optimize.approx_fprime. * `#14311 <https://github.com/scipy/scipy/pull/14311>`__: MAINT: Corrected NumPy API usage in scipy.spatial * `#14312 <https://github.com/scipy/scipy/pull/14312>`__: ENH: Using random directional derivative to check grad * `#14326 <https://github.com/scipy/scipy/pull/14326>`__: MAINT: Removed redifinition of trace1 in spatial/qhull * `#14328 <https://github.com/scipy/scipy/pull/14328>`__: MAINT: _lib: add __dealloc__ to MessageStream * `#14331 <https://github.com/scipy/scipy/pull/14331>`__: ENH: Complement \`trace\` method of sparse matrices like \`csr_matrix/csc_matrix/coo_matrix\` * `#14338 <https://github.com/scipy/scipy/pull/14338>`__: BUG: fix \`stats.binned_statistic_dd\` issue with values close... * `#14339 <https://github.com/scipy/scipy/pull/14339>`__: TST: fix \`sparse.linalg.spsolve\` test with singular input * `#14341 <https://github.com/scipy/scipy/pull/14341>`__: MAINT: Add missing parenthesis in _nnls.py * `#14342 <https://github.com/scipy/scipy/pull/14342>`__: ENH: make \`savgol_coeffs\`, \`savgol_filter\` work for even... * `#14344 <https://github.com/scipy/scipy/pull/14344>`__: ENH: scipy.interpolate b-splines (design_matrix) * `#14350 <https://github.com/scipy/scipy/pull/14350>`__: MAINT: make fit method of rv_continuous pickleable * `#14358 <https://github.com/scipy/scipy/pull/14358>`__: ENH: Dinic's algorithm for maximum_flow * `#14359 <https://github.com/scipy/scipy/pull/14359>`__: ENH: Set fft backend with try_last=True * `#14362 <https://github.com/scipy/scipy/pull/14362>`__: Use list comprehension * `#14367 <https://github.com/scipy/scipy/pull/14367>`__: BUG: Check for NULL pointer in \`memmove\` * `#14377 <https://github.com/scipy/scipy/pull/14377>`__: Fix behavior of binary morphology with output=input when iterations=1 * `#14378 <https://github.com/scipy/scipy/pull/14378>`__: MAINT: Removing deprecated NumPy C API from \`interpolate\` * `#14380 <https://github.com/scipy/scipy/pull/14380>`__: ENH: Fixed intercept computation in theilslopes * `#14381 <https://github.com/scipy/scipy/pull/14381>`__: BENCH: add benchmark for somersd * `#14387 <https://github.com/scipy/scipy/pull/14387>`__: MAINT: Removed deprecated NumPy C api from \`sparse\` * `#14392 <https://github.com/scipy/scipy/pull/14392>`__: BUG/ENH: rework maximum flow preprocessing * `#14393 <https://github.com/scipy/scipy/pull/14393>`__: CI: Lint checks failures are reporting success * `#14403 <https://github.com/scipy/scipy/pull/14403>`__: Fix off by one error in doc string. * `#14404 <https://github.com/scipy/scipy/pull/14404>`__: DOC: docstring fix for default of n param of interpolate.pade * `#14406 <https://github.com/scipy/scipy/pull/14406>`__: MAINT: Use numpy_nodepr_api in \`spatial\` * `#14411 <https://github.com/scipy/scipy/pull/14411>`__: MAINT: minor cleanups in usage of \`compute_uv\` keyword of \`svd\` * `#14413 <https://github.com/scipy/scipy/pull/14413>`__: DOC:interpolate: Fix the docstring example of "lagrange" * `#14419 <https://github.com/scipy/scipy/pull/14419>`__: DEP: deprecate private but non-underscored \`signal.spline\`... * `#14422 <https://github.com/scipy/scipy/pull/14422>`__: MAINT: csgraph: change Dinic algorithm to iterative implementation * `#14423 <https://github.com/scipy/scipy/pull/14423>`__: CI: remove printing of skipped and xfailed tests from Azure test... * `#14426 <https://github.com/scipy/scipy/pull/14426>`__: ENH: Add args argument for callable in quad_vec * `#14427 <https://github.com/scipy/scipy/pull/14427>`__: MAINT: extra pythran annotation for i686 support * `#14432 <https://github.com/scipy/scipy/pull/14432>`__: BUG/ENH: more stable recursion for 2-sample ks test exact p-values * `#14433 <https://github.com/scipy/scipy/pull/14433>`__: ENH: add PROPACK wrapper for improved sparse SVD * `#14440 <https://github.com/scipy/scipy/pull/14440>`__: MAINT: stats: silence mypy complaints * `#14441 <https://github.com/scipy/scipy/pull/14441>`__: ENH: TST: add a threadpoolctl hook to limit OpenBLAS parallelism * `#14442 <https://github.com/scipy/scipy/pull/14442>`__: MAINT: Fix uninitialized warnings in \`sparse/linalg/dsolve\` * `#14447 <https://github.com/scipy/scipy/pull/14447>`__: MAINT: rename scipy.ndimage modules * `#14449 <https://github.com/scipy/scipy/pull/14449>`__: ENH: Cythonize van der corput * `#14454 <https://github.com/scipy/scipy/pull/14454>`__: MAINT: Begin translation of hyp2f1 for complex numbers into Cython * `#14456 <https://github.com/scipy/scipy/pull/14456>`__: CI: Lint with flake8 instead of pyflakes + pycodestyle * `#14458 <https://github.com/scipy/scipy/pull/14458>`__: DOC: clarify meaning of rvalue in stats.linregress * `#14459 <https://github.com/scipy/scipy/pull/14459>`__: MAINT: Fix uninitialized warnings in \`interpolate\` and \`cluster\` * `#14463 <https://github.com/scipy/scipy/pull/14463>`__: Fix typo in doc overview: "pandas" to "SciPy" * `#14474 <https://github.com/scipy/scipy/pull/14474>`__: DEP: Deprecate private but non-underscored ndimage.<module> namespace * `#14477 <https://github.com/scipy/scipy/pull/14477>`__: MAINT: Using Tempita file for bspline (signal) * `#14479 <https://github.com/scipy/scipy/pull/14479>`__: Added \`Inverse\` word in \`idstn\` and \`idctn\` docstrings * `#14487 <https://github.com/scipy/scipy/pull/14487>`__: TST: modify flaky test for constrained minimization * `#14489 <https://github.com/scipy/scipy/pull/14489>`__: MAINT: cleanup of some line_search code * `#14492 <https://github.com/scipy/scipy/pull/14492>`__: CI: make sure Azure job step fails when building a SciPy wheel... * `#14496 <https://github.com/scipy/scipy/pull/14496>`__: MAINT: switch to using spmatrix.toarray instead of .todense * `#14499 <https://github.com/scipy/scipy/pull/14499>`__: DOC: fix toarray/todense docstring * `#14507 <https://github.com/scipy/scipy/pull/14507>`__: CI: Add lint_diff docs & option to run only on specified files/dirs * `#14513 <https://github.com/scipy/scipy/pull/14513>`__: DOC: added reference and example in jacobi docstring * `#14520 <https://github.com/scipy/scipy/pull/14520>`__: BUG: diffev maxfun can be reached partway through population * `#14524 <https://github.com/scipy/scipy/pull/14524>`__: ENH: Rotation.concatenate * `#14532 <https://github.com/scipy/scipy/pull/14532>`__: ENH: sparse.linalg: The solution is zero when R.H.S. is zero * `#14538 <https://github.com/scipy/scipy/pull/14538>`__: CI: Revert "CI: make sure Azure job step fails when building... * `#14539 <https://github.com/scipy/scipy/pull/14539>`__: DOC: added chebyt and chebyu docstring examples in scipy.special * `#14546 <https://github.com/scipy/scipy/pull/14546>`__: ENH: Orthogonal Latin Hypercube Sampling to QMC * `#14547 <https://github.com/scipy/scipy/pull/14547>`__: ENH: __setitem__ method for Rotation class * `#14549 <https://github.com/scipy/scipy/pull/14549>`__: Small test fixes for pypy + win + mmap * `#14554 <https://github.com/scipy/scipy/pull/14554>`__: ENH: scipy.interpolate.BSpline from_power_basis * `#14555 <https://github.com/scipy/scipy/pull/14555>`__: BUG: sparse: fix a DIA.tocsc bug * `#14556 <https://github.com/scipy/scipy/pull/14556>`__: Fix the link to details of the strongly connected components... * `#14559 <https://github.com/scipy/scipy/pull/14559>`__: WIP: TST: add tests for Pythran somersd * `#14561 <https://github.com/scipy/scipy/pull/14561>`__: DOC: added reference and examples in (gen)laguerre docstring... * `#14564 <https://github.com/scipy/scipy/pull/14564>`__: ENH: Add threaded Van Der Corput * `#14571 <https://github.com/scipy/scipy/pull/14571>`__: Fix repeated word in _mannwhitneyu.py example * `#14572 <https://github.com/scipy/scipy/pull/14572>`__: Set min length of the knot array for BSpline.design_matrix * `#14578 <https://github.com/scipy/scipy/pull/14578>`__: DOC: added examples in spherical Bessel docstrings * `#14581 <https://github.com/scipy/scipy/pull/14581>`__: MAINT: Refactor \`linalg.tests.test_interpolative::TestInterpolativeDecomposition::test_id\` * `#14588 <https://github.com/scipy/scipy/pull/14588>`__: ENH: Added \`\`kulczynski1\`\` to \`\`scipy.spatial.distance\`\` * `#14592 <https://github.com/scipy/scipy/pull/14592>`__: DOC: clarify parameters of norminvgauss in scipy.stats * `#14595 <https://github.com/scipy/scipy/pull/14595>`__: Removing unused subroutines in \`\`scipy/linalg/src/id_dist/src/prini.f\`\` * `#14601 <https://github.com/scipy/scipy/pull/14601>`__: Fixed inconsistencies between numpy and scipy interp * `#14602 <https://github.com/scipy/scipy/pull/14602>`__: MAINT: Fix \`-Wunused-result\` warnings in \`sparse/linalg/dsolve\` * `#14603 <https://github.com/scipy/scipy/pull/14603>`__: DEV: initialize all submodules in Gitpod Dockerfile * `#14609 <https://github.com/scipy/scipy/pull/14609>`__: MAINT: Fix \`-Wmaybe-uninitialized\` warnings in \`optimize/_highs\` * `#14610 <https://github.com/scipy/scipy/pull/14610>`__: MAINT: Ignored \`\`scipy/signal/bspline_util.c\`\` * `#14613 <https://github.com/scipy/scipy/pull/14613>`__: MAINT: interpolate: Declare type for a Cython indexing variable. * `#14619 <https://github.com/scipy/scipy/pull/14619>`__: ENH: stats.unuran: add Polynomial interpolation based numerical... * `#14620 <https://github.com/scipy/scipy/pull/14620>`__: CI: fix Azure job which uses pre-release wheels + Python 3.7 * `#14625 <https://github.com/scipy/scipy/pull/14625>`__: ENH: optimize min max and median scipy.stats.binned_statistic * `#14626 <https://github.com/scipy/scipy/pull/14626>`__: MAINT: fix type-narrowing addition in sparse.construct.bmat * `#14627 <https://github.com/scipy/scipy/pull/14627>`__: MAINT: Bumped tolerances to pass \`\`special.tests\`\` on Apple... * `#14628 <https://github.com/scipy/scipy/pull/14628>`__: DOC: clarify usage of options param in scipy.optimize.linprog * `#14629 <https://github.com/scipy/scipy/pull/14629>`__: ENH: optimize std in scipy.stats.binned_statistic * `#14630 <https://github.com/scipy/scipy/pull/14630>`__: DOC: add citation file * `#14631 <https://github.com/scipy/scipy/pull/14631>`__: Fix unuran builds for older compilers * `#14633 <https://github.com/scipy/scipy/pull/14633>`__: BUG: scipy.stats._unran: send only strings to include_dirs * `#14634 <https://github.com/scipy/scipy/pull/14634>`__: DOC: Fix Wikipedia bootstrap link * `#14635 <https://github.com/scipy/scipy/pull/14635>`__: DOC: stats: fix multivariate_t docs pdf eqn * `#14637 <https://github.com/scipy/scipy/pull/14637>`__: MAINT: copy discrete dist dict * `#14643 <https://github.com/scipy/scipy/pull/14643>`__: MAINT: address gh6019, disp for minimize_scalar * `#14644 <https://github.com/scipy/scipy/pull/14644>`__: DOC: stats: add UNU.RAN references in the tutorial * `#14649 <https://github.com/scipy/scipy/pull/14649>`__: DOC: clarify SciPy compatibility with Python and NumPy. * `#14655 <https://github.com/scipy/scipy/pull/14655>`__: MAINT: remove support for Python 3.7 (hence NumPy 1.16) * `#14656 <https://github.com/scipy/scipy/pull/14656>`__: MAINT: replacing ``assert_`` with assert * `#14658 <https://github.com/scipy/scipy/pull/14658>`__: DOC: use conda-forge in Ubuntu quickstart * `#14660 <https://github.com/scipy/scipy/pull/14660>`__: MAINT: refactor "for ... in range(len(" statements * `#14663 <https://github.com/scipy/scipy/pull/14663>`__: MAINT: update leftover Python and NumPy version from pyproject.toml * `#14665 <https://github.com/scipy/scipy/pull/14665>`__: BLD: fix confusing "import pip" failure that should be caught * `#14666 <https://github.com/scipy/scipy/pull/14666>`__: MAINT: remove unnecessary seeding and update \`check_random_state\` * `#14669 <https://github.com/scipy/scipy/pull/14669>`__: ENH: Refactor GitHub Issue form templates * `#14673 <https://github.com/scipy/scipy/pull/14673>`__: BLD: fix include order, Python.h before standard headers * `#14676 <https://github.com/scipy/scipy/pull/14676>`__: BUG: Fixes failing benchmark tests optimize_qap.QuadraticAssignment.track_score * `#14677 <https://github.com/scipy/scipy/pull/14677>`__: MAINT: github labeler on file paths * `#14682 <https://github.com/scipy/scipy/pull/14682>`__: DOC: Fix typo in mannwhitneyu docstring * `#14684 <https://github.com/scipy/scipy/pull/14684>`__: DOC: optimize: fix sporadic linprog doctest failure * `#14685 <https://github.com/scipy/scipy/pull/14685>`__: MAINT: static typing of entropy * `#14686 <https://github.com/scipy/scipy/pull/14686>`__: BUG: fix issue in lsqr.py introduced in a recent commit * `#14689 <https://github.com/scipy/scipy/pull/14689>`__: MAINT: replace IOError alias with OSError or other appropriate... * `#14692 <https://github.com/scipy/scipy/pull/14692>`__: MAINT: Translation of hyp2f1 for complex numbers into Cython,... * `#14693 <https://github.com/scipy/scipy/pull/14693>`__: DOC: update OptimizeResult notes * `#14694 <https://github.com/scipy/scipy/pull/14694>`__: Simplify PythranBuildExt usage * `#14695 <https://github.com/scipy/scipy/pull/14695>`__: BLD: bump Pythran version to 0.9.12 * `#14697 <https://github.com/scipy/scipy/pull/14697>`__: CI: add \`cffi\` in the benchmark CI job, and in environment.yml * `#14699 <https://github.com/scipy/scipy/pull/14699>`__: BUG: Fix TypeError in \`stats._discrete_distns\` * `#14700 <https://github.com/scipy/scipy/pull/14700>`__: DOC: update detailed roadmap * `#14701 <https://github.com/scipy/scipy/pull/14701>`__: ENH:linalg: Add Cythonized get_array_bandwidth, issymmetric,... * `#14706 <https://github.com/scipy/scipy/pull/14706>`__: BUG: Fix hyp2f1 to return correct values in regions near exp(±iπ/3). * `#14707 <https://github.com/scipy/scipy/pull/14707>`__: Update constants.py * `#14708 <https://github.com/scipy/scipy/pull/14708>`__: BENCH: shorten svds benchmark that is timing out in CI * `#14709 <https://github.com/scipy/scipy/pull/14709>`__: CI: remove labeler sync * `#14712 <https://github.com/scipy/scipy/pull/14712>`__: MAINT: special: Updates for _cosine.c. * `#14720 <https://github.com/scipy/scipy/pull/14720>`__: DOC: optimize hess and consistency * `#14721 <https://github.com/scipy/scipy/pull/14721>`__: MAINT: correct PR template link * `#14723 <https://github.com/scipy/scipy/pull/14723>`__: DOC: add note on padding to \`stats.binned_statistic_2d\` docs * `#14727 <https://github.com/scipy/scipy/pull/14727>`__: ENH: sparse.linalg: Add an useful nonzero initial guess option * `#14729 <https://github.com/scipy/scipy/pull/14729>`__: DOC: fix documentation for scipy.optimize.brenth * `#14737 <https://github.com/scipy/scipy/pull/14737>`__: BUG:signal: matching window dtype to input * `#14739 <https://github.com/scipy/scipy/pull/14739>`__: TST: sparse.linalg: Add test case with 2-D Poisson equations * `#14743 <https://github.com/scipy/scipy/pull/14743>`__: TST:sparse.linalg: Use the more convenient "assert_normclose"... * `#14748 <https://github.com/scipy/scipy/pull/14748>`__: DOC: fix matrix representation in scipy.sparse.csgraph * `#14751 <https://github.com/scipy/scipy/pull/14751>`__: ENH: numpy masked_arrays in refguide-check * `#14755 <https://github.com/scipy/scipy/pull/14755>`__: BUG: Avoid \`solve_ivp\` failure when \`ts\` is empty * `#14756 <https://github.com/scipy/scipy/pull/14756>`__: MAINT: LinAlgError from public numpy.linalg * `#14759 <https://github.com/scipy/scipy/pull/14759>`__: BLD: change section name in site.cfg.example from ALL to DEFAULT * `#14760 <https://github.com/scipy/scipy/pull/14760>`__: TST: suppress jinja2 deprecation warning * `#14761 <https://github.com/scipy/scipy/pull/14761>`__: CI: remove \`pre_release_deps_source_dist\` job from Azure CI... * `#14762 <https://github.com/scipy/scipy/pull/14762>`__: TST: add a seed to the pickling test of RBFInterpolator * `#14763 <https://github.com/scipy/scipy/pull/14763>`__: MAINT: Make solve_ivp slightly more strict wrt. t_span. * `#14772 <https://github.com/scipy/scipy/pull/14772>`__: DOC:special: Fix broken links to jburkardt * `#14787 <https://github.com/scipy/scipy/pull/14787>`__: MAINT: Increase tolerance values to avoid test failures * `#14789 <https://github.com/scipy/scipy/pull/14789>`__: MAINT: fix a tiny typo in signal/spectral.py * `#14790 <https://github.com/scipy/scipy/pull/14790>`__: [MRG] BUG: Avoid lobpcg failure when iterations can't continue * `#14794 <https://github.com/scipy/scipy/pull/14794>`__: Fix typos in bspline docs (and comments) * `#14796 <https://github.com/scipy/scipy/pull/14796>`__: MAINT: Allow F401 and F403 in module init files * `#14798 <https://github.com/scipy/scipy/pull/14798>`__: BUG: correct the test loop in test_arpack.eval_evec * `#14801 <https://github.com/scipy/scipy/pull/14801>`__: CI, MAINT: pin Cython for azure pre-rel * `#14805 <https://github.com/scipy/scipy/pull/14805>`__: BUG: optimize: fix max function call validation for minimize... * `#14808 <https://github.com/scipy/scipy/pull/14808>`__: Fix Bug #14807 * `#14814 <https://github.com/scipy/scipy/pull/14814>`__: MAINT:integrate: add upstream quadpack changes * `#14817 <https://github.com/scipy/scipy/pull/14817>`__: ENH: stats: add geometric zscore * `#14820 <https://github.com/scipy/scipy/pull/14820>`__: MAINT: Remove \`np.rollaxis\` usage with \`np.moveaxis\` and... * `#14821 <https://github.com/scipy/scipy/pull/14821>`__: DOC: Updated documentation for interp1d * `#14822 <https://github.com/scipy/scipy/pull/14822>`__: Add an array API to scipy.sparse * `#14832 <https://github.com/scipy/scipy/pull/14832>`__: MAINT: py3.10 in more jobs and bump some 3.8 to 3.9 * `#14833 <https://github.com/scipy/scipy/pull/14833>`__: FIX: raise Python OverflowError exception on Boost.Math error * `#14836 <https://github.com/scipy/scipy/pull/14836>`__: Bug fix: dqc25f.f * `#14837 <https://github.com/scipy/scipy/pull/14837>`__: DOC: sparse.linalg: Fixed incorrect comments when the initial... * `#14838 <https://github.com/scipy/scipy/pull/14838>`__: TST: seed a stats test * `#14841 <https://github.com/scipy/scipy/pull/14841>`__: MAINT: Increase tolerances in tests to avoid Nightly CPython3.10... * `#14844 <https://github.com/scipy/scipy/pull/14844>`__: DOC: Add refguide_check option details to runtests.rst * `#14845 <https://github.com/scipy/scipy/pull/14845>`__: DOC: update a type specifier in a docstring in \`radau.py\` * `#14848 <https://github.com/scipy/scipy/pull/14848>`__: Typo "copmlex" * `#14852 <https://github.com/scipy/scipy/pull/14852>`__: DOC: Fix documentation bugs in \`lstsq\` * `#14860 <https://github.com/scipy/scipy/pull/14860>`__: minimize: copy user constraints if parameter is factored out.... * `#14865 <https://github.com/scipy/scipy/pull/14865>`__: BUG: stats: Fix a crash in stats.skew * `#14868 <https://github.com/scipy/scipy/pull/14868>`__: [MRG] BUG: Update lobpcg.py to validate the accuracy and issue... * `#14871 <https://github.com/scipy/scipy/pull/14871>`__: MAINT: removed a pitfall where a built-in name was being shadowed * `#14872 <https://github.com/scipy/scipy/pull/14872>`__: DEP: Deprecate private namespaces in \`scipy.linalg\` * `#14878 <https://github.com/scipy/scipy/pull/14878>`__: TST: bump rtol for equal_bounds * `#14881 <https://github.com/scipy/scipy/pull/14881>`__: DEP: Deprecate private namespaces in \`scipy.special\` * `#14882 <https://github.com/scipy/scipy/pull/14882>`__: BUG: Convert TNC C module to cython * `#14883 <https://github.com/scipy/scipy/pull/14883>`__: DOC:linalg: Clarify driver defaults in eigh * `#14884 <https://github.com/scipy/scipy/pull/14884>`__: BUG: optimize: add missing attributes of \`OptimizeResult\` for... * `#14892 <https://github.com/scipy/scipy/pull/14892>`__: DOC: Correct docs for Hausdorff distance * `#14898 <https://github.com/scipy/scipy/pull/14898>`__: DEP: Deprecate private namespace in \`scipy.stats\` * `#14902 <https://github.com/scipy/scipy/pull/14902>`__: MAINT:linalg: Rename func to "bandwidth" * `#14906 <https://github.com/scipy/scipy/pull/14906>`__: DEP: Deprecate private namespace in \`scipy.constants\` * `#14913 <https://github.com/scipy/scipy/pull/14913>`__: DEP: Deprecate private namespace in \`scipy.fftpack\` * `#14916 <https://github.com/scipy/scipy/pull/14916>`__: DEP: Deprecate \`stats.biasedurn\` and make it private * `#14918 <https://github.com/scipy/scipy/pull/14918>`__: DEP: Deprecate private namespaces in \`\`scipy.interpolate\`\` * `#14919 <https://github.com/scipy/scipy/pull/14919>`__: DEP: Deprecate private namespaces in \`scipy.integrate\` * `#14920 <https://github.com/scipy/scipy/pull/14920>`__: Fix for complex Fresnel * `#14923 <https://github.com/scipy/scipy/pull/14923>`__: DEP: Deprecate private namespaces in \`\`scipy.spatial\`\` * `#14924 <https://github.com/scipy/scipy/pull/14924>`__: Fix extent for scipy.signal.cwt example * `#14925 <https://github.com/scipy/scipy/pull/14925>`__: MAINT: Ignore build generated files in \`\`scipy.stats\`\` * `#14927 <https://github.com/scipy/scipy/pull/14927>`__: DEP: Deprecate private namespaces in \`scipy.misc\` * `#14928 <https://github.com/scipy/scipy/pull/14928>`__: MAINT: fix runtest.py overriding \`$PYTHONPATH\`: prepend instead * `#14934 <https://github.com/scipy/scipy/pull/14934>`__: BUG: optimize: add a missing attribute of OptimizeResult in \`basinhopping\` * `#14939 <https://github.com/scipy/scipy/pull/14939>`__: DEP: Deprecate private namespaces in \`\`scipy.sparse\`\` * `#14941 <https://github.com/scipy/scipy/pull/14941>`__: ENH: optimize: add optional parameters of adaptive step size... * `#14943 <https://github.com/scipy/scipy/pull/14943>`__: DOC: clarify mac pytest; add blank line * `#14944 <https://github.com/scipy/scipy/pull/14944>`__: BUG: MultivariateNormalQMC with specific QMCEngine remove unneeded... * `#14947 <https://github.com/scipy/scipy/pull/14947>`__: DOC: adding example to decimate function * `#14950 <https://github.com/scipy/scipy/pull/14950>`__: MAINT: Use matmul binary operator in scipy.sparse.linalg * `#14954 <https://github.com/scipy/scipy/pull/14954>`__: DOC: Add missing params to minres docstring. * `#14955 <https://github.com/scipy/scipy/pull/14955>`__: BUG: stats: fix broadcasting behavior of argsreduce * `#14960 <https://github.com/scipy/scipy/pull/14960>`__: Update links for new site * `#14961 <https://github.com/scipy/scipy/pull/14961>`__: CI: use https protocol for git in CircleCI * `#14962 <https://github.com/scipy/scipy/pull/14962>`__: DEP: Deprecate private namespaces in \`scipy.signal\` * `#14963 <https://github.com/scipy/scipy/pull/14963>`__: MAINT: \`integrate.lsoda\` missing in .gitignore * `#14965 <https://github.com/scipy/scipy/pull/14965>`__: DOC: update logo and add favicon. * `#14966 <https://github.com/scipy/scipy/pull/14966>`__: DEP: Deprecate private namespaces in \`\`scipy.optimize\`\` * `#14969 <https://github.com/scipy/scipy/pull/14969>`__: CI: Fixes pyparsing version in doc build * `#14972 <https://github.com/scipy/scipy/pull/14972>`__: Don't put space after directive name. * `#14979 <https://github.com/scipy/scipy/pull/14979>`__: BUG: scipy.sparse.linalg.spsolve: fix memory error caused from... * `#14988 <https://github.com/scipy/scipy/pull/14988>`__: BLD: update pyproject.toml for Python 3.10 * `#14989 <https://github.com/scipy/scipy/pull/14989>`__: ENH: Speed up knot interval lookup for BSpline.design_matrix * `#14992 <https://github.com/scipy/scipy/pull/14992>`__: Pythranized version of _matfuncs_sqrtm * `#14993 <https://github.com/scipy/scipy/pull/14993>`__: MAINT: forward port 1.7.2 relnotes * `#15004 <https://github.com/scipy/scipy/pull/15004>`__: ENH: Make \`get_matfile_version\` and other \`io.matlab\` objects... * `#15007 <https://github.com/scipy/scipy/pull/15007>`__: DOC: add missing "regularized" to \`gammainccinv\` documentation * `#15008 <https://github.com/scipy/scipy/pull/15008>`__: MAINT: restore access to deprecated private namespaces * `#15010 <https://github.com/scipy/scipy/pull/15010>`__: TST: remove fragile test which checks if g77 is linked * `#15013 <https://github.com/scipy/scipy/pull/15013>`__: MAINT: Fix use-after-free bug in Py_FindObjects * `#15018 <https://github.com/scipy/scipy/pull/15018>`__: CI: Work around Sphinx bug * `#15019 <https://github.com/scipy/scipy/pull/15019>`__: Finite Difference Hessian in Scipy Optimize Solvers (Newton-CG) * `#15020 <https://github.com/scipy/scipy/pull/15020>`__: ENH: sparse.linalg: Fixed the issue that the initial guess "x0"... * `#15022 <https://github.com/scipy/scipy/pull/15022>`__: DOC: mitigate newton optimization not converging. * `#15023 <https://github.com/scipy/scipy/pull/15023>`__: CI: Unpin Sphinx * `#15027 <https://github.com/scipy/scipy/pull/15027>`__: DOC: linalg: Fix a small condition doc error * `#15029 <https://github.com/scipy/scipy/pull/15029>`__: DEP: Deprecate private namespaces in \`scipy.sparse.linalg\` * `#15034 <https://github.com/scipy/scipy/pull/15034>`__: DOC: use numpydoc format for C function in \`_superlumodule.c\` * `#15035 <https://github.com/scipy/scipy/pull/15035>`__: MAINT: simplify UNU.RAN api in stats * `#15037 <https://github.com/scipy/scipy/pull/15037>`__: New example for gaussian_filter * `#15040 <https://github.com/scipy/scipy/pull/15040>`__: MAINT: Add test for public API * `#15041 <https://github.com/scipy/scipy/pull/15041>`__: DOC: Add warning to dct documentation about norm='ortho' * `#15045 <https://github.com/scipy/scipy/pull/15045>`__: DOC: update toolchain.rst * `#15053 <https://github.com/scipy/scipy/pull/15053>`__: TST: Add some test skips to get wheel builder CI green again * `#15054 <https://github.com/scipy/scipy/pull/15054>`__: MAINT: Remove wminkowski * `#15055 <https://github.com/scipy/scipy/pull/15055>`__: ENH: allow p>0 for Minkowski distance * `#15061 <https://github.com/scipy/scipy/pull/15061>`__: MAINT:sparse: expm() fix redundant imports * `#15062 <https://github.com/scipy/scipy/pull/15062>`__: MAINT:BLD: Open file in text mode for tempita * `#15066 <https://github.com/scipy/scipy/pull/15066>`__: CI: bump gcc from 4.8 to 6 * `#15067 <https://github.com/scipy/scipy/pull/15067>`__: DOC: Update broken link to SuperLU library. * `#15078 <https://github.com/scipy/scipy/pull/15078>`__: MAINT: update \`stats.iqr\` for deprecated \`np.percentile\`... * `#15083 <https://github.com/scipy/scipy/pull/15083>`__: MAINT: stats: separate UNU.RAN functionality to its own submodule * `#15084 <https://github.com/scipy/scipy/pull/15084>`__: MAINT: Include \`scipy.io.matlab\` in public API * `#15085 <https://github.com/scipy/scipy/pull/15085>`__: ENH: support creation of analog SOS outputs * `#15087 <https://github.com/scipy/scipy/pull/15087>`__: TST: Review \`\`_assert_within_tol\`\` positional arguments * `#15095 <https://github.com/scipy/scipy/pull/15095>`__: MAINT: update gitignore to ignore private directories * `#15099 <https://github.com/scipy/scipy/pull/15099>`__: MAINT: ScalarFunction remember best_x * `#15100 <https://github.com/scipy/scipy/pull/15100>`__: MAINT: Include \`stats.contingency\` in public API * `#15102 <https://github.com/scipy/scipy/pull/15102>`__: ENH: Add orthogonalize argument to DCT/DST * `#15105 <https://github.com/scipy/scipy/pull/15105>`__: MAINT: Add missing imports in deprecated modules * `#15107 <https://github.com/scipy/scipy/pull/15107>`__: BUG: Update chi_gen to use scipy.special.gammaln * `#15109 <https://github.com/scipy/scipy/pull/15109>`__: MAINT: remove NaiveRatioUniforms from scipy.stats * `#15111 <https://github.com/scipy/scipy/pull/15111>`__: ENH: Add special.log_expit and use it in stats.logistic * `#15112 <https://github.com/scipy/scipy/pull/15112>`__: DOC: update 'Wn' definition in signal.butter * `#15114 <https://github.com/scipy/scipy/pull/15114>`__: DOC: added Fermi-Dirac distribution by name * `#15119 <https://github.com/scipy/scipy/pull/15119>`__: DOC: fix symlink to \`logistic.sf\` in \`stats.logistic\` * `#15120 <https://github.com/scipy/scipy/pull/15120>`__: MAINT: Install \`sparse.linalg._eigen\` tests and fix test failures * `#15123 <https://github.com/scipy/scipy/pull/15123>`__: MAINT: interpolate: move the \`sparse\` dependency from cython... * `#15127 <https://github.com/scipy/scipy/pull/15127>`__: DOC: update linux build instructions to mention C++ * `#15134 <https://github.com/scipy/scipy/pull/15134>`__: DOC: Improve Lomb-Scargle example * `#15135 <https://github.com/scipy/scipy/pull/15135>`__: ENH: Carlson symmetric elliptic integrals. * `#15137 <https://github.com/scipy/scipy/pull/15137>`__: DOC: special: Add 'Examples' to multigammaln and roots_legendre... * `#15139 <https://github.com/scipy/scipy/pull/15139>`__: Use constrained_layout in Lomb-Scargle example * `#15142 <https://github.com/scipy/scipy/pull/15142>`__: ENH: stats.sampling: add SROU method * `#15143 <https://github.com/scipy/scipy/pull/15143>`__: MAINT: Remove some unused imports. * `#15144 <https://github.com/scipy/scipy/pull/15144>`__: BUG: Add missing import of 'errno' to runtests.py * `#15157 <https://github.com/scipy/scipy/pull/15157>`__: ENH: rebased version of gh-14279 * `#15159 <https://github.com/scipy/scipy/pull/15159>`__: DOC: stats: fix a header in \`stats.sampling\` tutorial * `#15161 <https://github.com/scipy/scipy/pull/15161>`__: DOC: 1.8.0 relnotes update * `#15175 <https://github.com/scipy/scipy/pull/15175>`__: MAINT: 1.8.0 backports for relnotes and .gitignore * `#15181 <https://github.com/scipy/scipy/pull/15181>`__: BUG: The pytest decorator for conditional skipping is 'skipif' * `#15191 <https://github.com/scipy/scipy/pull/15191>`__: MAINT: version bounds before 1.8.0rc1 * `#15192 <https://github.com/scipy/scipy/pull/15192>`__: MAINT: Replace use of \`pytest.warns(None)\` with \`warnings.catch_warnings\` * `#15194 <https://github.com/scipy/scipy/pull/15194>`__: BUG: stats: Fix numerical issues of recipinvgauss * `#15214 <https://github.com/scipy/scipy/pull/15214>`__: TST: sparse.linalg: store only PROPACK test matrices; generate... * `#15220 <https://github.com/scipy/scipy/pull/15220>`__: BUG: sparse.linalg: Fix deprecation warnings. * `#15225 <https://github.com/scipy/scipy/pull/15225>`__: Make 0th power of a sparse array/matrix return the identity with... * `#15229 <https://github.com/scipy/scipy/pull/15229>`__: BUG: minimize should work with a scalar closes #15228 * `#15232 <https://github.com/scipy/scipy/pull/15232>`__: BUG: Add rmul for sparse arrays * `#15236 <https://github.com/scipy/scipy/pull/15236>`__: BLD: update setup.py for Python 3.10 * `#15248 <https://github.com/scipy/scipy/pull/15248>`__: MAINT: 1.8.0rc2 backports * `#15249 <https://github.com/scipy/scipy/pull/15249>`__: FIX: PROPACK MKL compatibility * `#15253 <https://github.com/scipy/scipy/pull/15253>`__: BUG: special: fix \`stdtr\` and \`stdtrit\` for infinite df * `#15256 <https://github.com/scipy/scipy/pull/15256>`__: MAINT: use PEP440 vs. distutils * `#15268 <https://github.com/scipy/scipy/pull/15268>`__: CI: pin setuptools to 59.6.0 and Pythran to 0.10.0 for Windows... * `#15270 <https://github.com/scipy/scipy/pull/15270>`__: MAINT: rename \`moduleTNC\` extension back to \`_moduleTNC\` * `#15271 <https://github.com/scipy/scipy/pull/15271>`__: TST: slightly bump test tolerance for a new lobpcg test * `#15275 <https://github.com/scipy/scipy/pull/15275>`__: MAINT: Fix imports in \`signal._signaltools\` * `#15278 <https://github.com/scipy/scipy/pull/15278>`__: MAINT: remove non-default settings (except \`shallow\`) in \`.gitmodules\` * `#15288 <https://github.com/scipy/scipy/pull/15288>`__: BLD Respect the --skip-build flag in setup.py * `#15293 <https://github.com/scipy/scipy/pull/15293>`__: BUG: fix Hausdorff int overflow * `#15301 <https://github.com/scipy/scipy/pull/15301>`__: TST: update \`sparse.linalg\` tests for failures due to tolerances * `#15318 <https://github.com/scipy/scipy/pull/15318>`__: BLD: update pyproject.toml to not pin numpy for aarch64 + PyPy * `#15322 <https://github.com/scipy/scipy/pull/15322>`__: BLD: update minimum Pythran version to 0.10.0 for SciPy 1.8.0 * `#15323 <https://github.com/scipy/scipy/pull/15323>`__: MAINT: filter RuntimeWarnings in stats functions * `#15328 <https://github.com/scipy/scipy/pull/15328>`__: MAINT: interpolate: csr_matrix -> csr_array * `#15331 <https://github.com/scipy/scipy/pull/15331>`__: BUG: stats._unuran: fix invalid attribute lookups * `#15332 <https://github.com/scipy/scipy/pull/15332>`__: CI: pin numpy to 1.21.5 for the doc build on CircleCI * `#15334 <https://github.com/scipy/scipy/pull/15334>`__: BUG: stats._unuran: fix remaining attribute lookup errors * `#15335 <https://github.com/scipy/scipy/pull/15335>`__: CI: pin numpy to 1.21.5 in the Azure refguide check job * `#15341 <https://github.com/scipy/scipy/pull/15341>`__: BUG: \`highs-ds\` returns memoryviews instead of np.arrays for... * `#15397 <https://github.com/scipy/scipy/pull/15397>`__: BUG: ensured vendored pep440 is imported * `#15416 <https://github.com/scipy/scipy/pull/15416>`__: BUG: Fix PyUFunc for wasm targets * `#15418 <https://github.com/scipy/scipy/pull/15418>`__: MAINT: 1.8.0 rc3 backports round 1 * `#15421 <https://github.com/scipy/scipy/pull/15421>`__: BUG: stats: mode: fix negative axis issue with np.moveaxis instead... * `#15432 <https://github.com/scipy/scipy/pull/15432>`__: MAINT: release branch PROPACK switch (default off) Checksums ========= MD5 ~~~ 5c3628236b1d9a6c92f1d608a71b403f scipy-1.8.0rc4-cp310-cp310-macosx_10_9_x86_64.whl dbd273ecca43de886bab541ab78457e3 scipy-1.8.0rc4-cp310-cp310-macosx_12_0_arm64.whl 417685d876b177c749838c97a897549c scipy-1.8.0rc4-cp310-cp310-macosx_12_0_universal2.macosx_10_9_x86_64.whl 2f6250f6ed6544c0e312d72fee3ef38b scipy-1.8.0rc4-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 14479a73158ab59110a86bb28ccc058b scipy-1.8.0rc4-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl dbc1a45713f559cadf9f78d901abcc6f scipy-1.8.0rc4-cp310-cp310-win_amd64.whl 7f84975d785814be718de7bd8090989a scipy-1.8.0rc4-cp38-cp38-macosx_10_9_x86_64.whl 2141d912db27174878d4b9e4c514317f scipy-1.8.0rc4-cp38-cp38-macosx_12_0_arm64.whl 0cd18240715e554e07bc2699cb0a01bc scipy-1.8.0rc4-cp38-cp38-macosx_12_0_universal2.macosx_10_9_x86_64.whl 21d9bad7095d5c0d628ef5590916a582 scipy-1.8.0rc4-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl 013550ac6383d8604aa2da216a0e2f6b scipy-1.8.0rc4-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 0ce337c201338257a89c0bd829276e8b scipy-1.8.0rc4-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 005a684ebbc6e30c1dd5226e61e9062a scipy-1.8.0rc4-cp38-cp38-win32.whl 8316c89c3d4e82e084c858d9701764b8 scipy-1.8.0rc4-cp38-cp38-win_amd64.whl 3736d48e27b7e7d6e5a1d794344f6442 scipy-1.8.0rc4-cp39-cp39-macosx_10_9_x86_64.whl 2e544542beeacf57e57756f6d7b3ece4 scipy-1.8.0rc4-cp39-cp39-macosx_12_0_arm64.whl c55b466e251c6d156b47ec6ce7c5377d scipy-1.8.0rc4-cp39-cp39-macosx_12_0_universal2.macosx_10_9_x86_64.whl 90591cb97937e2b1beed05e246e7d06c scipy-1.8.0rc4-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl f504fca68c0cf00b3126315bc4bcde3f scipy-1.8.0rc4-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl c0ff4ef54d6812154ddf1683ca97e4e1 scipy-1.8.0rc4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 52123a57ad68fde59925ff1808c9d8b1 scipy-1.8.0rc4-cp39-cp39-win32.whl 12f330e2a7ff9bf5a2d6b8172ec79bee scipy-1.8.0rc4-cp39-cp39-win_amd64.whl 7359d3d92ab518bf58a29c1465476d0e scipy-1.8.0rc4.tar.gz 2b795e185c69819715beda365d651619 scipy-1.8.0rc4.tar.xz d87c0c0858850eea38dd03e5dd755327 scipy-1.8.0rc4.zip SHA256 ~~~~~~ f79ed9b6934cc88bc0c57081faf5e507d9e1ee329ba6610e0f319e9d9baf3d75 scipy-1.8.0rc4-cp310-cp310-macosx_10_9_x86_64.whl 0f18cdf5a0f758d19435510976896f2c2f5e405ba408a0f6dc68e080dfd68074 scipy-1.8.0rc4-cp310-cp310-macosx_12_0_arm64.whl f53a9bedcd63c39b832a9d6803773ec5584e46ae9d13cbe6771d86dafec888ec scipy-1.8.0rc4-cp310-cp310-macosx_12_0_universal2.macosx_10_9_x86_64.whl 272b4e85784ba16628238c87ba5c72f75cdff8da6069767086605835cea16934 scipy-1.8.0rc4-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 9e6f19d1bbc737d57998e34419aeba08c3ec91602a2dd56ee846f4fb0d3caa08 scipy-1.8.0rc4-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl d3e0d65828b9f03e2f704cedc548b75ae11200625d332b87bd5b4fd6f836b313 scipy-1.8.0rc4-cp310-cp310-win_amd64.whl f1d0d79db896a320d0d77ca1c81278328c8603ac4c883f4a948065a595cc8967 scipy-1.8.0rc4-cp38-cp38-macosx_10_9_x86_64.whl 9a859d6bc5a84fa3693f79987268040980dd5856ce300ed5d09f92532166aae3 scipy-1.8.0rc4-cp38-cp38-macosx_12_0_arm64.whl 667f275faf219d307c274420a5c70b9ee5ea7bdb0d2c17523afc36f4542f8008 scipy-1.8.0rc4-cp38-cp38-macosx_12_0_universal2.macosx_10_9_x86_64.whl 3065f95cafd98bb0188a43c6413ef676c108be66a08d6611d864f08fc528a8e7 scipy-1.8.0rc4-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl a82c8a246f95fb4cab1ed3621e6248e3a42748ef7fa8f1c1d3400fafd5bd6e5f scipy-1.8.0rc4-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl c0a3a228eb6cf7249d825a5bfacb216f3ac525d4d1efc9fee562b24a0b87431d scipy-1.8.0rc4-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 64f9d71e60dcf2d8932b0ebaa4e6e08344159b49b30aba704db3e477a7a9d7c8 scipy-1.8.0rc4-cp38-cp38-win32.whl dd5e50bc32a299a25375a65ec6fc4b502db2dc78bd59cb335ac38f9d615a92b0 scipy-1.8.0rc4-cp38-cp38-win_amd64.whl 0ce5be8303f25a32c96674f8231e87d7b2494cd4bb9457620e45aed33c77c15a scipy-1.8.0rc4-cp39-cp39-macosx_10_9_x86_64.whl dbc90e959dbcd52ecff1e4be3e7b44511086466a53b7ebfb2e2a6f0cc8257cc6 scipy-1.8.0rc4-cp39-cp39-macosx_12_0_arm64.whl 9c57c34502f1ee350f1e32a97893c777ba66dede359b479d97f59610f4fd62e2 scipy-1.8.0rc4-cp39-cp39-macosx_12_0_universal2.macosx_10_9_x86_64.whl c91a619afa38a1ffdf7c44f0df46d7824c4edd253d536ad7c5368356caa96200 scipy-1.8.0rc4-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl aa36c5c20953a0a0549a55ef828f0b0fe9d92928ce763577dce9c7212199e5c2 scipy-1.8.0rc4-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 1d642636c34c1f6e76ad7e2a27105bc110ca6335745557b41080b64dabd6d22b scipy-1.8.0rc4-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 4cf8eb3ba6bac1f277057d3c52e64c86c3ba822a95a115188cbfcd54809f397c scipy-1.8.0rc4-cp39-cp39-win32.whl cc499dd337329863f85be5ec984be86e52debd40069d812dc04eaf097b390c96 scipy-1.8.0rc4-cp39-cp39-win_amd64.whl bfa5b17b108203c31388d362fe666b96c2f0aa1a094d460aab85440c22e6f22f scipy-1.8.0rc4.tar.gz 3ec3dd70037514a3997c6abe09e75dc3de67696cddefa61148277b57c64fce74 scipy-1.8.0rc4.tar.xz 40225c0e2ecf60110d455b14cbd20eb880d20f71653108993a77acef4a29e532 scipy-1.8.0rc4.zip

1 0

Resolve keyword collisions in scipy.stats by renaming keywords of `rv_generic.moment/interval`
by Matt Haberland 23 Jan '22

23 Jan '22

Hi team, gh-5982 (https://github.com/scipy/scipy/issues/5982) reported the keyword collision between the `alpha` shape parameter of `levy_stable` and the `alpha` parameter of that distribution's `interval` method. This particular collision occurs in `yulesimon`, too, and a similar collision occurs for the `n` shape parameter of several distributions with the `n` parameter of their `moment` method. Following the discussion in that issue, gh-13490 (https://github.com/scipy/ scipy/pull/13490/) would: - Rename the first argument of `moment` from `n` to `order`, preserving backward compatibility by accepting keyword `n` via `**kwds`. - Rename the first argument of `interval` from `alpha` to `confidence`, preserving backward compatibility by accepting keyword `alpha` via `**kwds`. - Deprecate the `n` keyword of `moment` and the `alpha` keyword of ` interval` in the documentation and with a `DeprecationWarning` as appropriate - Add a test to `tools/refguide_check.py` to guard against future collisions Please join the discussion about these changes in gh-13490, especially if you are interested in the resolution of this keyword collision or if you have concerns about the deprecation. Thanks, Matt -- Matt Haberland Assistant Professor BioResource and Agricultural Engineering 08A-3K, Cal Poly

1 0

ANN: SciPy 1.8.0rc3 -- please test
by Tyler Reddy 22 Jan '22

22 Jan '22

Hi all, On behalf of the SciPy development team I'm pleased to announce the release candidate SciPy 1.8.0rc3. Please help us test this pre-release. Sources and binary wheels can be found at: https://pypi.org/project/scipy/ and at: https://github.com/scipy/scipy/releases/tag/v1.8.0rc3 One of a few ways to install the release candidate with pip: pip install scipy==1.8.0rc3 ===================== SciPy 1.8.0 Release Notes ===================== Note: SciPy 1.8.0 is not released yet! SciPy 1.8.0 is the culmination of 6 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. Before upgrading, we recommend that users check that their own code does not use deprecated SciPy functionality (to do so, run your code with ``python -Wd`` and check for ``DeprecationWarning`` s). Our development attention will now shift to bug-fix releases on the 1.8.x branch, and on adding new features on the master branch. This release requires Python 3.8+ and NumPy 1.17.3 or greater. For running on PyPy, PyPy3 6.0+ is required. **************************** Highlights of this release **************************** - A sparse array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. - The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. It is currently default-off due to potential issues on Windows that we aim to resolve in the next release, but can be optionally enabled at runtime for friendly testing with an environment variable setting of ``USE_PROPACK=1``. - A new `scipy.stats.sampling` submodule that leverages the ``UNU.RAN`` C library to sample from arbitrary univariate non-uniform continuous and discrete distributions - All namespaces that were private but happened to miss underscores in their names have been deprecated. **************** New features **************** `scipy.fft` improvements ================== Added an ``orthogonalize=None`` parameter to the real transforms in `scipy.fft` which controls whether the modified definition of DCT/DST is used without changing the overall scaling. `scipy.fft` backend registration is now smoother, operating with a single registration call and no longer requiring a context manager. `scipy.integrate` improvements ======================== `scipy.integrate.quad_vec` introduces a new optional keyword-only argument, ``args``. ``args`` takes in a tuple of extra arguments if any (default is ``args=()``), which is then internally used to pass into the callable function (needing these extra arguments) which we wish to integrate. `scipy.interpolate` improvements ========================= `scipy.interpolate.BSpline` has a new method, ``design_matrix``, which constructs a design matrix of b-splines in the sparse CSR format. A new method ``from_cubic`` in ``BSpline`` class allows to convert a ``CubicSpline`` object to ``BSpline`` object. `scipy.linalg` improvements ===================== `scipy.linalg` gained three new public array structure investigation functions. `scipy.linalg.bandwidth` returns information about the bandedness of an array and can be used to test for triangular structure discovery, while `scipy.linalg.issymmetric` and `scipy.linalg.ishermitian` test the array for exact and approximate symmetric/Hermitian structure. `scipy.optimize` improvements ======================== `scipy.optimize.check_grad` introduces two new optional keyword only arguments, ``direction`` and ``seed``. ``direction`` can take values, ``'all'`` (default), in which case all the one hot direction vectors will be used for verifying the input analytical gradient function and ``'random'``, in which case a random direction vector will be used for the same purpose. ``seed`` (default is ``None``) can be used for reproducing the return value of ``check_grad`` function. It will be used only when ``direction='random'``. The `scipy.optimize.minimize` ``TNC`` method has been rewritten to use Cython bindings. This also fixes an issue with the callback altering the state of the optimization. Added optional parameters ``target_accept_rate`` and ``stepwise_factor`` for adapative step size adjustment in ``basinhopping``. The ``epsilon`` argument to ``approx_fprime`` is now optional so that it may have a default value consistent with most other functions in `scipy.optimize`. `scipy.signal` improvements ====================== Add ``analog`` argument, default ``False``, to ``zpk2sos``, and add new pairing option ``'minimal'`` to construct analog and minimal discrete SOS arrays. ``tf2sos`` uses zpk2sos; add ``analog`` argument here as well, and pass it on to ``zpk2sos``. ``savgol_coeffs`` and ``savgol_filter`` now work for even window lengths. Added the Chirp Z-transform and Zoom FFT available as `scipy.signal.CZT` and `scipy.signal.ZoomFFT`. `scipy.sparse` improvements ====================== An array API has been added for early testing and feedback; this work is ongoing, and users should expect minor API refinements over the next few releases. Please refer to the `scipy.sparse` docstring for more information. ``maximum_flow`` introduces optional keyword only argument, ``method`` which accepts either, ``'edmonds-karp'`` (Edmonds Karp algorithm) or ``'dinic'`` (Dinic's algorithm). Moreover, ``'dinic'`` is used as default value for ``method`` which means that Dinic's algorithm is used for computing maximum flow unless specified. See, the comparison between the supported algorithms in `this comment <https://github.com/scipy/scipy/pull/14358#issue-684212523>`_. Parameters ``atol``, ``btol`` now default to 1e-6 in `scipy.sparse.linalg.lsmr` to match with default values in `scipy.sparse.linalg.lsqr`. Add the Transpose-Free Quasi-Minimal Residual algorithm (TFQMR) for general nonsingular non-Hermitian linear systems in `scipy.sparse.linalg.tfqmr`. The sparse SVD library PROPACK is now vendored with SciPy, and an interface is exposed via `scipy.sparse.svds` with ``solver='PROPACK'``. For some problems, this may be faster and/or more accurate than the default, ARPACK. PROPACK functionality is currently opt-in--you must specify ``USE_PROPACK=1`` at runtime to use it due to potential issues on Windows that we aim to resolve in the next release. ``sparse.linalg`` iterative solvers now have a nonzero initial guess option, which may be specified as ``x0 = 'Mb'``. The ``trace`` method has been added for sparse matrices. `scipy.spatial` improvements ====================== `scipy.spatial.transform.Rotation` now supports item assignment and has a new ``concatenate`` method. Add `scipy.spatial.distance.kulczynski1` in favour of `scipy.spatial.distance.kulsinski` which will be deprecated in the next release. `scipy.spatial.distance.minkowski` now also supports ``0<p<1``. `scipy.special` improvements ====================== The new function `scipy.special.log_expit` computes the logarithm of the logistic sigmoid function. The function is formulated to provide accurate results for large positive and negative inputs, so it avoids the problems that would occur in the naive implementation ``log(expit(x))``. A suite of five new functions for elliptic integrals: ``scipy.special.ellipr{c,d,f,g,j}``. These are the `Carlson symmetric elliptic integrals <https://dlmf.nist.gov/19.16>`_, which have computational advantages over the classical Legendre integrals. Previous versions included some elliptic integrals from the Cephes library (``scipy.special.ellip{k,km1,kinc,e,einc}``) but was missing the integral of third kind (Legendre's Pi), which can be evaluated using the new Carlson functions. The new Carlson elliptic integral functions can be evaluated in the complex plane, whereas the Cephes library's functions are only defined for real inputs. Several defects in `scipy.special.hyp2f1` have been corrected. Approximately correct values are now returned for ``z`` near ``exp(+-i*pi/3)``, fixing `#8054 <https://github.com/scipy/scipy/issues/8054>`_. Evaluation for such ``z`` is now calculated through a series derived by `López and Temme (2013) <https://arxiv.org/abs/1306.2046>`_ that converges in these regions. In addition, degenerate cases with one or more of ``a``, ``b``, and/or ``c`` a non-positive integer are now handled in a manner consistent with `mpmath's hyp2f1 implementation < https://mpmath.org/doc/current/functions/hypergeometric.html>`_, which fixes `#7340 <https://github.com/scipy/scipy/issues/7340>`_. These fixes were made as part of an effort to rewrite the Fortran 77 implementation of hyp2f1 in Cython piece by piece. This rewriting is now roughly 50% complete. `scipy.stats` improvements ===================== `scipy.stats.qmc.LatinHypercube` introduces two new optional keyword-only arguments, ``optimization`` and ``strength``. ``optimization`` is either ``None`` or ``random-cd``. In the latter, random permutations are performed to improve the centered discrepancy. ``strength`` is either 1 or 2. 1 corresponds to the classical LHS while 2 has better sub-projection properties. This construction is referred to as an orthogonal array based LHS of strength 2. In both cases, the output is still a LHS. `scipy.stats.qmc.Halton` is faster as the underlying Van der Corput sequence was ported to Cython. The ``alternative`` parameter was added to the ``kendalltau`` and ``somersd`` functions to allow one-sided hypothesis testing. Similarly, the masked versions of ``skewtest``, ``kurtosistest``, ``ttest_1samp``, ``ttest_ind``, and ``ttest_rel`` now also have an ``alternative`` parameter. Add `scipy.stats.gzscore` to calculate the geometrical z score. Random variate generators to sample from arbitrary univariate non-uniform continuous and discrete distributions have been added to the new `scipy.stats.sampling` submodule. Implementations of a C library `UNU.RAN <http://statmath.wu.ac.at/software/unuran/>`_ are used for performance. The generators added are: - TransformedDensityRejection - DiscreteAliasUrn - NumericalInversePolynomial - DiscreteGuideTable - SimpleRatioUniforms The ``binned_statistic`` set of functions now have improved performance for the ``std``, ``min``, ``max``, and ``median`` statistic calculations. ``somersd`` and ``_tau_b`` now have faster Pythran-based implementations. Some general efficiency improvements to handling of ``nan`` values in several ``stats`` functions. Added the Tukey-Kramer test as `scipy.stats.tukey_hsd`. Improved performance of `scipy.stats.argus` ``rvs`` method. Added the parameter ``keepdims`` to `scipy.stats.variation` and prevent the undesirable return of a masked array from the function in some cases. ``permutation_test`` performs an exact or randomized permutation test of a given statistic on provided data. *********************** Deprecated features *********************** Clear split between public and private API ================================ SciPy has always documented what its public API consisted of in :ref:`its API reference docs <scipy-api>`, however there never was a clear split between public and private namespaces in the code base. In this release, all namespaces that were private but happened to miss underscores in their names have been deprecated. These include (as examples, there are many more): - ``scipy.signal.spline`` - ``scipy.ndimage.filters`` - ``scipy.ndimage.fourier`` - ``scipy.ndimage.measurements`` - ``scipy.ndimage.morphology`` - ``scipy.ndimage.interpolation`` - ``scipy.sparse.linalg.solve`` - ``scipy.sparse.linalg.eigen`` - ``scipy.sparse.linalg.isolve`` All functions and other objects in these namespaces that were meant to be public are accessible from their respective public namespace (e.g. `scipy.signal`). The design principle is that any public object must be accessible from a single namespace only; there are a few exceptions, mostly for historical reasons (e.g., ``stats`` and ``stats.distributions`` overlap). For other libraries aiming to provide a SciPy-compatible API, it is now unambiguous what namespace structure to follow. See `gh-14360 <https://github.com/scipy/scipy/issues/14360>`_ for more details. Other deprecations =============== ``NumericalInverseHermite`` has been deprecated from `scipy.stats` and moved to the `scipy.stats.sampling` submodule. It now uses the C implementation of the UNU.RAN library so the result of methods like ``ppf`` may vary slightly. Parameter ``tol`` has been deprecated and renamed to ``u_resolution``. The parameter ``max_intervals`` has also been deprecated and will be removed in a future release of SciPy. ************************************** Backwards incompatible changes ************************************** - SciPy has raised the minimum compiler versions to GCC 6.3 on linux and VS2019 on windows. In particular, this means that SciPy may now use C99 and C++14 features. For more details see `here <https://docs.scipy.org/doc/scipy/reference/dev/toolchain.html>`_. - The result for empty bins for `scipy.stats.binned_statistic` with the builtin ``'std'`` metric is now ``nan``, for consistency with ``np.std``. - The function `scipy.spatial.distance.wminkowski` has been removed. To achieve the same results as before, please use the ``minkowski`` distance function with the (optional) ``w=`` keyword-argument for the given weight. ***************** Other changes ***************** Some Fortran 77 code was modernized to be compatible with NAG's nagfor Fortran compiler (see, e.g., `PR 13229 <https://github.com/scipy/scipy/pull/13229 >`_). ``threadpoolctl`` may now be used by our test suite to substantially improve the efficiency of parallel test suite runs. ********* Authors ********* * @endolith * adamadanandy + * akeemlh + * Anton Akhmerov * Marvin Albert + * alegresor + * Andrew Annex + * Pantelis Antonoudiou + * Ross Barnowski + * Christoph Baumgarten * Stephen Becker + * Nickolai Belakovski * Peter Bell * berberto + * Georgii Bocharov + * Evgeni Burovski * Matthias Bussonnier * CJ Carey * Justin Charlong + * Hood Chatham + * Dennis Collaris + * David Cottrell + * cruyffturn + * da-woods + * Anirudh Dagar * Tiger Du + * Thomas Duvernay * Dani El-Ayyass + * Castedo Ellerman + * Donnie Erb + * Andreas Esders-Kopecky + * Livio F + * Isuru Fernando * Evelyn Fitzgerald + * Sara Fridovich-Keil + * Mark E Fuller + * Ralf Gommers * Kevin Richard Green + * guiweber + * Nitish Gupta + * h-vetinari * Matt Haberland * J. Hariharan + * Charles Harris * Jonathan Helgert + * Trever Hines * Nadav Horesh * Ian Hunt-Isaak + * ich + * Itrimel + * Jan-Hendrik Müller + * Jebby993 + * Yikun Jiang + * Evan W Jones + * Nathaniel Jones + * Jeffrey Kelling + * Malik Idrees Hasan Khan + * Paul Kienzle * Sergey B Kirpichev * Kadatatlu Kishore + * Andrew Knyazev * Ravin Kumar + * Peter Mahler Larsen * Eric Larson * Antony Lee * Gregory R. Lee * Tim Leslie * lezcano + * Xingyu Liu * Christian Lorentzen * Lorenzo + * Smit Lunagariya + * Lv101Magikarp + * Yair M + * Cong Ma * Lorenzo Maffioli + * majiang + * Brian McFee + * Nicholas McKibben * John Speed Meyers + * millivolt9 + * Jarrod Millman * Harsh Mishra + * Boaz Mohar + * naelsondouglas + * Andrew Nelson * Nico Schlömer * Thomas Nowotny + * nullptr + * Teddy Ort + * Nick Papior * ParticularMiner + * Dima Pasechnik * Tirth Patel * Matti Picus * Ilhan Polat * Adrian Price-Whelan + * Quentin Barthélemy + * Sundar R + * Judah Rand + * Tyler Reddy * Renal-Of-Loon + * Frederic Renner + * Pamphile Roy * Bharath Saiguhan + * Atsushi Sakai * Eric Schanet + * Sebastian Wallkötter * serge-sans-paille * Reshama Shaikh + * Namami Shanker * siddhantwahal + * Walter Simson + * Gagandeep Singh + * Leo C. Stein + * Albert Steppi * Kai Striega * Diana Sukhoverkhova * Søren Fuglede Jørgensen * Masayuki Takagi + * Mike Taves * Ben Thompson + * Bas van Beek * Jacob Vanderplas * Dhruv Vats + * H. Vetinari + * Thomas Viehmann + * Pauli Virtanen * Vlad + * Arthur Volant * Samuel Wallan * Stefan van der Walt * Warren Weckesser * Josh Wilson * Haoyin Xu + * Rory Yorke * Egor Zemlyanoy * Gang Zhao + * 赵丰 (Zhao Feng) + A total of 139 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 1.8.0 ************************** * `#592 <https://github.com/scipy/scipy/issues/592>`__: Statistics Review: variation (Trac #65) * `#857 <https://github.com/scipy/scipy/issues/857>`__: A Wrapper for PROPACK (Trac #330) * `#2009 <https://github.com/scipy/scipy/issues/2009>`__: "Kulsinski" dissimilarity seems wrong (Trac #1484) * `#2063 <https://github.com/scipy/scipy/issues/2063>`__: callback functions for COBYLA and TNC (Trac #1538) * `#2358 <https://github.com/scipy/scipy/issues/2358>`__: ndimage.center_of_mass doesnt return all for all labelled objects... * `#5668 <https://github.com/scipy/scipy/issues/5668>`__: Need zpk2sos for analog filters * `#7340 <https://github.com/scipy/scipy/issues/7340>`__: SciPy Hypergeometric function hyp2f1 producing infinities * `#8774 <https://github.com/scipy/scipy/issues/8774>`__: In \`optimize.basinhopping\`, the target acceptance rate should... * `#10497 <https://github.com/scipy/scipy/issues/10497>`__: scipy.sparse.csc_matrix.toarray docstring is wrong * `#10888 <https://github.com/scipy/scipy/issues/10888>`__: Check finite difference gradient approximation in a random direction * `#10974 <https://github.com/scipy/scipy/issues/10974>`__: Non explicit error message in lobpcg * `#11452 <https://github.com/scipy/scipy/issues/11452>`__: Normalisation requirement for \`Wn\` unclear in \`scipy.signal.butter\` * `#11700 <https://github.com/scipy/scipy/issues/11700>`__: solve_ivp errors out instead of simply quitting after the solve... * `#12006 <https://github.com/scipy/scipy/issues/12006>`__: newton: Shouldn't it take a Jacobian for multivariate problems... * `#12100 <https://github.com/scipy/scipy/issues/12100>`__: solve_ivp: custom t_eval list and the terminating event * `#12106 <https://github.com/scipy/scipy/issues/12106>`__: \`axis\` option for \`stats.tmean\` do not appear to be working... * `#12192 <https://github.com/scipy/scipy/issues/12192>`__: \`scipy.stats.rv_continuous.moment\` does not accept array input * `#12502 <https://github.com/scipy/scipy/issues/12502>`__: Divide by zero in Jacobian numerical differentiation when equality... * `#12981 <https://github.com/scipy/scipy/issues/12981>`__: SLSQP constrained minimization error in 1.5.2 * `#12999 <https://github.com/scipy/scipy/issues/12999>`__: Bug in scipy.stats.ks_2samp for two-sided auto and exact modes... * `#13402 <https://github.com/scipy/scipy/issues/13402>`__: ENH: Faster Max Flow algorithm in scipy.sparse.csgraph * `#13580 <https://github.com/scipy/scipy/issues/13580>`__: truncnorm gives incorrect means and variances * `#13642 <https://github.com/scipy/scipy/issues/13642>`__: stats.truncnorm variance works incorrectly when input is an array. * `#13659 <https://github.com/scipy/scipy/issues/13659>`__: Orthogonal Array for Latin hypercube in \`scipy.stats.qmc\` * `#13737 <https://github.com/scipy/scipy/issues/13737>`__: brentq can overflow / underflow * `#13745 <https://github.com/scipy/scipy/issues/13745>`__: different default atol, btol for lsqr, lsmr * `#13898 <https://github.com/scipy/scipy/issues/13898>`__: Savitzky-Golay filter for even number data * `#13902 <https://github.com/scipy/scipy/issues/13902>`__: Different solvers of \`svds\` return quite different results * `#13922 <https://github.com/scipy/scipy/issues/13922>`__: Need Exception / Error for Incorrect and/or misleading analog... * `#14122 <https://github.com/scipy/scipy/issues/14122>`__: Item assignement for spatial.transform.Rotation objects * `#14140 <https://github.com/scipy/scipy/issues/14140>`__: Likely unnecessary invalid value warning from PchipInterpolator * `#14152 <https://github.com/scipy/scipy/issues/14152>`__: zpk2sos not working correctly when butterworth band-pass filter... * `#14165 <https://github.com/scipy/scipy/issues/14165>`__: scipy.optimize.minimize method='Nelder-Mead': 'maxfev' is not... * `#14168 <https://github.com/scipy/scipy/issues/14168>`__: Missing "inverse" word in the multidimensional Discrete Cosine/Sine... * `#14189 <https://github.com/scipy/scipy/issues/14189>`__: Incorrect shape handling in \`scipy.stat.multivariate_t.rvs\`... * `#14190 <https://github.com/scipy/scipy/issues/14190>`__: Links in documentation of Dirichlet distribution are a mess * `#14193 <https://github.com/scipy/scipy/issues/14193>`__: Implementation of scrambled Van der Corput sequence differs from... * `#14217 <https://github.com/scipy/scipy/issues/14217>`__: Error in documentation for \`scipy.stats.gaussian_kde.factor\` * `#14235 <https://github.com/scipy/scipy/issues/14235>`__: Should this be $y$ only, instead of $m_y$? * `#14236 <https://github.com/scipy/scipy/issues/14236>`__: BUG: discrete isf is wrong at boundary if loc != 0 * `#14277 <https://github.com/scipy/scipy/issues/14277>`__: Broken reference in docstring of scipy.stats.power_divergence * `#14324 <https://github.com/scipy/scipy/issues/14324>`__: BUG: scipy.stats.theilslopes intercept calculation can produce... * `#14332 <https://github.com/scipy/scipy/issues/14332>`__: Strange output of \`binned_statistic_dd\` with \`statistic=sum\` * `#14340 <https://github.com/scipy/scipy/issues/14340>`__: Initialize Rotation using list or array of Rotations * `#14346 <https://github.com/scipy/scipy/issues/14346>`__: scipy.stats.rv_continuous.fit returns wrapper instead of fit... * `#14360 <https://github.com/scipy/scipy/issues/14360>`__: Making clearer what namespaces are public by use of underscores * `#14385 <https://github.com/scipy/scipy/issues/14385>`__: csgraph.maximum_flow can cause Python crash for large but very... * `#14409 <https://github.com/scipy/scipy/issues/14409>`__: Lagrange polynomials and numpy Polynomials * `#14412 <https://github.com/scipy/scipy/issues/14412>`__: Extra function arguments to \`scipy.integrate.quad_vec\` * `#14416 <https://github.com/scipy/scipy/issues/14416>`__: Is the r-value outputted by scipy.stats.linregress always the... * `#14420 <https://github.com/scipy/scipy/issues/14420>`__: BUG: RBFInterpolator fails when calling it with a slice of a... * `#14425 <https://github.com/scipy/scipy/issues/14425>`__: Running tests in parallel is not any faster than without pytest-xdist... * `#14445 <https://github.com/scipy/scipy/issues/14445>`__: BUG: out of bounds indexing issue in \`prini.f\` * `#14482 <https://github.com/scipy/scipy/issues/14482>`__: Azure CI jobs do not set exit status for build stage correctly * `#14491 <https://github.com/scipy/scipy/issues/14491>`__: MAINT: Replace np.rollaxis with np.moveaxis * `#14501 <https://github.com/scipy/scipy/issues/14501>`__: runtests.py overrides \`$PYTHONPATH\` * `#14514 <https://github.com/scipy/scipy/issues/14514>`__: linprog kwargs not recognised * `#14529 <https://github.com/scipy/scipy/issues/14529>`__: CI: Azure pipelines don't appear to be running * `#14535 <https://github.com/scipy/scipy/issues/14535>`__: hess option does not work in minimize function * `#14551 <https://github.com/scipy/scipy/issues/14551>`__: Cannot create Compressed sparse column matrix of shape N x N-2 * `#14568 <https://github.com/scipy/scipy/issues/14568>`__: \`stats.norminvgauss\` incorrect implementation? * `#14585 <https://github.com/scipy/scipy/issues/14585>`__: DOC: toolchain updates and max Python * `#14607 <https://github.com/scipy/scipy/issues/14607>`__: scipy.sparse.linalg.inv cannot take ndarray as argument despite... * `#14608 <https://github.com/scipy/scipy/issues/14608>`__: BUG: scipy.stats.multivariate_t distribution math documentation * `#14623 <https://github.com/scipy/scipy/issues/14623>`__: BUG: Error constructing sparse matrix with indices larger than... * `#14654 <https://github.com/scipy/scipy/issues/14654>`__: DOC: Linux Devdocs workflow requires installing packages that... * `#14680 <https://github.com/scipy/scipy/issues/14680>`__: BUG: misleading documentation in scipy.stats.entropy * `#14683 <https://github.com/scipy/scipy/issues/14683>`__: DOC: OptimizeResult Notes are placed before attribute section,... * `#14733 <https://github.com/scipy/scipy/issues/14733>`__: BUG: resample_poly does not preserve dtype * `#14746 <https://github.com/scipy/scipy/issues/14746>`__: site.cfg: [ALL] or [DEFAULT]? * `#14770 <https://github.com/scipy/scipy/issues/14770>`__: BUG: lpmn ref broken link * `#14807 <https://github.com/scipy/scipy/issues/14807>`__: BUG: wrong weights of the 7-point gauss rule in QUADPACK: dqk15w.f * `#14830 <https://github.com/scipy/scipy/issues/14830>`__: do CDF inversion methods have to be public? * `#14859 <https://github.com/scipy/scipy/issues/14859>`__: BUG: constraint function is overwritten when equal bounds are... * `#14873 <https://github.com/scipy/scipy/issues/14873>`__: ENH: get the driver used in scipy.linalg.eigh * `#14879 <https://github.com/scipy/scipy/issues/14879>`__: BUG: TNC output is different if a callback is used. * `#14891 <https://github.com/scipy/scipy/issues/14891>`__: DOC: \`directed_hausdorff\` expects 2D array despite docs stating... * `#14910 <https://github.com/scipy/scipy/issues/14910>`__: \`stats.contingency\` not listed as public API * `#14911 <https://github.com/scipy/scipy/issues/14911>`__: MAINT, DOC: CI failure for doc building * `#14942 <https://github.com/scipy/scipy/issues/14942>`__: DOC: Ambiguous command instruction for running tests in Mac docs * `#14968 <https://github.com/scipy/scipy/issues/14968>`__: Debug build CI job crashes on \`stats._unuran\` threading test * `#14984 <https://github.com/scipy/scipy/issues/14984>`__: BUG: scipy.sparse.linalg.spsolve: runtime memory error caused... * `#14987 <https://github.com/scipy/scipy/issues/14987>`__: ENH: The knot interval lookup for BSpline.design_matrix is inefficient * `#15025 <https://github.com/scipy/scipy/issues/15025>`__: Might be j<=i+k? * `#15033 <https://github.com/scipy/scipy/issues/15033>`__: BUG: scipy.fft.dct type I with norm = "ortho" leads to wrong... * `#15051 <https://github.com/scipy/scipy/issues/15051>`__: BUG: test failures on aarch in wheel builder repo * `#15064 <https://github.com/scipy/scipy/issues/15064>`__: MAINT: \`interpolation\` keyword is renamed to \`method\` in... * `#15103 <https://github.com/scipy/scipy/issues/15103>`__: BUG: scipy.stats.chi.mean returns nan for large df due to use... * `#15186 <https://github.com/scipy/scipy/issues/15186>`__: Fix use of \`pytest.warns(None)\` for pytest 7.0.0 * `#15206 <https://github.com/scipy/scipy/issues/15206>`__: BUG: Minor issue with suggestions in scipy.sparse DeprecationWarnings... * `#15210 <https://github.com/scipy/scipy/issues/15210>`__: BUG: A sparse matrix raises a ValueError when \`__rmul__\` with... * `#15224 <https://github.com/scipy/scipy/issues/15224>`__: BUG: 0th power of sparse array/matrix always returns the identity... * `#15228 <https://github.com/scipy/scipy/issues/15228>`__: BUG: bounded L-BFGS-B doesn't work with a scalar. * `#15254 <https://github.com/scipy/scipy/issues/15254>`__: BUG: \`DeprecationWarning: distutils Version classes are deprecated\` * `#15267 <https://github.com/scipy/scipy/issues/15267>`__: Windows CI jobs have a build issue with Pythran 0.11 * `#15316 <https://github.com/scipy/scipy/issues/15316>`__: BUG: Failed to install scipy 1.7.x with pypy 3.7 in aarch64 * `#15339 <https://github.com/scipy/scipy/issues/15339>`__: BUG: \`highs-ds\` returns memoryviews instead of np.arrays for... ************************* Pull requests for 1.8.0 ************************* * `#4607 <https://github.com/scipy/scipy/pull/4607>`__: Add Chirp Z-transform, zoom FFT * `#10504 <https://github.com/scipy/scipy/pull/10504>`__: ENH: Carlson symmetric elliptic integrals. * `#11263 <https://github.com/scipy/scipy/pull/11263>`__: MAINT:optimize: Comply with user-specified rel_step * `#11754 <https://github.com/scipy/scipy/pull/11754>`__: ENH: stats: Updates to \`variation\`. * `#11954 <https://github.com/scipy/scipy/pull/11954>`__: ENH: improve ARGUS rv generation in scipy.stats * `#12143 <https://github.com/scipy/scipy/pull/12143>`__: BUG: Correctly use \`axis\` in \`scipy.stats.tmean\` * `#12146 <https://github.com/scipy/scipy/pull/12146>`__: DOC: add docs to explain behaviour of newton's mehod on arrays * `#12197 <https://github.com/scipy/scipy/pull/12197>`__: BUG: fix moments method to support arrays and list * `#12889 <https://github.com/scipy/scipy/pull/12889>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any() * `#13002 <https://github.com/scipy/scipy/pull/13002>`__: ENH: stats: Tukey's honestly significant difference test * `#13096 <https://github.com/scipy/scipy/pull/13096>`__: BUG: optimize: alternative fix for minimize issues with lb==ub * `#13143 <https://github.com/scipy/scipy/pull/13143>`__: MAINT: deal with cases in \`minimize\` for \`(bounds.lb == bounds.ub).any()... * `#13229 <https://github.com/scipy/scipy/pull/13229>`__: ENH: modernise some Fortran code, needed for nagfor compiler * `#13312 <https://github.com/scipy/scipy/pull/13312>`__: ENH: stats: add \`axis\` and \`nan_policy\` parameters to functions... * `#13347 <https://github.com/scipy/scipy/pull/13347>`__: CI: bump gcc from 4.8 to 5.x * `#13392 <https://github.com/scipy/scipy/pull/13392>`__: MAINT: streamlined kwargs for minimizer in dual_annealing * `#13419 <https://github.com/scipy/scipy/pull/13419>`__: BUG: Fix group delay singularity check * `#13471 <https://github.com/scipy/scipy/pull/13471>`__: ENH: LHS based OptimalDesign (scipy.stats.qmc) * `#13581 <https://github.com/scipy/scipy/pull/13581>`__: MAINT: stats: fix truncnorm stats with array shapes * `#13839 <https://github.com/scipy/scipy/pull/13839>`__: MAINT: set same tolerance between LSMR and LSQR * `#13864 <https://github.com/scipy/scipy/pull/13864>`__: Array scalar conversion deprecation * `#13883 <https://github.com/scipy/scipy/pull/13883>`__: MAINT: move LSAP maximization handling into solver code * `#13899 <https://github.com/scipy/scipy/pull/13899>`__: ENH: stats: add general permutation hypothesis test * `#13921 <https://github.com/scipy/scipy/pull/13921>`__: BUG: optimize: fix max function call validation for \`minimize\`... * `#13958 <https://github.com/scipy/scipy/pull/13958>`__: ENH: stats: add \`alternative\` to masked version of T-Tests * `#13960 <https://github.com/scipy/scipy/pull/13960>`__: ENH: stats: add \`alternative\` to masked normality tests * `#14007 <https://github.com/scipy/scipy/pull/14007>`__: BUG: Fix root bracketing logic in Brent's method (issue #13737) * `#14024 <https://github.com/scipy/scipy/pull/14024>`__: ENH: Add annotations for \`scipy.spatial.cKDTree\` * `#14049 <https://github.com/scipy/scipy/pull/14049>`__: MAINT: Change special.orthogonal.orthopoly1d type hints to ArrayLike * `#14132 <https://github.com/scipy/scipy/pull/14132>`__: DOC: badge with version of the doc in the navbar * `#14144 <https://github.com/scipy/scipy/pull/14144>`__: REL: set version to 1.8.0.dev0 * `#14151 <https://github.com/scipy/scipy/pull/14151>`__: BLD: update pyproject.toml - add macOS M1, drop py36 * `#14153 <https://github.com/scipy/scipy/pull/14153>`__: BUG: stats: Implementing boost's hypergeometric distribution... * `#14160 <https://github.com/scipy/scipy/pull/14160>`__: ENH: sparse.linalg: Add TFQMR algorithm for non-Hermitian sparse... * `#14163 <https://github.com/scipy/scipy/pull/14163>`__: BENCH: add benchmark for energy_distance and wasserstein_distance * `#14173 <https://github.com/scipy/scipy/pull/14173>`__: BUG: Fixed an issue wherein \`geometric_slerp\` would return... * `#14174 <https://github.com/scipy/scipy/pull/14174>`__: ENH: Add annotations to \`scipy.spatial.geometric_slerp\` * `#14183 <https://github.com/scipy/scipy/pull/14183>`__: DOC: add examples/ update mstats doc of pearsonr in scipy.stats * `#14186 <https://github.com/scipy/scipy/pull/14186>`__: TST, MAINT: hausdorff test cleanups * `#14187 <https://github.com/scipy/scipy/pull/14187>`__: DOC: interpolate: rbf has kwargs too. * `#14191 <https://github.com/scipy/scipy/pull/14191>`__: MAINT:TST:linalg modernize the test assertions * `#14192 <https://github.com/scipy/scipy/pull/14192>`__: BUG: stats: fix shape handing in multivariate_t.rvs * `#14197 <https://github.com/scipy/scipy/pull/14197>`__: CI: azure: Fix handling of 'skip azp'. * `#14200 <https://github.com/scipy/scipy/pull/14200>`__: DOC: Remove link to alpha in scipy.stats.dirichlet * `#14201 <https://github.com/scipy/scipy/pull/14201>`__: TST: cleanup in lsqr and lsmr tests * `#14204 <https://github.com/scipy/scipy/pull/14204>`__: Improve error message for index dimension * `#14208 <https://github.com/scipy/scipy/pull/14208>`__: MAINT: add invalid='ignore' to np.errstate block in PchipInterpolator * `#14209 <https://github.com/scipy/scipy/pull/14209>`__: ENH: stats: kendalltau: add alternative parameter * `#14210 <https://github.com/scipy/scipy/pull/14210>`__: BUG: Fix Nelder-Mead logic when using a non-1D x0 and adapative * `#14211 <https://github.com/scipy/scipy/pull/14211>`__: Fixed doc for gaussian_kde (kde.factor description) * `#14213 <https://github.com/scipy/scipy/pull/14213>`__: ENH: stats: somersd: add alternative parameter * `#14214 <https://github.com/scipy/scipy/pull/14214>`__: ENH: Improve the \`scipy.spatial.qhull\` annotations * `#14215 <https://github.com/scipy/scipy/pull/14215>`__: ENH: stats: Integrate library UNU.RAN in \`scipy.stats\` [GSoC... * `#14218 <https://github.com/scipy/scipy/pull/14218>`__: DOC: clarify \`ndimage.center_of_mass\` docstring * `#14219 <https://github.com/scipy/scipy/pull/14219>`__: ENH: sparse.linalg: Use the faster "sqrt" from "math" and be... * `#14222 <https://github.com/scipy/scipy/pull/14222>`__: MAINT: stats: remove unused 'type: ignore' comment * `#14224 <https://github.com/scipy/scipy/pull/14224>`__: MAINT: Modify to use new random API in benchmarks * `#14225 <https://github.com/scipy/scipy/pull/14225>`__: MAINT: fix missing LowLevelCallable in \`dir(scipy)\` * `#14226 <https://github.com/scipy/scipy/pull/14226>`__: BLD: fix warning for missing dependency, and dev version number * `#14227 <https://github.com/scipy/scipy/pull/14227>`__: MAINT: fix maybe-uninitialized warnings in lbfgbf.f * `#14228 <https://github.com/scipy/scipy/pull/14228>`__: BENCH: add more benchmarks for inferential statistics tests * `#14237 <https://github.com/scipy/scipy/pull/14237>`__: Removes unused variable * `#14240 <https://github.com/scipy/scipy/pull/14240>`__: ENH: sparse.linalg: Normalize type descriptions * `#14242 <https://github.com/scipy/scipy/pull/14242>`__: BUG: stats: fix discrete \`.isf\` to work at boundaries when... * `#14250 <https://github.com/scipy/scipy/pull/14250>`__: Error in parameter checking in cdfbin.f * `#14254 <https://github.com/scipy/scipy/pull/14254>`__: BUG: Fixed an issue wherein \`SphericalVoronoi\` could raise... * `#14255 <https://github.com/scipy/scipy/pull/14255>`__: BUG: Numerical stability for large N BarycentricInterpolator * `#14257 <https://github.com/scipy/scipy/pull/14257>`__: MAINT: Fixed deprecated API calls in scipy.optimize * `#14258 <https://github.com/scipy/scipy/pull/14258>`__: DOC: fix stats.pearsonr example that was failing in CI * `#14259 <https://github.com/scipy/scipy/pull/14259>`__: CI: pin mypy to 0.902 and fix one CI failure * `#14260 <https://github.com/scipy/scipy/pull/14260>`__: BLD: optimize: fix some warnings in moduleTNC and minpack.h * `#14261 <https://github.com/scipy/scipy/pull/14261>`__: BLD: fix include order and build warnings for \`optimize/_trlib\` * `#14263 <https://github.com/scipy/scipy/pull/14263>`__: DOC: forward port 1.7.0 relnotes * `#14268 <https://github.com/scipy/scipy/pull/14268>`__: MAINT: Replaced direct field access in PyArrayObject\* with wrapper... * `#14274 <https://github.com/scipy/scipy/pull/14274>`__: MAINT: more scalar array conversion fixes for optimize * `#14275 <https://github.com/scipy/scipy/pull/14275>`__: MAINT: Update vendored uarray, required for auto-dispatching * `#14278 <https://github.com/scipy/scipy/pull/14278>`__: MAINT: two small fixes for implicit scalar-array-conversions * `#14281 <https://github.com/scipy/scipy/pull/14281>`__: ENH: Annotate the array dtypes of \`scipy.spatial.qhull\` * `#14285 <https://github.com/scipy/scipy/pull/14285>`__: DEV: remove scikit-umfpack from environment.yml * `#14287 <https://github.com/scipy/scipy/pull/14287>`__: TST: Add testing for hyp2f1 for complex values in anticipation... * `#14291 <https://github.com/scipy/scipy/pull/14291>`__: TST: split combined LSAP input validation tests up * `#14293 <https://github.com/scipy/scipy/pull/14293>`__: MAINT: remove the last deprecated \`PyEval_\*\` usages * `#14294 <https://github.com/scipy/scipy/pull/14294>`__: ENH: Annotate array dtypes in \`scipy.spatial.ckdtree\` and \`distance\` * `#14295 <https://github.com/scipy/scipy/pull/14295>`__: MAINT: move LSAP input validation into lsap_module * `#14297 <https://github.com/scipy/scipy/pull/14297>`__: DOC: Make code block an Item List * `#14301 <https://github.com/scipy/scipy/pull/14301>`__: MAINT: fix the last build warning in \`optimize/_trlib/\` * `#14302 <https://github.com/scipy/scipy/pull/14302>`__: BLD: fix build warnings for \`stats/biasedurn\` * `#14305 <https://github.com/scipy/scipy/pull/14305>`__: MAINT: silence warning in odepackmodule.c * `#14308 <https://github.com/scipy/scipy/pull/14308>`__: ENH: use Pythran to speedup somersd and _tau_b * `#14309 <https://github.com/scipy/scipy/pull/14309>`__: BLD: fix build warnings for scipy.special * `#14310 <https://github.com/scipy/scipy/pull/14310>`__: ENH: make epsilon optional in optimize.approx_fprime. * `#14311 <https://github.com/scipy/scipy/pull/14311>`__: MAINT: Corrected NumPy API usage in scipy.spatial * `#14312 <https://github.com/scipy/scipy/pull/14312>`__: ENH: Using random directional derivative to check grad * `#14326 <https://github.com/scipy/scipy/pull/14326>`__: MAINT: Removed redifinition of trace1 in spatial/qhull * `#14328 <https://github.com/scipy/scipy/pull/14328>`__: MAINT: _lib: add __dealloc__ to MessageStream * `#14331 <https://github.com/scipy/scipy/pull/14331>`__: ENH: Complement \`trace\` method of sparse matrices like \`csr_matrix/csc_matrix/coo_matrix\` * `#14338 <https://github.com/scipy/scipy/pull/14338>`__: BUG: fix \`stats.binned_statistic_dd\` issue with values close... * `#14339 <https://github.com/scipy/scipy/pull/14339>`__: TST: fix \`sparse.linalg.spsolve\` test with singular input * `#14341 <https://github.com/scipy/scipy/pull/14341>`__: MAINT: Add missing parenthesis in _nnls.py * `#14342 <https://github.com/scipy/scipy/pull/14342>`__: ENH: make \`savgol_coeffs\`, \`savgol_filter\` work for even... * `#14344 <https://github.com/scipy/scipy/pull/14344>`__: ENH: scipy.interpolate b-splines (design_matrix) * `#14350 <https://github.com/scipy/scipy/pull/14350>`__: MAINT: make fit method of rv_continuous pickleable * `#14358 <https://github.com/scipy/scipy/pull/14358>`__: ENH: Dinic's algorithm for maximum_flow * `#14359 <https://github.com/scipy/scipy/pull/14359>`__: ENH: Set fft backend with try_last=True * `#14362 <https://github.com/scipy/scipy/pull/14362>`__: Use list comprehension * `#14367 <https://github.com/scipy/scipy/pull/14367>`__: BUG: Check for NULL pointer in \`memmove\` * `#14377 <https://github.com/scipy/scipy/pull/14377>`__: Fix behavior of binary morphology with output=input when iterations=1 * `#14378 <https://github.com/scipy/scipy/pull/14378>`__: MAINT: Removing deprecated NumPy C API from \`interpolate\` * `#14380 <https://github.com/scipy/scipy/pull/14380>`__: ENH: Fixed intercept computation in theilslopes * `#14381 <https://github.com/scipy/scipy/pull/14381>`__: BENCH: add benchmark for somersd * `#14387 <https://github.com/scipy/scipy/pull/14387>`__: MAINT: Removed deprecated NumPy C api from \`sparse\` * `#14392 <https://github.com/scipy/scipy/pull/14392>`__: BUG/ENH: rework maximum flow preprocessing * `#14393 <https://github.com/scipy/scipy/pull/14393>`__: CI: Lint checks failures are reporting success * `#14403 <https://github.com/scipy/scipy/pull/14403>`__: Fix off by one error in doc string. * `#14404 <https://github.com/scipy/scipy/pull/14404>`__: DOC: docstring fix for default of n param of interpolate.pade * `#14406 <https://github.com/scipy/scipy/pull/14406>`__: MAINT: Use numpy_nodepr_api in \`spatial\` * `#14411 <https://github.com/scipy/scipy/pull/14411>`__: MAINT: minor cleanups in usage of \`compute_uv\` keyword of \`svd\` * `#14413 <https://github.com/scipy/scipy/pull/14413>`__: DOC:interpolate: Fix the docstring example of "lagrange" * `#14419 <https://github.com/scipy/scipy/pull/14419>`__: DEP: deprecate private but non-underscored \`signal.spline\`... * `#14422 <https://github.com/scipy/scipy/pull/14422>`__: MAINT: csgraph: change Dinic algorithm to iterative implementation * `#14423 <https://github.com/scipy/scipy/pull/14423>`__: CI: remove printing of skipped and xfailed tests from Azure test... * `#14426 <https://github.com/scipy/scipy/pull/14426>`__: ENH: Add args argument for callable in quad_vec * `#14427 <https://github.com/scipy/scipy/pull/14427>`__: MAINT: extra pythran annotation for i686 support * `#14432 <https://github.com/scipy/scipy/pull/14432>`__: BUG/ENH: more stable recursion for 2-sample ks test exact p-values * `#14433 <https://github.com/scipy/scipy/pull/14433>`__: ENH: add PROPACK wrapper for improved sparse SVD * `#14440 <https://github.com/scipy/scipy/pull/14440>`__: MAINT: stats: silence mypy complaints * `#14441 <https://github.com/scipy/scipy/pull/14441>`__: ENH: TST: add a threadpoolctl hook to limit OpenBLAS parallelism * `#14442 <https://github.com/scipy/scipy/pull/14442>`__: MAINT: Fix uninitialized warnings in \`sparse/linalg/dsolve\` * `#14447 <https://github.com/scipy/scipy/pull/14447>`__: MAINT: rename scipy.ndimage modules * `#14449 <https://github.com/scipy/scipy/pull/14449>`__: ENH: Cythonize van der corput * `#14454 <https://github.com/scipy/scipy/pull/14454>`__: MAINT: Begin translation of hyp2f1 for complex numbers into Cython * `#14456 <https://github.com/scipy/scipy/pull/14456>`__: CI: Lint with flake8 instead of pyflakes + pycodestyle * `#14458 <https://github.com/scipy/scipy/pull/14458>`__: DOC: clarify meaning of rvalue in stats.linregress * `#14459 <https://github.com/scipy/scipy/pull/14459>`__: MAINT: Fix uninitialized warnings in \`interpolate\` and \`cluster\` * `#14463 <https://github.com/scipy/scipy/pull/14463>`__: Fix typo in doc overview: "pandas" to "SciPy" * `#14474 <https://github.com/scipy/scipy/pull/14474>`__: DEP: Deprecate private but non-underscored ndimage.<module> namespace * `#14477 <https://github.com/scipy/scipy/pull/14477>`__: MAINT: Using Tempita file for bspline (signal) * `#14479 <https://github.com/scipy/scipy/pull/14479>`__: Added \`Inverse\` word in \`idstn\` and \`idctn\` docstrings * `#14487 <https://github.com/scipy/scipy/pull/14487>`__: TST: modify flaky test for constrained minimization * `#14489 <https://github.com/scipy/scipy/pull/14489>`__: MAINT: cleanup of some line_search code * `#14492 <https://github.com/scipy/scipy/pull/14492>`__: CI: make sure Azure job step fails when building a SciPy wheel... * `#14496 <https://github.com/scipy/scipy/pull/14496>`__: MAINT: switch to using spmatrix.toarray instead of .todense * `#14499 <https://github.com/scipy/scipy/pull/14499>`__: DOC: fix toarray/todense docstring * `#14507 <https://github.com/scipy/scipy/pull/14507>`__: CI: Add lint_diff docs & option to run only on specified files/dirs * `#14513 <https://github.com/scipy/scipy/pull/14513>`__: DOC: added reference and example in jacobi docstring * `#14520 <https://github.com/scipy/scipy/pull/14520>`__: BUG: diffev maxfun can be reached partway through population * `#14524 <https://github.com/scipy/scipy/pull/14524>`__: ENH: Rotation.concatenate * `#14532 <https://github.com/scipy/scipy/pull/14532>`__: ENH: sparse.linalg: The solution is zero when R.H.S. is zero * `#14538 <https://github.com/scipy/scipy/pull/14538>`__: CI: Revert "CI: make sure Azure job step fails when building... * `#14539 <https://github.com/scipy/scipy/pull/14539>`__: DOC: added chebyt and chebyu docstring examples in scipy.special * `#14546 <https://github.com/scipy/scipy/pull/14546>`__: ENH: Orthogonal Latin Hypercube Sampling to QMC * `#14547 <https://github.com/scipy/scipy/pull/14547>`__: ENH: __setitem__ method for Rotation class * `#14549 <https://github.com/scipy/scipy/pull/14549>`__: Small test fixes for pypy + win + mmap * `#14554 <https://github.com/scipy/scipy/pull/14554>`__: ENH: scipy.interpolate.BSpline from_power_basis * `#14555 <https://github.com/scipy/scipy/pull/14555>`__: BUG: sparse: fix a DIA.tocsc bug * `#14556 <https://github.com/scipy/scipy/pull/14556>`__: Fix the link to details of the strongly connected components... * `#14559 <https://github.com/scipy/scipy/pull/14559>`__: WIP: TST: add tests for Pythran somersd * `#14561 <https://github.com/scipy/scipy/pull/14561>`__: DOC: added reference and examples in (gen)laguerre docstring... * `#14564 <https://github.com/scipy/scipy/pull/14564>`__: ENH: Add threaded Van Der Corput * `#14571 <https://github.com/scipy/scipy/pull/14571>`__: Fix repeated word in _mannwhitneyu.py example * `#14572 <https://github.com/scipy/scipy/pull/14572>`__: Set min length of the knot array for BSpline.design_matrix * `#14578 <https://github.com/scipy/scipy/pull/14578>`__: DOC: added examples in spherical Bessel docstrings * `#14581 <https://github.com/scipy/scipy/pull/14581>`__: MAINT: Refactor \`linalg.tests.test_interpolative::TestInterpolativeDecomposition::test_id\` * `#14588 <https://github.com/scipy/scipy/pull/14588>`__: ENH: Added \`\`kulczynski1\`\` to \`\`scipy.spatial.distance\`\` * `#14592 <https://github.com/scipy/scipy/pull/14592>`__: DOC: clarify parameters of norminvgauss in scipy.stats * `#14595 <https://github.com/scipy/scipy/pull/14595>`__: Removing unused subroutines in \`\`scipy/linalg/src/id_dist/src/prini.f\`\` * `#14601 <https://github.com/scipy/scipy/pull/14601>`__: Fixed inconsistencies between numpy and scipy interp * `#14602 <https://github.com/scipy/scipy/pull/14602>`__: MAINT: Fix \`-Wunused-result\` warnings in \`sparse/linalg/dsolve\` * `#14603 <https://github.com/scipy/scipy/pull/14603>`__: DEV: initialize all submodules in Gitpod Dockerfile * `#14609 <https://github.com/scipy/scipy/pull/14609>`__: MAINT: Fix \`-Wmaybe-uninitialized\` warnings in \`optimize/_highs\` * `#14610 <https://github.com/scipy/scipy/pull/14610>`__: MAINT: Ignored \`\`scipy/signal/bspline_util.c\`\` * `#14613 <https://github.com/scipy/scipy/pull/14613>`__: MAINT: interpolate: Declare type for a Cython indexing variable. * `#14619 <https://github.com/scipy/scipy/pull/14619>`__: ENH: stats.unuran: add Polynomial interpolation based numerical... * `#14620 <https://github.com/scipy/scipy/pull/14620>`__: CI: fix Azure job which uses pre-release wheels + Python 3.7 * `#14625 <https://github.com/scipy/scipy/pull/14625>`__: ENH: optimize min max and median scipy.stats.binned_statistic * `#14626 <https://github.com/scipy/scipy/pull/14626>`__: MAINT: fix type-narrowing addition in sparse.construct.bmat * `#14627 <https://github.com/scipy/scipy/pull/14627>`__: MAINT: Bumped tolerances to pass \`\`special.tests\`\` on Apple... * `#14628 <https://github.com/scipy/scipy/pull/14628>`__: DOC: clarify usage of options param in scipy.optimize.linprog * `#14629 <https://github.com/scipy/scipy/pull/14629>`__: ENH: optimize std in scipy.stats.binned_statistic * `#14630 <https://github.com/scipy/scipy/pull/14630>`__: DOC: add citation file * `#14631 <https://github.com/scipy/scipy/pull/14631>`__: Fix unuran builds for older compilers * `#14633 <https://github.com/scipy/scipy/pull/14633>`__: BUG: scipy.stats._unran: send only strings to include_dirs * `#14634 <https://github.com/scipy/scipy/pull/14634>`__: DOC: Fix Wikipedia bootstrap link * `#14635 <https://github.com/scipy/scipy/pull/14635>`__: DOC: stats: fix multivariate_t docs pdf eqn * `#14637 <https://github.com/scipy/scipy/pull/14637>`__: MAINT: copy discrete dist dict * `#14643 <https://github.com/scipy/scipy/pull/14643>`__: MAINT: address gh6019, disp for minimize_scalar * `#14644 <https://github.com/scipy/scipy/pull/14644>`__: DOC: stats: add UNU.RAN references in the tutorial * `#14649 <https://github.com/scipy/scipy/pull/14649>`__: DOC: clarify SciPy compatibility with Python and NumPy. * `#14655 <https://github.com/scipy/scipy/pull/14655>`__: MAINT: remove support for Python 3.7 (hence NumPy 1.16) * `#14656 <https://github.com/scipy/scipy/pull/14656>`__: MAINT: replacing ``assert_`` with assert * `#14658 <https://github.com/scipy/scipy/pull/14658>`__: DOC: use conda-forge in Ubuntu quickstart * `#14660 <https://github.com/scipy/scipy/pull/14660>`__: MAINT: refactor "for ... in range(len(" statements * `#14663 <https://github.com/scipy/scipy/pull/14663>`__: MAINT: update leftover Python and NumPy version from pyproject.toml * `#14665 <https://github.com/scipy/scipy/pull/14665>`__: BLD: fix confusing "import pip" failure that should be caught * `#14666 <https://github.com/scipy/scipy/pull/14666>`__: MAINT: remove unnecessary seeding and update \`check_random_state\` * `#14669 <https://github.com/scipy/scipy/pull/14669>`__: ENH: Refactor GitHub Issue form templates * `#14673 <https://github.com/scipy/scipy/pull/14673>`__: BLD: fix include order, Python.h before standard headers * `#14676 <https://github.com/scipy/scipy/pull/14676>`__: BUG: Fixes failing benchmark tests optimize_qap.QuadraticAssignment.track_score * `#14677 <https://github.com/scipy/scipy/pull/14677>`__: MAINT: github labeler on file paths * `#14682 <https://github.com/scipy/scipy/pull/14682>`__: DOC: Fix typo in mannwhitneyu docstring * `#14684 <https://github.com/scipy/scipy/pull/14684>`__: DOC: optimize: fix sporadic linprog doctest failure * `#14685 <https://github.com/scipy/scipy/pull/14685>`__: MAINT: static typing of entropy * `#14686 <https://github.com/scipy/scipy/pull/14686>`__: BUG: fix issue in lsqr.py introduced in a recent commit * `#14689 <https://github.com/scipy/scipy/pull/14689>`__: MAINT: replace IOError alias with OSError or other appropriate... * `#14692 <https://github.com/scipy/scipy/pull/14692>`__: MAINT: Translation of hyp2f1 for complex numbers into Cython,... * `#14693 <https://github.com/scipy/scipy/pull/14693>`__: DOC: update OptimizeResult notes * `#14694 <https://github.com/scipy/scipy/pull/14694>`__: Simplify PythranBuildExt usage * `#14695 <https://github.com/scipy/scipy/pull/14695>`__: BLD: bump Pythran version to 0.9.12 * `#14697 <https://github.com/scipy/scipy/pull/14697>`__: CI: add \`cffi\` in the benchmark CI job, and in environment.yml * `#14699 <https://github.com/scipy/scipy/pull/14699>`__: BUG: Fix TypeError in \`stats._discrete_distns\` * `#14700 <https://github.com/scipy/scipy/pull/14700>`__: DOC: update detailed roadmap * `#14701 <https://github.com/scipy/scipy/pull/14701>`__: ENH:linalg: Add Cythonized get_array_bandwidth, issymmetric,... * `#14706 <https://github.com/scipy/scipy/pull/14706>`__: BUG: Fix hyp2f1 to return correct values in regions near exp(±iπ/3). * `#14707 <https://github.com/scipy/scipy/pull/14707>`__: Update constants.py * `#14708 <https://github.com/scipy/scipy/pull/14708>`__: BENCH: shorten svds benchmark that is timing out in CI * `#14709 <https://github.com/scipy/scipy/pull/14709>`__: CI: remove labeler sync * `#14712 <https://github.com/scipy/scipy/pull/14712>`__: MAINT: special: Updates for _cosine.c. * `#14720 <https://github.com/scipy/scipy/pull/14720>`__: DOC: optimize hess and consistency * `#14721 <https://github.com/scipy/scipy/pull/14721>`__: MAINT: correct PR template link * `#14723 <https://github.com/scipy/scipy/pull/14723>`__: DOC: add note on padding to \`stats.binned_statistic_2d\` docs * `#14727 <https://github.com/scipy/scipy/pull/14727>`__: ENH: sparse.linalg: Add an useful nonzero initial guess option * `#14729 <https://github.com/scipy/scipy/pull/14729>`__: DOC: fix documentation for scipy.optimize.brenth * `#14737 <https://github.com/scipy/scipy/pull/14737>`__: BUG:signal: matching window dtype to input * `#14739 <https://github.com/scipy/scipy/pull/14739>`__: TST: sparse.linalg: Add test case with 2-D Poisson equations * `#14743 <https://github.com/scipy/scipy/pull/14743>`__: TST:sparse.linalg: Use the more convenient "assert_normclose"... * `#14748 <https://github.com/scipy/scipy/pull/14748>`__: DOC: fix matrix representation in scipy.sparse.csgraph * `#14751 <https://github.com/scipy/scipy/pull/14751>`__: ENH: numpy masked_arrays in refguide-check * `#14755 <https://github.com/scipy/scipy/pull/14755>`__: BUG: Avoid \`solve_ivp\` failure when \`ts\` is empty * `#14756 <https://github.com/scipy/scipy/pull/14756>`__: MAINT: LinAlgError from public numpy.linalg * `#14759 <https://github.com/scipy/scipy/pull/14759>`__: BLD: change section name in site.cfg.example from ALL to DEFAULT * `#14760 <https://github.com/scipy/scipy/pull/14760>`__: TST: suppress jinja2 deprecation warning * `#14761 <https://github.com/scipy/scipy/pull/14761>`__: CI: remove \`pre_release_deps_source_dist\` job from Azure CI... * `#14762 <https://github.com/scipy/scipy/pull/14762>`__: TST: add a seed to the pickling test of RBFInterpolator * `#14763 <https://github.com/scipy/scipy/pull/14763>`__: MAINT: Make solve_ivp slightly more strict wrt. t_span. * `#14772 <https://github.com/scipy/scipy/pull/14772>`__: DOC:special: Fix broken links to jburkardt * `#14787 <https://github.com/scipy/scipy/pull/14787>`__: MAINT: Increase tolerance values to avoid test failures * `#14789 <https://github.com/scipy/scipy/pull/14789>`__: MAINT: fix a tiny typo in signal/spectral.py * `#14790 <https://github.com/scipy/scipy/pull/14790>`__: [MRG] BUG: Avoid lobpcg failure when iterations can't continue * `#14794 <https://github.com/scipy/scipy/pull/14794>`__: Fix typos in bspline docs (and comments) * `#14796 <https://github.com/scipy/scipy/pull/14796>`__: MAINT: Allow F401 and F403 in module init files * `#14798 <https://github.com/scipy/scipy/pull/14798>`__: BUG: correct the test loop in test_arpack.eval_evec * `#14801 <https://github.com/scipy/scipy/pull/14801>`__: CI, MAINT: pin Cython for azure pre-rel * `#14805 <https://github.com/scipy/scipy/pull/14805>`__: BUG: optimize: fix max function call validation for minimize... * `#14808 <https://github.com/scipy/scipy/pull/14808>`__: Fix Bug #14807 * `#14814 <https://github.com/scipy/scipy/pull/14814>`__: MAINT:integrate: add upstream quadpack changes * `#14817 <https://github.com/scipy/scipy/pull/14817>`__: ENH: stats: add geometric zscore * `#14820 <https://github.com/scipy/scipy/pull/14820>`__: MAINT: Remove \`np.rollaxis\` usage with \`np.moveaxis\` and... * `#14821 <https://github.com/scipy/scipy/pull/14821>`__: DOC: Updated documentation for interp1d * `#14822 <https://github.com/scipy/scipy/pull/14822>`__: Add an array API to scipy.sparse * `#14832 <https://github.com/scipy/scipy/pull/14832>`__: MAINT: py3.10 in more jobs and bump some 3.8 to 3.9 * `#14833 <https://github.com/scipy/scipy/pull/14833>`__: FIX: raise Python OverflowError exception on Boost.Math error * `#14836 <https://github.com/scipy/scipy/pull/14836>`__: Bug fix: dqc25f.f * `#14837 <https://github.com/scipy/scipy/pull/14837>`__: DOC: sparse.linalg: Fixed incorrect comments when the initial... * `#14838 <https://github.com/scipy/scipy/pull/14838>`__: TST: seed a stats test * `#14841 <https://github.com/scipy/scipy/pull/14841>`__: MAINT: Increase tolerances in tests to avoid Nightly CPython3.10... * `#14844 <https://github.com/scipy/scipy/pull/14844>`__: DOC: Add refguide_check option details to runtests.rst * `#14845 <https://github.com/scipy/scipy/pull/14845>`__: DOC: update a type specifier in a docstring in \`radau.py\` * `#14848 <https://github.com/scipy/scipy/pull/14848>`__: Typo "copmlex" * `#14852 <https://github.com/scipy/scipy/pull/14852>`__: DOC: Fix documentation bugs in \`lstsq\` * `#14860 <https://github.com/scipy/scipy/pull/14860>`__: minimize: copy user constraints if parameter is factored out.... * `#14865 <https://github.com/scipy/scipy/pull/14865>`__: BUG: stats: Fix a crash in stats.skew * `#14868 <https://github.com/scipy/scipy/pull/14868>`__: [MRG] BUG: Update lobpcg.py to validate the accuracy and issue... * `#14871 <https://github.com/scipy/scipy/pull/14871>`__: MAINT: removed a pitfall where a built-in name was being shadowed * `#14872 <https://github.com/scipy/scipy/pull/14872>`__: DEP: Deprecate private namespaces in \`scipy.linalg\` * `#14878 <https://github.com/scipy/scipy/pull/14878>`__: TST: bump rtol for equal_bounds * `#14881 <https://github.com/scipy/scipy/pull/14881>`__: DEP: Deprecate private namespaces in \`scipy.special\` * `#14882 <https://github.com/scipy/scipy/pull/14882>`__: BUG: Convert TNC C module to cython * `#14883 <https://github.com/scipy/scipy/pull/14883>`__: DOC:linalg: Clarify driver defaults in eigh * `#14884 <https://github.com/scipy/scipy/pull/14884>`__: BUG: optimize: add missing attributes of \`OptimizeResult\` for... * `#14892 <https://github.com/scipy/scipy/pull/14892>`__: DOC: Correct docs for Hausdorff distance * `#14898 <https://github.com/scipy/scipy/pull/14898>`__: DEP: Deprecate private namespace in \`scipy.stats\` * `#14902 <https://github.com/scipy/scipy/pull/14902>`__: MAINT:linalg: Rename func to "bandwidth" * `#14906 <https://github.com/scipy/scipy/pull/14906>`__: DEP: Deprecate private namespace in \`scipy.constants\` * `#14913 <https://github.com/scipy/scipy/pull/14913>`__: DEP: Deprecate private namespace in \`scipy.fftpack\` * `#14916 <https://github.com/scipy/scipy/pull/14916>`__: DEP: Deprecate \`stats.biasedurn\` and make it private * `#14918 <https://github.com/scipy/scipy/pull/14918>`__: DEP: Deprecate private namespaces in \`\`scipy.interpolate\`\` * `#14919 <https://github.com/scipy/scipy/pull/14919>`__: DEP: Deprecate private namespaces in \`scipy.integrate\` * `#14920 <https://github.com/scipy/scipy/pull/14920>`__: Fix for complex Fresnel * `#14923 <https://github.com/scipy/scipy/pull/14923>`__: DEP: Deprecate private namespaces in \`\`scipy.spatial\`\` * `#14924 <https://github.com/scipy/scipy/pull/14924>`__: Fix extent for scipy.signal.cwt example * `#14925 <https://github.com/scipy/scipy/pull/14925>`__: MAINT: Ignore build generated files in \`\`scipy.stats\`\` * `#14927 <https://github.com/scipy/scipy/pull/14927>`__: DEP: Deprecate private namespaces in \`scipy.misc\` * `#14928 <https://github.com/scipy/scipy/pull/14928>`__: MAINT: fix runtest.py overriding \`$PYTHONPATH\`: prepend instead * `#14934 <https://github.com/scipy/scipy/pull/14934>`__: BUG: optimize: add a missing attribute of OptimizeResult in \`basinhopping\` * `#14939 <https://github.com/scipy/scipy/pull/14939>`__: DEP: Deprecate private namespaces in \`\`scipy.sparse\`\` * `#14941 <https://github.com/scipy/scipy/pull/14941>`__: ENH: optimize: add optional parameters of adaptive step size... * `#14943 <https://github.com/scipy/scipy/pull/14943>`__: DOC: clarify mac pytest; add blank line * `#14944 <https://github.com/scipy/scipy/pull/14944>`__: BUG: MultivariateNormalQMC with specific QMCEngine remove unneeded... * `#14947 <https://github.com/scipy/scipy/pull/14947>`__: DOC: adding example to decimate function * `#14950 <https://github.com/scipy/scipy/pull/14950>`__: MAINT: Use matmul binary operator in scipy.sparse.linalg * `#14954 <https://github.com/scipy/scipy/pull/14954>`__: DOC: Add missing params to minres docstring. * `#14955 <https://github.com/scipy/scipy/pull/14955>`__: BUG: stats: fix broadcasting behavior of argsreduce * `#14960 <https://github.com/scipy/scipy/pull/14960>`__: Update links for new site * `#14961 <https://github.com/scipy/scipy/pull/14961>`__: CI: use https protocol for git in CircleCI * `#14962 <https://github.com/scipy/scipy/pull/14962>`__: DEP: Deprecate private namespaces in \`scipy.signal\` * `#14963 <https://github.com/scipy/scipy/pull/14963>`__: MAINT: \`integrate.lsoda\` missing in .gitignore * `#14965 <https://github.com/scipy/scipy/pull/14965>`__: DOC: update logo and add favicon. * `#14966 <https://github.com/scipy/scipy/pull/14966>`__: DEP: Deprecate private namespaces in \`\`scipy.optimize\`\` * `#14969 <https://github.com/scipy/scipy/pull/14969>`__: CI: Fixes pyparsing version in doc build * `#14972 <https://github.com/scipy/scipy/pull/14972>`__: Don't put space after directive name. * `#14979 <https://github.com/scipy/scipy/pull/14979>`__: BUG: scipy.sparse.linalg.spsolve: fix memory error caused from... * `#14988 <https://github.com/scipy/scipy/pull/14988>`__: BLD: update pyproject.toml for Python 3.10 * `#14989 <https://github.com/scipy/scipy/pull/14989>`__: ENH: Speed up knot interval lookup for BSpline.design_matrix * `#14992 <https://github.com/scipy/scipy/pull/14992>`__: Pythranized version of _matfuncs_sqrtm * `#14993 <https://github.com/scipy/scipy/pull/14993>`__: MAINT: forward port 1.7.2 relnotes * `#15004 <https://github.com/scipy/scipy/pull/15004>`__: ENH: Make \`get_matfile_version\` and other \`io.matlab\` objects... * `#15007 <https://github.com/scipy/scipy/pull/15007>`__: DOC: add missing "regularized" to \`gammainccinv\` documentation * `#15008 <https://github.com/scipy/scipy/pull/15008>`__: MAINT: restore access to deprecated private namespaces * `#15010 <https://github.com/scipy/scipy/pull/15010>`__: TST: remove fragile test which checks if g77 is linked * `#15013 <https://github.com/scipy/scipy/pull/15013>`__: MAINT: Fix use-after-free bug in Py_FindObjects * `#15018 <https://github.com/scipy/scipy/pull/15018>`__: CI: Work around Sphinx bug * `#15019 <https://github.com/scipy/scipy/pull/15019>`__: Finite Difference Hessian in Scipy Optimize Solvers (Newton-CG) * `#15020 <https://github.com/scipy/scipy/pull/15020>`__: ENH: sparse.linalg: Fixed the issue that the initial guess "x0"... * `#15022 <https://github.com/scipy/scipy/pull/15022>`__: DOC: mitigate newton optimization not converging. * `#15023 <https://github.com/scipy/scipy/pull/15023>`__: CI: Unpin Sphinx * `#15027 <https://github.com/scipy/scipy/pull/15027>`__: DOC: linalg: Fix a small condition doc error * `#15029 <https://github.com/scipy/scipy/pull/15029>`__: DEP: Deprecate private namespaces in \`scipy.sparse.linalg\` * `#15034 <https://github.com/scipy/scipy/pull/15034>`__: DOC: use numpydoc format for C function in \`_superlumodule.c\` * `#15035 <https://github.com/scipy/scipy/pull/15035>`__: MAINT: simplify UNU.RAN api in stats * `#15037 <https://github.com/scipy/scipy/pull/15037>`__: New example for gaussian_filter * `#15040 <https://github.com/scipy/scipy/pull/15040>`__: MAINT: Add test for public API * `#15041 <https://github.com/scipy/scipy/pull/15041>`__: DOC: Add warning to dct documentation about norm='ortho' * `#15045 <https://github.com/scipy/scipy/pull/15045>`__: DOC: update toolchain.rst * `#15053 <https://github.com/scipy/scipy/pull/15053>`__: TST: Add some test skips to get wheel builder CI green again * `#15054 <https://github.com/scipy/scipy/pull/15054>`__: MAINT: Remove wminkowski * `#15055 <https://github.com/scipy/scipy/pull/15055>`__: ENH: allow p>0 for Minkowski distance * `#15061 <https://github.com/scipy/scipy/pull/15061>`__: MAINT:sparse: expm() fix redundant imports * `#15062 <https://github.com/scipy/scipy/pull/15062>`__: MAINT:BLD: Open file in text mode for tempita * `#15066 <https://github.com/scipy/scipy/pull/15066>`__: CI: bump gcc from 4.8 to 6 * `#15067 <https://github.com/scipy/scipy/pull/15067>`__: DOC: Update broken link to SuperLU library. * `#15078 <https://github.com/scipy/scipy/pull/15078>`__: MAINT: update \`stats.iqr\` for deprecated \`np.percentile\`... * `#15083 <https://github.com/scipy/scipy/pull/15083>`__: MAINT: stats: separate UNU.RAN functionality to its own submodule * `#15084 <https://github.com/scipy/scipy/pull/15084>`__: MAINT: Include \`scipy.io.matlab\` in public API * `#15085 <https://github.com/scipy/scipy/pull/15085>`__: ENH: support creation of analog SOS outputs * `#15087 <https://github.com/scipy/scipy/pull/15087>`__: TST: Review \`\`_assert_within_tol\`\` positional arguments * `#15095 <https://github.com/scipy/scipy/pull/15095>`__: MAINT: update gitignore to ignore private directories * `#15099 <https://github.com/scipy/scipy/pull/15099>`__: MAINT: ScalarFunction remember best_x * `#15100 <https://github.com/scipy/scipy/pull/15100>`__: MAINT: Include \`stats.contingency\` in public API * `#15102 <https://github.com/scipy/scipy/pull/15102>`__: ENH: Add orthogonalize argument to DCT/DST * `#15105 <https://github.com/scipy/scipy/pull/15105>`__: MAINT: Add missing imports in deprecated modules * `#15107 <https://github.com/scipy/scipy/pull/15107>`__: BUG: Update chi_gen to use scipy.special.gammaln * `#15109 <https://github.com/scipy/scipy/pull/15109>`__: MAINT: remove NaiveRatioUniforms from scipy.stats * `#15111 <https://github.com/scipy/scipy/pull/15111>`__: ENH: Add special.log_expit and use it in stats.logistic * `#15112 <https://github.com/scipy/scipy/pull/15112>`__: DOC: update 'Wn' definition in signal.butter * `#15114 <https://github.com/scipy/scipy/pull/15114>`__: DOC: added Fermi-Dirac distribution by name * `#15119 <https://github.com/scipy/scipy/pull/15119>`__: DOC: fix symlink to \`logistic.sf\` in \`stats.logistic\` * `#15120 <https://github.com/scipy/scipy/pull/15120>`__: MAINT: Install \`sparse.linalg._eigen\` tests and fix test failures * `#15123 <https://github.com/scipy/scipy/pull/15123>`__: MAINT: interpolate: move the \`sparse\` dependency from cython... * `#15127 <https://github.com/scipy/scipy/pull/15127>`__: DOC: update linux build instructions to mention C++ * `#15134 <https://github.com/scipy/scipy/pull/15134>`__: DOC: Improve Lomb-Scargle example * `#15135 <https://github.com/scipy/scipy/pull/15135>`__: ENH: Carlson symmetric elliptic integrals. * `#15137 <https://github.com/scipy/scipy/pull/15137>`__: DOC: special: Add 'Examples' to multigammaln and roots_legendre... * `#15139 <https://github.com/scipy/scipy/pull/15139>`__: Use constrained_layout in Lomb-Scargle example * `#15142 <https://github.com/scipy/scipy/pull/15142>`__: ENH: stats.sampling: add SROU method * `#15143 <https://github.com/scipy/scipy/pull/15143>`__: MAINT: Remove some unused imports. * `#15144 <https://github.com/scipy/scipy/pull/15144>`__: BUG: Add missing import of 'errno' to runtests.py * `#15157 <https://github.com/scipy/scipy/pull/15157>`__: ENH: rebased version of gh-14279 * `#15159 <https://github.com/scipy/scipy/pull/15159>`__: DOC: stats: fix a header in \`stats.sampling\` tutorial * `#15161 <https://github.com/scipy/scipy/pull/15161>`__: DOC: 1.8.0 relnotes update * `#15175 <https://github.com/scipy/scipy/pull/15175>`__: MAINT: 1.8.0 backports for relnotes and .gitignore * `#15181 <https://github.com/scipy/scipy/pull/15181>`__: BUG: The pytest decorator for conditional skipping is 'skipif' * `#15191 <https://github.com/scipy/scipy/pull/15191>`__: MAINT: version bounds before 1.8.0rc1 * `#15192 <https://github.com/scipy/scipy/pull/15192>`__: MAINT: Replace use of \`pytest.warns(None)\` with \`warnings.catch_warnings\` * `#15194 <https://github.com/scipy/scipy/pull/15194>`__: BUG: stats: Fix numerical issues of recipinvgauss * `#15214 <https://github.com/scipy/scipy/pull/15214>`__: TST: sparse.linalg: store only PROPACK test matrices; generate... * `#15220 <https://github.com/scipy/scipy/pull/15220>`__: BUG: sparse.linalg: Fix deprecation warnings. * `#15225 <https://github.com/scipy/scipy/pull/15225>`__: Make 0th power of a sparse array/matrix return the identity with... * `#15229 <https://github.com/scipy/scipy/pull/15229>`__: BUG: minimize should work with a scalar closes #15228 * `#15232 <https://github.com/scipy/scipy/pull/15232>`__: BUG: Add rmul for sparse arrays * `#15236 <https://github.com/scipy/scipy/pull/15236>`__: BLD: update setup.py for Python 3.10 * `#15248 <https://github.com/scipy/scipy/pull/15248>`__: MAINT: 1.8.0rc2 backports * `#15253 <https://github.com/scipy/scipy/pull/15253>`__: BUG: special: fix \`stdtr\` and \`stdtrit\` for infinite df * `#15256 <https://github.com/scipy/scipy/pull/15256>`__: MAINT: use PEP440 vs. distutils * `#15268 <https://github.com/scipy/scipy/pull/15268>`__: CI: pin setuptools to 59.6.0 and Pythran to 0.10.0 for Windows... * `#15270 <https://github.com/scipy/scipy/pull/15270>`__: MAINT: rename \`moduleTNC\` extension back to \`_moduleTNC\` * `#15271 <https://github.com/scipy/scipy/pull/15271>`__: TST: slightly bump test tolerance for a new lobpcg test * `#15275 <https://github.com/scipy/scipy/pull/15275>`__: MAINT: Fix imports in \`signal._signaltools\` * `#15288 <https://github.com/scipy/scipy/pull/15288>`__: BLD Respect the --skip-build flag in setup.py * `#15293 <https://github.com/scipy/scipy/pull/15293>`__: BUG: fix Hausdorff int overflow * `#15301 <https://github.com/scipy/scipy/pull/15301>`__: TST: update \`sparse.linalg\` tests for failures due to tolerances * `#15318 <https://github.com/scipy/scipy/pull/15318>`__: BLD: update pyproject.toml to not pin numpy for aarch64 + PyPy * `#15322 <https://github.com/scipy/scipy/pull/15322>`__: BLD: update minimum Pythran version to 0.10.0 for SciPy 1.8.0 * `#15323 <https://github.com/scipy/scipy/pull/15323>`__: MAINT: filter RuntimeWarnings in stats functions * `#15328 <https://github.com/scipy/scipy/pull/15328>`__: MAINT: interpolate: csr_matrix -> csr_array * `#15331 <https://github.com/scipy/scipy/pull/15331>`__: BUG: stats._unuran: fix invalid attribute lookups * `#15332 <https://github.com/scipy/scipy/pull/15332>`__: CI: pin numpy to 1.21.5 for the doc build on CircleCI * `#15334 <https://github.com/scipy/scipy/pull/15334>`__: BUG: stats._unuran: fix remaining attribute lookup errors * `#15335 <https://github.com/scipy/scipy/pull/15335>`__: CI: pin numpy to 1.21.5 in the Azure refguide check job * `#15341 <https://github.com/scipy/scipy/pull/15341>`__: BUG: \`highs-ds\` returns memoryviews instead of np.arrays for... * `#15397 <https://github.com/scipy/scipy/pull/15397>`__: BUG: ensured vendored pep440 is imported * `#15416 <https://github.com/scipy/scipy/pull/15416>`__: BUG: Fix PyUFunc for wasm targets Checksums ========= MD5 ~~~ 947fd121d715355a857152e04c6799d4 scipy-1.8.0rc3-cp310-cp310-macosx_10_9_x86_64.whl dd1f423aba41e4ab0ed69cd06042ab48 scipy-1.8.0rc3-cp310-cp310-macosx_12_0_arm64.whl 96ab716a4b892abce6b49843f48e09ff scipy-1.8.0rc3-cp310-cp310-macosx_12_0_universal2.macosx_10_9_x86_64.whl b2e8f705302070daddd0182b99a2c906 scipy-1.8.0rc3-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl ef46554ea001a6b8f31f22aba357e472 scipy-1.8.0rc3-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 0028f9798e86c4d04d5cad3859bce0ce scipy-1.8.0rc3-cp310-cp310-win_amd64.whl ba1d184c38b6236c9d7b55478ef5bd4e scipy-1.8.0rc3-cp38-cp38-macosx_10_9_x86_64.whl 7ec8c597ab5c2956bcae05346904490d scipy-1.8.0rc3-cp38-cp38-macosx_12_0_arm64.whl dcb964a5d9e918073e134642cc256c68 scipy-1.8.0rc3-cp38-cp38-macosx_12_0_universal2.macosx_10_9_x86_64.whl 5cf8cf09abc03cd451eca9d12c3e9768 scipy-1.8.0rc3-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl 662993ed9992b0ff7be2df941b8d2eed scipy-1.8.0rc3-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 8a8da3aff20ac4f02efdd2bc9ef4b09c scipy-1.8.0rc3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 300e6bfd438814d641e2cdcc68256054 scipy-1.8.0rc3-cp38-cp38-win32.whl 0cf2ea9b767c7e1770d159c945727425 scipy-1.8.0rc3-cp38-cp38-win_amd64.whl 777cb75affecd5ac7fa8b867df254a77 scipy-1.8.0rc3-cp39-cp39-macosx_10_9_x86_64.whl 4241a329e43a094a525d5df8ba21af61 scipy-1.8.0rc3-cp39-cp39-macosx_12_0_arm64.whl 073daf9a52a7815afdd828343c6051f2 scipy-1.8.0rc3-cp39-cp39-macosx_12_0_universal2.macosx_10_9_x86_64.whl 18b497cf8d7c2b7c31f70467a7a13888 scipy-1.8.0rc3-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl fb0d755e6230766db16468a63e38a950 scipy-1.8.0rc3-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 26d385902f6a692ea98071d29f057c85 scipy-1.8.0rc3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl fdd2da63c757eba163e42ad939d6f7c2 scipy-1.8.0rc3-cp39-cp39-win32.whl e2dd41e8c34a86c5054c66221d0c11b3 scipy-1.8.0rc3-cp39-cp39-win_amd64.whl bd70512d9240fdfdec922126520ed8b3 scipy-1.8.0rc3.tar.gz 74c6be1dc729a89348058970d89cc2c5 scipy-1.8.0rc3.tar.xz 8e5b1809b59d7ee27f6eb138c796bb2a scipy-1.8.0rc3.zip SHA256 ~~~~~~ 825f492f3bf3b00396fd8f96cb70d8fe1f046e00570613fd7ea5d2599c9439b0 scipy-1.8.0rc3-cp310-cp310-macosx_10_9_x86_64.whl 55380823ca8b8a5e65dade10e385a5a0ff25e6f42a1bb4f6c44dc8b07471b4da scipy-1.8.0rc3-cp310-cp310-macosx_12_0_arm64.whl e368a83c153e1c5a755d548bf1a7803eac3714bb6b296573581fe92d2b513b55 scipy-1.8.0rc3-cp310-cp310-macosx_12_0_universal2.macosx_10_9_x86_64.whl 2ce5e930dba18b6a9bc53210913511407a93a1f91ca6e85b1f8c95a431e169b4 scipy-1.8.0rc3-cp310-cp310-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 34c62155ceacc892652da9aff4e43dc6bc39d2d00348b6286bc75046684fc989 scipy-1.8.0rc3-cp310-cp310-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 5ec474e263e353b3408943f48381144b8c13847144e270a1f9b2841e7686065e scipy-1.8.0rc3-cp310-cp310-win_amd64.whl 3e35ba7e1e4e77921b1b163ec5664bd02ded9e436e02de26b87c097a5ccc9cbb scipy-1.8.0rc3-cp38-cp38-macosx_10_9_x86_64.whl d4b501fc3ab88c016e91f63175cbe4dbeb37b093651b34c6398f82e9ad5dea90 scipy-1.8.0rc3-cp38-cp38-macosx_12_0_arm64.whl d2babf8795f1eda0da6b6a9708e31c1ebf12d0d1bfefc1e887484f27a58570e1 scipy-1.8.0rc3-cp38-cp38-macosx_12_0_universal2.macosx_10_9_x86_64.whl e21d6ec3089655d77e035eccc67fac05612fef5a6357812d47fbf34a8781fd7f scipy-1.8.0rc3-cp38-cp38-manylinux_2_12_i686.manylinux2010_i686.whl 9618c2844de38ae29720f5801cea17385eed8c84b484b85e2ccb4d9e7ee06805 scipy-1.8.0rc3-cp38-cp38-manylinux_2_17_aarch64.manylinux2014_aarch64.whl e7bc208f2c4477db44b27978689bf7687a85d4dd95354fb7e7cf9575007a4bf7 scipy-1.8.0rc3-cp38-cp38-manylinux_2_17_x86_64.manylinux2014_x86_64.whl f6eed8b54531c1268f284d27a2592f34ae73930fed7d08e96de28be62b04baf4 scipy-1.8.0rc3-cp38-cp38-win32.whl be176c39e96cc092ba5a82086d91e866917a06c142dfe9c7af9646f6cc9248c6 scipy-1.8.0rc3-cp38-cp38-win_amd64.whl 5b48d38ce67604f2e1d692fee0b5f0bf6f8a6dc8f3e72a62728fd8171d84545c scipy-1.8.0rc3-cp39-cp39-macosx_10_9_x86_64.whl 601c41a178a3a2b4a31ea376c1acd98d9b81500eee77513d7259e0ca070076e1 scipy-1.8.0rc3-cp39-cp39-macosx_12_0_arm64.whl 265dccef2d25e42c418a7c30067eabf19e2077eb6f93cac24050f090bb8ad0aa scipy-1.8.0rc3-cp39-cp39-macosx_12_0_universal2.macosx_10_9_x86_64.whl 813e0e7c389f8b9969acd5dede6d66dfd0d43bc0e290d4f67c7f44b7e6fb7583 scipy-1.8.0rc3-cp39-cp39-manylinux_2_12_i686.manylinux2010_i686.whl 2b737698abbc966e5cee1b8bac27660dfd039139468d95530551efc2864f7140 scipy-1.8.0rc3-cp39-cp39-manylinux_2_17_aarch64.manylinux2014_aarch64.whl 884fe6f28db47b1c8ff8f3d4f15f874de0e0e8724c31e23cac447167ec1fc992 scipy-1.8.0rc3-cp39-cp39-manylinux_2_17_x86_64.manylinux2014_x86_64.whl 40214616e00a0e5651de1bcbad368b9bdd8d61f929212589d5572a870ab13cdb scipy-1.8.0rc3-cp39-cp39-win32.whl d7f1c8513955cbcb6b8afd11a22d3536290456e1b30b3e6b4e93aaf1deed790d scipy-1.8.0rc3-cp39-cp39-win_amd64.whl 7e4f827b37275b1264102f2cc063ba17a40fb858af7a98f63b3b1be2670a34b1 scipy-1.8.0rc3.tar.gz 8f1f519b37da4ef1723e51d17ed747bf5b7b9efbcb49d121ea7c038feb945e89 scipy-1.8.0rc3.tar.xz e3e6f02d2cd068ea9439eeb948dee36f7a53c00aba7a8cc0d3a71b3621d7d543 scipy-1.8.0rc3.zip

1 0

scipy.stats.mode is a reduction operation; should consume an axis
by Matt Haberland 21 Jan '22

21 Jan '22

Hi all, Like many other `scipy.stats` (e.g. `skew`) and NumPy functions (e.g. `mean`), `scipy.stats.mode` is a reduction operation that should consume the axis it operates along. This is not how it currently behaves: >>> import numpy as np >>> from scipy import stats >>> x = np.random.rand(3, 4, 5) >>> np.mean(x, axis=1).shape (3, 5) >>> stats.skew(x, axis=1).shape (3, 5) >>> stats.mode(x, axis=1).mode.shape (3, 1, 5) gh-15243 (https://github.com/scipy/scipy/pull/15423) considers this to be a bug and proposes to fix it immediately, without a deprecation cycle. However, because the change could be disruptive, it would also temporarily offer a `keepdims` parameter (like many NumPy functions) that users could set `True` to delay updating their code (albeit with a `DeprecationWarning` of its own). Some suggest that we just fix the behavior immediately, without the `keepdims` parameter or a `DeprecationWarning`. Several other options are outlined in this comment: https://github.com/scipy/scipy/pull/15423#issuecomment-1015090369 Of course, whatever ends up happening, we'll be sure to document it in the release notes. In the meantime, we'd appreciate your thoughts on the best way to treat this. Thanks! -- Matt Haberland Assistant Professor BioResource and Agricultural Engineering 08A-3K, Cal Poly

1 0

BLIS triggers segfault in scipy arpack test on i386 (aka how to use system arpack?)
by Drew Parsons 20 Jan '22

20 Jan '22

Hi Scipy Developers I'm seeing a segfault in scipy arpack tests on i386 (sparselinalg/eigen/arpack/tests/test_arpack.py) in test_hermitian_modes. The segfault occurs when Blis is set up to be used as the BLAS implementation. The test passes with OpenBLAS and Atlas. The segfault is detected in Debian CI testing. For scipy that's https://ci.debian.net/packages/s/scipy/ A failing log is located at https://ci.debian.net/data/autopkgtest/unstable/i386/s/scipy/18402204/log.gz The test log doesn't give much detail. Hacking the code manually suggests the segfault happens when calling cneupd for the complex number case, launched in arpack.py at https://github.com/scipy/scipy/blob/cd9a2597b7ee399bf9dbdead0115607d442fece… I opened up a Blis Issue at https://github.com/flame/blis/issues/602. Not clear yet why exactly the segfault occurs. I tried setting up a test fortran program using the parameters from scipy's arpack.py, but it doesn't segfault. Maybe f2py is inculpated? One workaround is to use the system libarpack.so instead of the copy vendored with scipy. The vendored version is ARPACK 3.3.0 while the latest available for Debian is 3.8.0 (and 3.9.0 upstream). README.scipy at linalg/eigen/arpack/ARPACK says it should be possible to use the system version of ARPACK, but it's not obvious how to configure this in the context of the scipy build framework. What do you recommend? Drew Parsons

2 2

NumPy 1.22.1 has been released.
by Charles R Harris 14 Jan '22

14 Jan '22

Hi All, On behalf of the NumPy team, I'm pleased to announce the release of NumPy 1.22.1. NumPy 1.22.1 fixes several bugs discovered after the 1.22.0 release. Notable fixes are: - Fix for f2PY docstring problems (SciPy) - Fix for reduction type problems (AstroPy) - Fixes for various typing bugs. The Python versions supported in this release are 3.8-3.10. Wheels can be downloaded from PyPI <https://pypi.org/project/numpy/1.22.1>; source archives, release notes, and wheel hashes are available on Github <https://github.com/numpy/numpy/releases/tag/v1.22.1>. Linux users will need pip >= 0.19.3 in order to install the manylinux2014 wheels. A recent version of pip is needed to install the universal2 macos wheels. *Contributors* A total of 14 people contributed to this release. People with a "+" by their names contributed a patch for the first time. - Arryan Singh - Bas van Beek - Charles Harris - Denis Laxalde - Isuru Fernando - Kevin Sheppard - Matthew Barber - Matti Picus - Melissa Weber Mendonça - Mukulika Pahari - Omid Rajaei + - Pearu Peterson - Ralf Gommers - Sebastian Berg *Pull requests merged* A total of 20 pull requests were merged for this release. - #20702: MAINT, DOC: Post 1.22.0 release fixes. - #20703: DOC, BUG: Use pngs instead of svgs. - #20704: DOC: Fixed the link on user-guide landing page - #20714: BUG: Restore vc141 support - #20724: BUG: Fix array dimensions solver for multidimensional arguments... - #20725: TYP: change type annotation for ``__array_namespace__`` to ModuleType - #20726: TYP, MAINT: Allow ``ndindex`` to accept integer tuples - #20757: BUG: Relax dtype identity check in reductions - #20763: TYP: Allow time manipulation functions to accept ``date`` and ``timedelta``... - #20768: TYP: Relax the type of ``ndarray.__array_finalize__`` - #20795: MAINT: Raise RuntimeError if setuptools version is too recent. - #20796: BUG, DOC: Fixes SciPy docs build warnings - #20797: DOC: fix OpenBLAS version in release note - #20798: PERF: Optimize array check for bounded 0,1 values - #20805: BUG: Fix that reduce-likes honor out always (and live in the... - #20806: BUG: ``array_api.argsort(descending=True)`` respects relative... - #20807: BUG: Allow integer inputs for pow-related functions in ``array_api`` - #20814: DOC: Refer to NumPy, not pandas, in main page - #20815: DOC: Update Copyright to 2022 [License] - #20819: BUG: Return correctly shaped inverse indices in array_api set... Cheers, Charles Harris

1 0

Using Array API standard in SciPy
by zoerwow＠gmail.com 12 Jan '22

12 Jan '22

Hi all, The recent NumPy release provides an Array API compatible module. From NumPy release notes: > A preliminary version of the proposed Array-API is provided. This is a > step in creating a standard collection of functions that can be used across > applications such as CuPy and JAX. I've created an issue [#15354] to discuss the adoption of Array API in SciPy. As mentioned in the NumPy release notes using Array API would make a subset of SciPy functions work with array libraries other than NumPy. It doesn't introduce any new dependencies to SciPy itself. The SciPy use case of the Array API is described on the following page: https://data-apis.org/array-api/latest/use_cases.html#use-case-scipy I've got a first PR [#15395] that adds new helper functions under `scipy/_lib/_array_api_util.py`. This file is going to be a central place in SciPy to place Array API helper functions to be used across different modules. Best regards, Ivan Yashchuk [#15354] https://github.com/scipy/scipy/issues/15354 [#15395] https://github.com/scipy/scipy/pull/15395

1 0