Mailman 3 January 2022 - NumPy-Discussion

mixed mode arithmetic
by Neal Becker July 11, 2023

July 11, 2023

I've been browsing the numpy source. I'm wondering about mixed-mode arithmetic on arrays. I believe the way numpy handles this is that it never does mixed arithmetic, but instead converts arrays to a common type. Arguably, that might be efficient for a mix of say, double and float. Maybe not. But for a mix of complex and a scalar type (say, CDouble * Double), it's clearly suboptimal in efficiency. So, do I understand this correctly? If so, is that something we should improve?

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Invalid value encoutered : how to prevent numpy.where to do this?
by Eric Emsellem Feb. 18, 2023

Feb. 18, 2023

Dear all, I have a code using lots of "numpy.where" to make some constrained calculations as in: data = arange(10) result = np.where(data == 0, 0., 1./data) # or data1 = arange(10) data2 = arange(10)+1.0 result = np.where(data1 > data2, np.sqrt(data1-data2), np.sqrt(data2-data2)) which then produces warnings like: /usr/bin/ipython:1: RuntimeWarning: invalid value encountered in sqrt or for the first example: /usr/bin/ipython:1: RuntimeWarning: divide by zero encountered in divide How do I avoid these messages to appear? I know that I could in principle use numpy.seterr. However, I do NOT want to remove these warnings for other potential divide/multiply/sqrt etc errors. Only when I am using a "where", to in fact avoid such warnings! Note that the warnings only happen once, but since I am going to release that code, I would like to avoid the user to get such messages which are irrelevant here (because I am testing, with the where, when NOT to divide by zero or take a sqrt of a negative number). thanks! Eric

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Documentation Team meeting - Monday June 8th
by Melissa Mendonça Dec. 4, 2022

Dec. 4, 2022

Hi all! A reminder that on Monday, June 8, we have another documentation team meeting at 3PM UTC**. If you wish to join on Zoom, you need to use this link https://zoom.us/j/420005230 Here's the permanent hackmd document with the meeting notes: https://hackmd.io/oB_boakvRqKR-_2jRV-Qjg <https://www.google.com/url?q=https%3A%2F%2Fhackmd.io%2FoB_boakvRqKR-_2jRV-Q…> Hope to see you around (especially if you want to introduce yourself or discuss ideas for Google Season of Docs). ** You can click this link to get the correct time at your timezone: https://www.timeanddate.com/worldclock/fixedtime.html?msg=NumPy+Documentati… - Melissa

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An extension of the .npy file format
by Michael Siebert Aug. 25, 2022

Aug. 25, 2022

Dear all, originally, I have planned to make an extension of the .npy file format a dedicated follow-up pull request, but I have upgraded my current request instead, since it was not as difficult to implement as I initially thought and probably a more straight-forward solution: https://github.com/numpy/numpy/pull/20321/ What is this pull request about? It is about appending to Numpy .npy files. Why? I see two main use cases: 1. creating .npy files larger than the main memory. They can, once finished, be loaded as memory maps 2. creating binary log files, which can be processed very efficiently without parsing Are there not other good file formats to do this? Theoretically yes, but practically they can be pretty complex and with very little tweaking .npy could do efficient appending too. Use case 1 is already covered by the Pip/Conda package npy-append-array I have created and getting the functionality directly into Numpy was the original goal of the pull request. This would have been possible without introducing a new file format version, just by adding some spare space in the header. During the pull request discussion it turned out that rewriting the header after each append would be desirable in case the writing program crashes to minimize data loss. Use case 2 however would highly profit from a new file format version as it would make rewriting the header unnecessary: since efficient appending can only take place along one axis, setting shape[-1] = -1 in case of Fortran order or shape[0] = -1 otherwise (default) in the .npy header on file creation could indicate that the array size is determined by the file size: when np.load (typically with memory mapping on) gets called, it constructs the ndarray with the actual shape by replacing the -1 in the constructor call. Otherwise, the header is not modified anymore, neither on append nor on file write finish. Concurrent appends to a single file would not be advisable and should be channeled through a single AppendArray instance. Concurrent reads while writes take place however should work relatively smooth: every time an np.load (ideally with mmap) is called, the ndarray would provide access to all data written until that time. Currently, my pull request provides: 1. A definition of .npy version 4.0 that supports -1 in the shape 2. implementations for fortran order and non-fortran order (default) including test cases 3. Updated np.load 4. The AppendArray class that does the actual appending Although there is a certain hassle with introducing a new .npy version, the changes themselves are very small. I could also implement a fallback mode for older Numpy installations, if someone is interested. What do you think about such a feature, would it make sense? Anyone available for some more code review? Best from Berlin, Michael PS thank you so far, I could improve my npy-append-array module as well and from what I have seen so far the Numpy code readability exceeded my already high expectations.

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copy="never" discussion and no deprecation cycle?
by Sebastian Berg July 21, 2022

July 21, 2022

Hi all, (sorry for the length, details/discussion below) On the triage call, there seemed a preference to just try to skip the deprecation and introduce `copy="never"`, `copy="if_needed"`, and `copy="always"` (i.e. string options for the `copy` keyword argument). Strictly speaking, this is against the typical policy (one year of warning/errors). But nobody could think of a reasonable chance that anyone actually uses it. (For me just "policy" will be enough of an argument to just take it slow.) BUT: If nobody has *any* concerns at all, I think we may just end up introducing the change right away. The PR is: https://github.com/numpy/numpy/pull/19173 ## The Feature There is the idea to add `copy=never` (or similar). This would modify the existing `copy` argument to make it a 3-way decision: * `copy=always` or `copy=True` to force a copy * `copy=if_needed` or `copy=False` to prefer no-copy behavior * `copy=never` to error when no-copy behavior is not possible (this ensures that a view is returned) this would affect the functions: * np.array(object, copy=...) * arr.astype(new_dtype, copy=...) * np.reshape(arr, new_shape, copy=...), and the method arr.reshape() * np.meshgrid and possibly Where `reshape` currently does not have the option and would benefit by allowing for `arr.reshape(-1, copy=never)`, which would guarantee a view. ## The Options We have three options that are currently being discussed: 1. We introduce a new `np.CopyMode` or `np.<something>.Copy` Enum with values `np.CopyMode.NEVER`, `np.CopyMode.IF_NEEDED`, and `np.CopyMode.ALWAYS` * Plus: No compatibility concerns * Downside(?): This would be a first in NumPy, and is untypical API due to that. 2. We introduce `copy="never"`, `copy="if_needed"` and `copy="always"` as strings (all other strings will be a `TypeError`): * Problem: `copy="never"` currently means `copy=True` (the opposite) Which means new code has to take care when it may run on older NumPy versions. And in theory could make old code return the wrong thing. * Plus: Strings are the typical for options in NumPy currently. 3. Same as 2. But we take it very slow: Make strings an error right now and only introduce the new options after two releases as per typical deprecation policy. ## Discussion We discussed it briefly today in the triage call and we were leaning towards strings. I was honestly expecting to converge to option 3 to avoid compatibility issues (mainly surprises with `copy="never"` on older versions). But considering how weird it is to currently pass `copy="never"`, the question was whether we should not change it with a release note. The probability of someone currently passing exactly one of those three (and no other) strings seems exceedingly small. Personally, I don't have a much of an opinion. But if *nobody* voices any concern about just changing the meaning of the string inputs, I think the current default may be to just do it. Cheers, Sebastian

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Numpy binary wheels and CI for win/arm64 platform
by Niyas Sait June 22, 2022

June 22, 2022

Hello, Numpy v1.21.2 <https://github.com/numpy/numpy/releases/tag/v1.21.2> added support for windows/arm64 platforms but we still don't have any systems in place to produce binary wheels or test win/arm64 packages. I think it will be good to start looking into this. CPython has an official buildbot worker running for win/arm64 and official python support for the platform will be available from the 3.11 release. It is not yet clear to me how the build and CI system for numpy is deployed and how to enable support for a new platform like win/arm64. One of the main issues in supporting win/arm64 build would be due to the lack of win/arm64 VMs available on the cloud. But I see we have been producing binary wheels for Apple M1 platforms on pypi and conda repository for some time which also lacks the cloud VM support. I think we could take some learnings from Apple M1 support and look at how a similar strategy can be used for win/arm64. I would like to hear if anyone has any thoughts on this topic. Also, any pointers to understand numpy wheel generation and CI flow for similar platforms would be helpful as well. Thanks, Niyas

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[Feature Request] Add alias of np.concatenate as np.concat
by Iordanis Fostiropoulos May 10, 2022

May 10, 2022

In regard to Feature Request: https://github.com/numpy/numpy/issues/16469 It was suggested to sent to the mailing list. I think I can make a strong point as to why the support for this naming convention would make sense. Such as it would follow other frameworks that often work alongside numpy such as tensorflow. For backward compatibility, it can simply be an alias to np.concatenate I often convert portions of code from tf to np, it is as simple as changing the base module from tf to np. e.g. np.expand_dims -> tf.expand_dims. This is done either in debugging (e.g. converting tf to np without eager execution to debug portion of the code), or during prototyping, e.g. develop in numpy and convert in tf. I find myself more than at one occasion to getting syntax errors because of this particular function np.concatenate. It is unnecessarily long. I imagine there are more people that also run into the same problems. Pandas uses concat (torch on the other extreme uses simply cat, which I don't think is as descriptive).

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request to remove the numpy-aarch64 package from PyPI
by Ralf Gommers March 14, 2022

March 14, 2022

Hi all, FYI, I noticed this package that claimed to be maintained by us: https://pypi.org/project/numpy-aarch64/. That's not ours, so I tried to contact the author (no email provided, but guessed the same username on GitHub) and asked to remove it: https://github.com/tomasriv/DNA_Sequence/issues/1. There are a very large number of packages with "numpy" in the name on PyPI, and there's no way we can audit/police that effectively, but if it's a rebuild that pretends like it's official then I think it's worth doing something about. It could contain malicious code for all we know. Cheers, Ralf

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advice for using datetime64 in C binding
by Benoit Gschwind Feb. 18, 2022

Feb. 18, 2022

Hello, I using the following code: if (PyArray_TYPE(arr1) == NPY_DATETIME) { // Ensure datetime64[ms] auto tmp = reinterpret_cast<PyArrayObject*>(PyObject_CallMethod(reinterpret_cast<PyObject*>(arr1), "astype", "(s)", "datetime64[ms]")); std::swap(arr1, tmp); Py_XDECREF(tmp); // Ensure integer tmp = reinterpret_cast<PyArrayObject*>(PyObject_CallMethod(reinterpret_cast<PyObject*>(arr1), "astype", "(s)", "i8")); std::swap(arr1, tmp); Py_XDECREF(tmp); tmp = reinterpret_cast<PyArrayObject*>(PyArray_FromArray(arr1, PyArray_DescrFromType(NPY_INT64), NPY_ARRAY_IN_ARRAY)); std::swap(arr1, tmp); Py_XDECREF(tmp); } First, if something is wrong with my code let me known. Then I wonder if I can have a safe shortcut to avoid converting datetime64 to i8. I guess the internal data of datetime64[ms] is i8 thus copying and casting the array may be avoided. Thanks by advance Best regards.

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adding a new member to the NumPy CoC committee
by Ralf Gommers Feb. 16, 2022

Feb. 16, 2022

Hi all, Anirudh Subramanian has indicated that he is happy to be replaced on the Code of Conduct committee. Right now the committee is Stefan van der Walt, Melissa Mendonca, and Anirudh (stepping down). We'd like to add a new third person. If anyone is interested, could you please reply or reach out to Stefan/Melissa/me? For reference, the last time we updated the committee in May 2020: https://mail.python.org/archives/list/numpy-discussion@python.org/message/4… Cheers, Ralf

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NumPy community meeting – Wednesday, February 2nd, 2022 at 18:00 (6 pm) UTC
by Inessa Pawson Jan. 31, 2022

Jan. 31, 2022

Our next NumPy Community meeting is scheduled for Wednesday, February 2nd at 18:00 (6 pm) UTC. Join us via Zoom: https://berkeley.zoom.us/j/762261535 As always, everyone is welcome and encouraged to attend. To add to the meeting agenda the topics you’d like to discuss, follow the link: https://hackmd.io/76o-IxCjQX2mOXO_wwkcpg?both Cheers, Inessa Inessa Pawson Contributor Experience Lead | NumPy

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ANN: SciPy 1.8.0rc4 -- please test
by Tyler Reddy Jan. 30, 2022

Jan. 30, 2022

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 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Announcement: SciPy Community Meetings
by Melissa Mendonça Jan. 30, 2022

Jan. 30, 2022

Hello, all! Some of you might be interested to know that we are organizing SciPy Community Meetings again. The idea is to have those every two weeks on Wednesdays, alternating between times to try and get as many timezones as possible. The next one will happen this week, on* February 2, at 12 pm UTC*. Here's the hackmd we are using to take notes: https://hackmd.io/pyhudrC5TgSwdJtpPldHgQ Cheers, Melissa p.s. Here's a handy link where you can get the meeting time in your timezone: https://www.timeanddate.com/worldclock/fixedtime.html?msg=SciPy+Community+M…

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New experimental DType example (for physical Unit handling)
by Sebastian Berg Jan. 27, 2022

Jan. 27, 2022

Hi all, I have created a new prototype showcasing the new experimental DType and ufunc API here: https://github.com/seberg/unitdtype Aside from showing Units, this is also a good resource to get an idea of how the new (including very complicated) DTypes will look like, as well as how UFuncs should look like. This time it is in C and much more full featured (although some convenience methods are missing) -- expect more of those to be added over time. As of now, it requires a custom NumPy branch (I hope that goes away quickly, but it may always be necessary as new things gets added). It does use `unyt` under-the-hood in order to calculate conversion factors and result units. [1] The code should be able to do quite a lot of things, but of course is not meant to be full-featured yet and bugs are likely if you do stranger things. A main thing is that a good chunk of ufuncs are now supported by "reusing" NumPy's existing ufuncs: * negative, positive * add, subtract * multiple, divide * matmul * fmod * hypot (not sure if this is quite right) * maximum, minimum, fmax, fmin * comparisons (note that we never compare to 0 scalars, unlike some implementations) – that also allows `np.min` and `np.max`. * Logical ufuncs (via casting to boolean) More common things that are definitely not support (as of now!): * `sum` is clunky requiring `initial=QuantityScalar(0, correct_unit)` to work. This is a problem with NumPy's design of the "identity", and the (always known) fix is to improve the identity machinery in NumPy. – I am looking into it, but as usual it requires more cleanup elsewhere for a good solution. * `prod` is more tricky, because its result unit would depend on the number of elements. This (and gufuncs for such operations) would require a specialized, new, API. (I do not think this is hard, but I will not throw myself at it.) * sorting/parititioning and many other functions. Those two can be made to work easily (by using the old API, we should make a new one but that is a different issue). * `arange` and `linspace` each have their problems (linspace just because the `scalar` is not really usable yet). (again, nothing major, although `arange` could use a new machinery) * printing is not great, this requires a cleanup of how NumPy prints... * … Cheers, Sebastian [1] Completely arbitrary and easily replaceable choice, I just found how to get the conversion factors quickly in `unyt`. Plus, without using a dev-version of `astropy`, `astropy.units` sometimes clashes with NumPy `main`.

1 0

Numpy array
by bigfixforum＠gmail.com Jan. 27, 2022

Jan. 27, 2022

Hi, i am new to numpy. This is first time i am using numpy. https://github.com/mspieg/dynamical-systems/blob/master/Bifurcations.ipynb This code i found to create bifurcation graph. There is section of code which i am not able to understand vr[stable], vx[stable] vr and vx is array of 150 elements. unstable and stable array also has 150 elements But vr[stable], vx[stable] becomes 75 elements in the array. Which i am not able to umderstand how 150 elements in array drops to 75

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NumPy Development Meeting Wednesday - Triage Focus
by Sebastian Berg Jan. 26, 2022

Jan. 26, 2022

Hi all, Our bi-weekly triage-focused NumPy development meeting is Wednesday, January 26th at 17:00 UTC (9:00am Pacific Time). Everyone is invited to join in and edit the work-in-progress meeting topics and notes: https://hackmd.io/68i_JvOYQfy9ERiHgXMPvg I encourage everyone to notify us of issues or PRs that you feel should be prioritized, discussed, or reviewed. Best regards Sebastian

1 0

Mac wheel builds for Python 3.8 have stopped working.
by Charles R Harris Jan. 26, 2022

Jan. 26, 2022

Hi All, This seems due to an environment change in azure-pipelines sometime after Jan 7. My guess is the Python version setting environment changed from 0.193 to 0.197. It can be fixed by using `MACOSX_DEPLOYMENT_TARGET=10.14`. Note that 10.9 has been unsupported since 2019 and 10.14 is the lowest version currently supported. We can either change to 10.14 or try to get azure to make a change so that 10.9 works again. I've opened an issue <https://github.com/numpy/numpy/issues/20893>. I don't like the idea of changing the target in the middle of the 1.22 release cycle, but that may be the easiest solution. Thoughts? Chuck

1 0

NumPy Newcomers' Hour – Thursday, January 27th
by Inessa Pawson Jan. 25, 2022

Jan. 25, 2022

Our next Newcomers' Hour is this Thursday, January 27th at 4 pm UTC. We have no agenda this time. Stop by to ask questions or just to say hi. Join the meeting via Zoom: https://us02web.zoom.us/j/87192457898 Cheers, Inessa Inessa Pawson NumPy Contributor Experience Lead

1 0

exp(NINF) returns underflow error after version 1.20
by Michael Gutteridge Jan. 25, 2022

Jan. 25, 2022

We have an interesting situation where a test suite that checks the value of e^-inf is behaving differently depending on Numpy version. The minimal test I'm using is: #!/usr/bin/env python3 import numpy as np np.seterr(under='raise') print(np.exp(np.NINF)) With numpy version 1.19.5 and 1.20.3 we consistently get "0.0" as the result. Later versions- 1.21 and 1.22- raise an underflow error: Traceback (most recent call last): File "./under.py", line 4, in <module> print(np.exp(np.NINF)) FloatingPointError: underflow encountered in exp A further confounding factor is that on our slightly older processors we don't get this underflow, instead returning 0. The Python and GCC toolchains is the same thanks to environment modules and the OS and patches are the same on both generations, but the older processors (Intel Xeon E5-2667) return 0 and the newer (Intel Xeon Gold 6254) return underflow with the newer numpy versions. I think my primary question is what is the expected result for this function? I sort of expect this to be defined as zero but I've been unable to find documentation of this fact. Underflow does sort of make sense in this situation as well. However, the inconsistency is concerning and I'm uncertain if it would affect results from other calculations. Thanks much - Michael

2 2

Performance mystery
by Warren Weckesser Jan. 25, 2022

Jan. 25, 2022

In the script below, the evaluation of the expression `z.real**2 + z.imag**2` is timed using the `timeit` module. `z` is a 1D array of random samples with dtype `np.complex128` and with length 250000. The mystery is the change in performance of the calculation from the first array to which it is applied to the second. The output of the script is ``` numpy version 1.23.0.dev0+460.gc30876f64 619.7096 microseconds 625.3833 microseconds 634.8389 microseconds 137.0659 microseconds 137.5231 microseconds 137.5582 microseconds ``` Each batch of three timings corresponds to repeating the timeit operation three times on the same random array `z`; i.e. a new array `z` is generated for the second batch. The question is why is does it take so much longer to evaluate the expression the first time? Some other details: * If I change the expression to, say, `'z.real + z.imag'`, the huge disparity disappears. * If I generate more random `z` arrays, the performance remains at the level of approximately 140 usec. * I used the main branch of numpy for the above output, but the same thing happens with 1.20.3, so this is not the result of a recent change. * So far, when I run the script, I always see output like that shown above: the time required for the first random array is typically four times that required for the second array. If I run similar commands in ipython, I have seen the slow case repeated several times (with newly generated random arrays), but eventually the time drops down to 140 usec (or so), and I don't see the slow case anymore. * I'm using a 64 bit Linux computer: ``` $ uname -a Linux pop-os 5.15.8-76051508-generic #202112141040~1639505278~21.10~0ede46a SMP Tue Dec 14 22:38:29 U x86_64 x86_64 x86_64 GNU/Linux ``` Any ideas? Warren Here's the script: ``` import timeit import numpy as np def generate_sample(n, rng): return rng.normal(scale=1000, size=2*n).view(np.complex128) print(f'numpy version {np.__version__}') print() rng = np.random.default_rng() n = 250000 timeit_reps = 10000 expr = 'z.real**2 + z.imag**2' z = generate_sample(n, rng) for _ in range(3): t = timeit.timeit(expr, globals=globals(), number=timeit_reps) print(f"{1e6*t/timeit_reps:9.4f} microseconds") print() z = generate_sample(n, rng) for _ in range(3): t = timeit.timeit(expr, globals=globals(), number=timeit_reps) print(f"{1e6*t/timeit_reps:9.4f} microseconds") print() ```

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Re: Proposal for new function to determine if a float contains an integer
by Stefano Miccoli Jan. 24, 2022

Jan. 24, 2022

I would rather suggest .is_integer(integer_dtype) signature because knowing that 1e300 is an integer is not very useful in the numpy world, since this integer number is not representable as a numpy.integer dtype. Note that in python assert not f.is_integer() or int(f) == f never fails because integers have unlimited precision but this does would not map into assert ( ~f_arr.is_integer() | (np.int64(f_arr) == f.arr) ).all() because of possible OverflowErrors. Stefano > On 31 Dec 2021, at 04:46, numpy-discussion-request(a)python.org wrote: > > Is adding arbitrary optional parameters a thing with ufuncs? I could easily add upper and lower bounds checks. > > On Thu, Dec 30, 2021, 20:56 Brock Mendel <jbrockmendel(a)gmail.com <mailto:jbrockmendel@gmail.com>> wrote: > At least some of the commenters on that StackOverflow page need a slightly stronger check: not only is_integer(x), but also "np.iinfo(dtype).min <= x <= np.info <http://np.info/>(dtype).max" for some particular dtype. i.e. "Can I losslessly set these values into the array I already have?" > > >

4 4

Shape detection
by pawel.darlak＠gmail.com Jan. 24, 2022

Jan. 24, 2022

Hello, I am not sure that this is correct group for my problem but I hope someone can help me :) I try to analyze picture with porous material (https://python.neocast.eu/disc.png). I calculate a total quantity of each pores but I would like also calculate a porosity. To make I need a size of sample or total pixels which are in the sample. How to do it ? thanks in advance Pavel

3 2

Upcoming: 2nd edition of "Machine learning with scikit-learn MOOC"
by Gael Varoquaux Jan. 23, 2022

Jan. 23, 2022

Hi everyone, The team at Inria, with the help of the Inria learning lab, will soon be opening the 2nd edition of the "Machine Learning with scikit-learn" MOOC: https://www.fun-mooc.fr/en/courses/machine-learning-python-scikit-learn/ The content of the MOOC is visible here (we are still polishing details, this is not final): https://inria.github.io/scikit-learn-mooc/ As you can see, it touches all the basics of machine learning, introduced with scikit-learn, teaching much more than the API of the library. We have put a lot of effort on being didactic. Anna Kondratenko, one of last year's participant, said of last year's edition: "I did a #ScikitLearnMooc course as part of a #100DaysOfCode challenge and I just loved it. Scikit-learn creators managed to make it practice-focused and entertaining at the same time. Also, it is perfect for beginners since it starts from the basics going to more advanced level." https://twitter.com/anacoding/status/1484949583629369344 This year's edition should be significantly more didactic! One of the values of participating to the MOOC, compared to just the material that we provide on the web, is that it is full of coding exercise, that are meant to teach understanding of machine-learning and coding skills. The MOOC is absolutely free, and all the materials are open (in the spirit of scikit-learn). While people on this list may already know the contents of this MOOC (though, we have inserted many useful reflections), you might know people who could benefit from this course to learn machine learning. Please help us spread the word. Pythonly yours, Gaël -- Gael Varoquaux Research Director, INRIA http://gael-varoquaux.info http://twitter.com/GaelVaroquaux

1 0

ANN: SciPy 1.8.0rc3 -- please test
by Tyler Reddy Jan. 22, 2022

Jan. 22, 2022

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 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deprecating numpy.distutils
by Ralf Gommers Jan. 22, 2022

Jan. 22, 2022

Hi all, Now that 1.22.0 is out the door, I think it's time to deprecate `numpy.distutils` completely. A brief summary for context: - `distutils` was deprecated in Python 3.10, and will be removed in Python 3.12 (Oct 2023 release date) - `setuptools` has re-enabled its vendored copy of `distutils` in its 60.0 release. It's incompatible with `numpy.distutils` and many more breaking changes are to be expected. - Rebasing `numpy.distutils` on top of `setuptools` will be a moving target. More importantly, `numpy.distutils` still has serious and hard to fix bugs and design issues. For example, we cannot build SciPy in parallel due to race conditions in the Fortran support code, and there's a very elusive bug where building an extension module which links in a static Fortran-only library is underlinked and breaks at runtime in dev environments. My initial plan was to contribute Fortran support and other `numpy.distutils` features to `setuptools`, but I've personally changed my mind on that and don't plan to do that work. I think `setuptools` is moving too slow for this to be a productive exercise, and the design of distutils is fundamentally unfixable. So it's a much better investment of time to help projects migrate away from `numpy.distutils` (and hence from `setuptools`). The tracking issue for this is https://github.com/numpy/numpy/issues/18588. Please see the comments and linked issue/thread for more details. My proposal is: 1. deprecate `numpy.distutils` now in main. 2. keep it around for another 2 years after the 1.23.0 release. On >=3.12 it will raise an informative error when someone tries to import it. 3. Only setuptools < 60.0 is supported. This is the status as of today - unless there's an issue with Python 3.11 support, I don't see a point in spending time on keeping up with new setuptools releases, a pin is just fine. 4. Write a docs page with migration info on how to deal with the deprecation, and update it before the 1.23.0 release. Note that the setuptools maintainers have said that they are happy to consider new features if people want to integrate them. The most popular/useful features for `numpy.distutils` are (1) Fortran support, and (2) nested setup.py support. The former is probably not a good idea to integrate, the latter may be. There aren't many packages who need BLAS/LAPACK support anymore, scikit-learn/statsmodels/etc. switched to the Cython/C API exposed by SciPy, rather than linking to BLAS/LAPACK directly. For NumPy itself, we should move to Meson after the SciPy 1.9.0 release has gone out and ironed out all the remaining issues there. We can revisit that in 6 months or so. Thoughts? Cheers, Ralf

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