From juanlu001 at gmail.com  Mon Dec  2 02:05:39 2019
From: juanlu001 at gmail.com (Juan Luis Cano)
Date: Mon, 2 Dec 2019 08:05:39 +0100
Subject: [SciPy-Dev] Floating point differences in CPython
Message-ID: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>

Hi all,

I admit this is not strictly about SciPy, but there is lots of people in
this list that care about compilers and floating point math so I still
wanted to give it a try.

I am observing floating point differences between two different versions of
CPython 3.7.5, one compiled with GCC 7.4.0 (latest Linux Mint) and other
compared with GCC 8.3.0 (Debian Buster) that can be reproduced like this:

$ docker run --rm -it python:3.7.5-stretch python -c
'print("{:.10f}".format((7091.17117297555159893818 ** 2 +
7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) **
1.5))'
1049171479739.7584228516
$ docker run --rm -it python:3.7.5-buster  python -c
'print("{:.10f}".format((7091.17117297555159893818 ** 2 +
7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) **
1.5))'
1049171479739.7585449219


I highlight the GCC version because as far as I understand is the only
thing that could have changed between the two. Does anybody have a more
detailed explanation of what's going on here?

Best,

-- 
Juan Luis Cano
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From sseibert at anaconda.com  Mon Dec  2 08:28:35 2019
From: sseibert at anaconda.com (Stanley Seibert)
Date: Mon, 2 Dec 2019 07:28:35 -0600
Subject: [SciPy-Dev] Floating point differences in CPython
In-Reply-To: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>
References: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>
Message-ID: <CADv3RKTjuyuNdTUdKWQzR1dLTwGz+aHKV7NfoAvZDi6j+3+Mgw@mail.gmail.com>

I'm speculating, but what jumped out at me is the **1.5, which will likely
invoke the pow() function in glibc.  Since there is no IEEE spec for pow()
precision, it is possible that a change there could produce this effect.
Stretch uses glibc 2.24 and Buster uses glibc 2.28.  The changelog for
glibc 2.27 (https://sourceware.org/ml/libc-announce/2018/msg00000.html)
mentions this:

* Optimized x86-64 asin, atan2, exp, expf, log, pow, atan, sin, cosf,
  sinf, sincosf and tan with FMA, contributed by Arjan van de Ven and
  H.J. Lu from Intel.

Which seems like a likely culprit, although I haven't done the work to
exactly pinpoint it to this change.

On Mon, Dec 2, 2019 at 1:06 AM Juan Luis Cano <juanlu001 at gmail.com> wrote:

> Hi all,
>
> I admit this is not strictly about SciPy, but there is lots of people in
> this list that care about compilers and floating point math so I still
> wanted to give it a try.
>
> I am observing floating point differences between two different versions
> of CPython 3.7.5, one compiled with GCC 7.4.0 (latest Linux Mint) and other
> compared with GCC 8.3.0 (Debian Buster) that can be reproduced like this:
>
> $ docker run --rm -it python:3.7.5-stretch python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
> 1049171479739.7584228516
> $ docker run --rm -it python:3.7.5-buster  python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
> 1049171479739.7585449219
>
>
> I highlight the GCC version because as far as I understand is the only
> thing that could have changed between the two. Does anybody have a more
> detailed explanation of what's going on here?
>
> Best,
>
> --
> Juan Luis Cano
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From matti.picus at gmail.com  Mon Dec  2 08:37:01 2019
From: matti.picus at gmail.com (Matti Picus)
Date: Mon, 2 Dec 2019 15:37:01 +0200
Subject: [SciPy-Dev] Floating point differences in CPython
In-Reply-To: <CADv3RKTjuyuNdTUdKWQzR1dLTwGz+aHKV7NfoAvZDi6j+3+Mgw@mail.gmail.com>
References: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>
 <CADv3RKTjuyuNdTUdKWQzR1dLTwGz+aHKV7NfoAvZDi6j+3+Mgw@mail.gmail.com>
Message-ID: <177c1e78-f151-0ff7-07f5-772612355788@gmail.com>

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From sseibert at anaconda.com  Mon Dec  2 13:22:26 2019
From: sseibert at anaconda.com (Stanley Seibert)
Date: Mon, 2 Dec 2019 12:22:26 -0600
Subject: [SciPy-Dev] Floating point differences in CPython
In-Reply-To: <177c1e78-f151-0ff7-07f5-772612355788@gmail.com>
References: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>
 <CADv3RKTjuyuNdTUdKWQzR1dLTwGz+aHKV7NfoAvZDi6j+3+Mgw@mail.gmail.com>
 <177c1e78-f151-0ff7-07f5-772612355788@gmail.com>
Message-ID: <CADv3RKRS8+wwnpm5f_YqPCB8Y4_aWFkhxYj04QuXBqtcs=J0uA@mail.gmail.com>

Given how much platform-to-platform variation there is (this gives us
headaches all the time on Numba), I was wondering how CPython got these
tests to pass without shipping their own cross-platform C math library.  It
turns out the test runner is pretty generous:

https://github.com/python/cpython/blob/5fd5cb8d85fab3393dd76c7f3de1cdeb8ecf7203/Lib/test/test_math.py#L1614-L1679

The default test precision is 5 ulps (with some functions getting much
more), and the original example differs by only 1 ulp between glibc
versions, so CPython's testing would not have flagged a discrepancy this
small.

On Mon, Dec 2, 2019 at 7:38 AM Matti Picus <matti.picus at gmail.com> wrote:

>
> On 2/12/19 3:28 pm, Stanley Seibert wrote:
>
>
> On Mon, Dec 2, 2019 at 1:06 AM Juan Luis Cano <juanlu001 at gmail.com> wrote:
>
>> Hi all,
>>
>> I admit this is not strictly about SciPy, but there is lots of people in
>> this list that care about compilers and floating point math so I still
>> wanted to give it a try.
>>
>> I am observing floating point differences between two different versions
>> of CPython 3.7.5, one compiled with GCC 7.4.0 (latest Linux Mint) and other
>> compared with GCC 8.3.0 (Debian Buster) that can be reproduced like this:
>>
>> $ docker run --rm -it python:3.7.5-stretch python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
>> 1049171479739.7584228516
>> $ docker run --rm -it python:3.7.5-buster  python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
>> 1049171479739.7585449219
>>
>>
>> I highlight the GCC version because as far as I understand is the only
>> thing that could have changed between the two. Does anybody have a more
>> detailed explanation of what's going on here?
>>
>> Best,
>>
>> --
>> Juan Luis Cano
>>
>> I'm speculating, but what jumped out at me is the **1.5, which will
> likely invoke the pow() function in glibc.  Since there is no IEEE spec for
> pow() precision, it is possible that a change there could produce this
> effect.  Stretch uses glibc 2.24 and Buster uses glibc 2.28.  The changelog
> for glibc 2.27 (https://sourceware.org/ml/libc-announce/2018/msg00000.html)
> mentions this:
>
> * Optimized x86-64 asin, atan2, exp, expf, log, pow, atan, sin, cosf,
>   sinf, sincosf and tan with FMA, contributed by Arjan van de Ven and
>   H.J. Lu from Intel.
>
> Which seems like a likely culprit, although I haven't done the work to
> exactly pinpoint it to this change.
>
>
> CPython has extensive tests to verify the functions in the cmath[0] and
> math[1] modules, but the latter does not seem to include tests for `pow`.
> Maybe after 9 years it is time to update it.
>
>
> [0]
> https://github.com/python/cpython/blob/master/Lib/test/cmath_testcases.txt
>
> [1]
> https://github.com/python/cpython/blob/master/Lib/test/math_testcases.txt
>
>
> Matti
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From tyler.je.reddy at gmail.com  Tue Dec  3 00:04:33 2019
From: tyler.je.reddy at gmail.com (Tyler Reddy)
Date: Mon, 2 Dec 2019 22:04:33 -0700
Subject: [SciPy-Dev] Proposed SciPy 1.4.0 Release Schedule
In-Reply-To: <CAHPuU_bew8Ov8qAW7tsB=hqnXvti+KHOdLovDT69squatOHdFw@mail.gmail.com>
References: <CAHPuU_Y0T2jjWMHcF4M3GuKGQjB+oVSYDhtmaNbOQsJX45+d_w@mail.gmail.com>
 <CABL7CQgEYJFvw7YDkguNyQJ-EXLU5_ZX1tXMcOaj_QnQ83_aYg@mail.gmail.com>
 <CADuxUiw9qN+RHdNXRtka+F9vkRoR=JM3GsLxVhdU9vQkHZNdjg@mail.gmail.com>
 <CAHPuU_ZuDM2F1x7KLS-2vye3OcbvCh+9-UpD20YquK6pifu0_w@mail.gmail.com>
 <CAHPuU_bgsqq4AX7erg52iq1X7JggWkm4AMrx14PMPK_+UZQwYA@mail.gmail.com>
 <CABL7CQjxW1KWWZPS6xdwo+QVkrw1R6wa7yH+bjgRR4-a3sESpw@mail.gmail.com>
 <CAHPuU_Zd27vW=2t15HboQ_PMR_k4CT0JJsGPZXVSOAVCG5s++g@mail.gmail.com>
 <CABL7CQgOahJ7yVc1rDqB8D99mMgZ1vc7OY5XUtLn2NaCO5o0-g@mail.gmail.com>
 <CAHPuU_Y2HOo9J6894DbETFgEFsSdzRyCW5Y9+3mtcn=JmPjfwA@mail.gmail.com>
 <CAHPuU_a5pq+BteVkD72i6-ggcBvi5g96_pvRfRExUXPzOxKR=Q@mail.gmail.com>
 <CABL7CQjbmYEbNT6U+67ZGev8V9PCkP3vfcSTbtLg7+c9ijSRmw@mail.gmail.com>
 <CAHPuU_bupMtBJPPwbP1qskfBd3eawwLGKw2GbyZLPgDTnKDqxw@mail.gmail.com>
 <CAHPuU_bew8Ov8qAW7tsB=hqnXvti+KHOdLovDT69squatOHdFw@mail.gmail.com>
Message-ID: <CAHPuU_ZUV1cmpLJx8MKp2gohA+emL9nOZjBcgwAvsp=itt7oAA@mail.gmail.com>

I think there are two remaining PRs/issues that could use a boost/review to
get over the line for 1.4.0rc2:

https://github.com/scipy/scipy/pull/11152 (scipy.stats)
https://github.com/scipy/scipy/pull/11166 (scipy.sparse)



On Fri, 22 Nov 2019 at 16:49, Tyler Reddy <tyler.je.reddy at gmail.com> wrote:

> An attempt at building the wheels for the SciPy 1.3.3 release is underway:
>
> https://travis-ci.org/MacPython/scipy-wheels/builds/615811782
> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29063776
>
> If those are successful I will try to get it out soon to address some
> recent
> issues affecting DLL loading and multiprocessing tests.
>
> On Thu, 21 Nov 2019 at 14:01, Tyler Reddy <tyler.je.reddy at gmail.com>
> wrote:
>
>> First attempt at 1.4.0rc1 wheel builds are now underway, with
>> fingers crossed:
>>
>> https://travis-ci.org/MacPython/scipy-wheels/builds/615256054
>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29034442
>>
>> On Sun, 17 Nov 2019 at 01:40, Ralf Gommers <ralf.gommers at gmail.com>
>> wrote:
>>
>>>
>>>
>>> On Sat, Nov 16, 2019 at 9:12 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>> wrote:
>>>
>>>> I branched maintenance/1.4.x at ~10 pm Mountain Time on Nov. 16/2019.
>>>>
>>>
>>> Awesome, thanks Tyler!
>>>
>>> Ralf
>>>
>>>
>>>> The SciPy master branch is now open for development of version 1.5.0.
>>>>
>>>> Best wishes,
>>>> Tyler
>>>>
>>>> On Fri, 15 Nov 2019 at 22:38, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>> wrote:
>>>>
>>>>> Please do take a look at the release notes in preparation for 1.4.0
>>>>> branching:  https://github.com/scipy/scipy/pull/11061
>>>>>
>>>>> The number of pull requests is quite massive (347, I think), so it is
>>>>> a first draft, but I've transcribed the material from the wiki, made a
>>>>> no-doubt-controversial draft of release highlights, and tried to curate
>>>>> author names/mailmap based on the first round of contributor feedback (~144
>>>>> authors vs. 97 for 1.3.0).
>>>>>
>>>>> On Wed, 13 Nov 2019 at 21:28, Ralf Gommers <ralf.gommers at gmail.com>
>>>>> wrote:
>>>>>
>>>>>>
>>>>>>
>>>>>> On Wed, Nov 13, 2019 at 7:35 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>>> Alright, shall we aim for a two-day bump on the branching to Nov.
>>>>>>> 16th (Saturday)? I see we're at ~8 PRs with the milestone now, but I also
>>>>>>> still have to work on release notes, etc.
>>>>>>>
>>>>>>
>>>>>> Thanks, that sounds good!
>>>>>>
>>>>>>
>>>>>>
>>>>>>> I'm also expecting one or two surprises to pop up in the wheels repo
>>>>>>> given major release + 3.8.
>>>>>>>
>>>>>>> On Wed, 13 Nov 2019 at 20:21, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Hi Tyler, are you still planning to branch 1.4.x tomorrow? It looks
>>>>>>>> like there's no real blockers, but there's a bunch of stuff that people
>>>>>>>> seem to be scrambling to get in, so perhaps a 24-48 hour bump could be
>>>>>>>> useful.
>>>>>>>>
>>>>>>>> Cheers,
>>>>>>>> Ralf
>>>>>>>>
>>>>>>>>
>>>>>>>> On Tue, Nov 12, 2019 at 8:31 AM Tyler Reddy <
>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>
>>>>>>>>> Down to 12 open PRs with 1.4.0 milestone--getting closer!
>>>>>>>>>
>>>>>>>>> On Sat, 9 Nov 2019 at 21:40, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>>>>> wrote:
>>>>>>>>>
>>>>>>>>>> We currently sit at 31 open PRs and 20 open issues with 1.4.0
>>>>>>>>>> milestone.
>>>>>>>>>>
>>>>>>>>>> That's a substantial drop in PRs but a rise in issues since the
>>>>>>>>>> last accounting. Things got
>>>>>>>>>> a little hectic with Python 3.8 for 1.3.2, but hopefully the
>>>>>>>>>> wheels stuff is in good shape
>>>>>>>>>> for 1.4.x series now.
>>>>>>>>>>
>>>>>>>>>> Branching in about 5 days is ambitious, but let's aim to stay
>>>>>>>>>> reasonably on track if possible.
>>>>>>>>>>
>>>>>>>>>> On Mon, 21 Oct 2019 at 13:39, Matt Haberland <haberland at ucla.edu>
>>>>>>>>>> wrote:
>>>>>>>>>>
>>>>>>>>>>> Re: 1.2.3 release, I did get a request in gh-10915
>>>>>>>>>>> <https://github.com/scipy/scipy/issues/10915> for gh-10498
>>>>>>>>>>> <https://github.com/scipy/scipy/pull/10498> to be backported to
>>>>>>>>>>> 1.2.
>>>>>>>>>>>
>>>>>>>>>>> On Mon, Oct 21, 2019 at 8:47 AM Ralf Gommers <
>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> On Sat, Oct 19, 2019 at 12:24 AM Tyler Reddy <
>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>
>>>>>>>>>>>>> SciPy 1.3.0 was released May 17 (5 months ago), and I think
>>>>>>>>>>>>> we'd like to keep a roughly biannual release cadence.
>>>>>>>>>>>>>
>>>>>>>>>>>>> I'd like to propose the following schedule for 1.4.0:
>>>>>>>>>>>>> - November 14: branch 1.4.x
>>>>>>>>>>>>> - November 17: rc1
>>>>>>>>>>>>> - December 1: rc2 (if needed)
>>>>>>>>>>>>> - December 10: final release
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> Sounds good to me.
>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> The arrival of Python 3.8 and simultaneous responsibility to
>>>>>>>>>>>>> get at least one more 1.2.x LTS Python 2.7 release out the door means
>>>>>>>>>>>>> things will probably be busy on the release front until 2020.
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> True. I think supporting 3.8 is fairly high-prio, there's a lot
>>>>>>>>>>>> of demand for it. Doing a 1.3.2 release that supports it would make sense I
>>>>>>>>>>>> guess.
>>>>>>>>>>>>
>>>>>>>>>>>> There don't seem to be any new commits on the 1.2.x branch nor
>>>>>>>>>>>> urgent Python 2.7 fixes that need to go out. So do we need a 1.2.3 release?
>>>>>>>>>>>>
>>>>>>>>>>>> Cheers,
>>>>>>>>>>>> Ralf
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>> As always, it is a good idea to start tagging things that
>>>>>>>>>>>>> should be in 1.4.0 & please do help with reviewing PRs/issues that are
>>>>>>>>>>>>> tagged--current counts are:
>>>>>>>>>>>>>
>>>>>>>>>>>>> - PRs: 40 open with 1.4.0 milestone
>>>>>>>>>>>>> - issues: 17 open with 1.4.0 milestone
>>>>>>>>>>>>>
>>>>>>>>>>>>> While helping with that, also great if the release notes wiki
>>>>>>>>>>>>> is updated for appropriate changes:
>>>>>>>>>>>>> https://github.com/scipy/scipy/wiki/Release-note-entries-for-SciPy-1.4.0
>>>>>>>>>>>>>
>>>>>>>>>>>>> Curating those final notes can be painful if the wiki isn't
>>>>>>>>>>>>> updated.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Thoughts/objections for the schedule?
>>>>>>>>>>>>>
>>>>>>>>>>>>> Best wishes,
>>>>>>>>>>>>> Tyler
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> --
>>>>>>>>>>> Matt Haberland
>>>>>>>>>>> Assistant Adjunct Professor in the Program in Computing
>>>>>>>>>>> Department of Mathematics
>>>>>>>>>>> 6617A Math Sciences Building, UCLA
>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>
>>>>>>>>>> _______________________________________________
>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> SciPy-Dev mailing list
>>>>>>>> SciPy-Dev at python.org
>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> SciPy-Dev mailing list
>>>>>>> SciPy-Dev at python.org
>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>
>>>>>> _______________________________________________
>>>>>> SciPy-Dev mailing list
>>>>>> SciPy-Dev at python.org
>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>
>>>>> _______________________________________________
>>>> SciPy-Dev mailing list
>>>> SciPy-Dev at python.org
>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>
>>> _______________________________________________
>>> SciPy-Dev mailing list
>>> SciPy-Dev at python.org
>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>
>>
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From juanlu001 at gmail.com  Tue Dec  3 05:09:56 2019
From: juanlu001 at gmail.com (Juan Luis Cano)
Date: Tue, 3 Dec 2019 11:09:56 +0100
Subject: [SciPy-Dev] Floating point differences in CPython
In-Reply-To: <CADv3RKRS8+wwnpm5f_YqPCB8Y4_aWFkhxYj04QuXBqtcs=J0uA@mail.gmail.com>
References: <CAFmivUWFEMQPtdUC4gzNMRNouWs-pABnXb9ys7sGSTOryPA13A@mail.gmail.com>
 <CADv3RKTjuyuNdTUdKWQzR1dLTwGz+aHKV7NfoAvZDi6j+3+Mgw@mail.gmail.com>
 <177c1e78-f151-0ff7-07f5-772612355788@gmail.com>
 <CADv3RKRS8+wwnpm5f_YqPCB8Y4_aWFkhxYj04QuXBqtcs=J0uA@mail.gmail.com>
Message-ID: <CAFmivUXqoGTb741hMfptT471JZrcnCyJrs4h7e+ugLKxr2xe=g@mail.gmail.com>

Thanks Stan, Matti - I guess that explains everything. If you think it's
worth it to open an issue upstream I can do that, otherwise mystery solved
:)

On Mon, Dec 2, 2019 at 7:22 PM Stanley Seibert <sseibert at anaconda.com>
wrote:

> Given how much platform-to-platform variation there is (this gives us
> headaches all the time on Numba), I was wondering how CPython got these
> tests to pass without shipping their own cross-platform C math library.  It
> turns out the test runner is pretty generous:
>
>
> https://github.com/python/cpython/blob/5fd5cb8d85fab3393dd76c7f3de1cdeb8ecf7203/Lib/test/test_math.py#L1614-L1679
>
> The default test precision is 5 ulps (with some functions getting much
> more), and the original example differs by only 1 ulp between glibc
> versions, so CPython's testing would not have flagged a discrepancy this
> small.
>
> On Mon, Dec 2, 2019 at 7:38 AM Matti Picus <matti.picus at gmail.com> wrote:
>
>>
>> On 2/12/19 3:28 pm, Stanley Seibert wrote:
>>
>>
>> On Mon, Dec 2, 2019 at 1:06 AM Juan Luis Cano <juanlu001 at gmail.com>
>> wrote:
>>
>>> Hi all,
>>>
>>> I admit this is not strictly about SciPy, but there is lots of people in
>>> this list that care about compilers and floating point math so I still
>>> wanted to give it a try.
>>>
>>> I am observing floating point differences between two different versions
>>> of CPython 3.7.5, one compiled with GCC 7.4.0 (latest Linux Mint) and other
>>> compared with GCC 8.3.0 (Debian Buster) that can be reproduced like this:
>>>
>>> $ docker run --rm -it python:3.7.5-stretch python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
>>> 1049171479739.7584228516
>>> $ docker run --rm -it python:3.7.5-buster  python -c 'print("{:.10f}".format((7091.17117297555159893818 ** 2 + 7118.70008070942458289210 ** 2 + (-1513.67274389594149397453) ** 2) ** 1.5))'
>>> 1049171479739.7585449219
>>>
>>>
>>> I highlight the GCC version because as far as I understand is the only
>>> thing that could have changed between the two. Does anybody have a more
>>> detailed explanation of what's going on here?
>>>
>>> Best,
>>>
>>> --
>>> Juan Luis Cano
>>>
>>> I'm speculating, but what jumped out at me is the **1.5, which will
>> likely invoke the pow() function in glibc.  Since there is no IEEE spec for
>> pow() precision, it is possible that a change there could produce this
>> effect.  Stretch uses glibc 2.24 and Buster uses glibc 2.28.  The changelog
>> for glibc 2.27 (
>> https://sourceware.org/ml/libc-announce/2018/msg00000.html) mentions
>> this:
>>
>> * Optimized x86-64 asin, atan2, exp, expf, log, pow, atan, sin, cosf,
>>   sinf, sincosf and tan with FMA, contributed by Arjan van de Ven and
>>   H.J. Lu from Intel.
>>
>> Which seems like a likely culprit, although I haven't done the work to
>> exactly pinpoint it to this change.
>>
>>
>> CPython has extensive tests to verify the functions in the cmath[0] and
>> math[1] modules, but the latter does not seem to include tests for `pow`.
>> Maybe after 9 years it is time to update it.
>>
>>
>> [0]
>> https://github.com/python/cpython/blob/master/Lib/test/cmath_testcases.txt
>>
>> [1]
>> https://github.com/python/cpython/blob/master/Lib/test/math_testcases.txt
>>
>>
>> Matti
>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>>
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>


-- 
Juan Luis Cano
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From perimosocordiae at gmail.com  Tue Dec  3 20:00:54 2019
From: perimosocordiae at gmail.com (CJ Carey)
Date: Tue, 3 Dec 2019 17:00:54 -0800
Subject: [SciPy-Dev] Proposed SciPy 1.4.0 Release Schedule
In-Reply-To: <CAHPuU_ZUV1cmpLJx8MKp2gohA+emL9nOZjBcgwAvsp=itt7oAA@mail.gmail.com>
References: <CAHPuU_Y0T2jjWMHcF4M3GuKGQjB+oVSYDhtmaNbOQsJX45+d_w@mail.gmail.com>
 <CABL7CQgEYJFvw7YDkguNyQJ-EXLU5_ZX1tXMcOaj_QnQ83_aYg@mail.gmail.com>
 <CADuxUiw9qN+RHdNXRtka+F9vkRoR=JM3GsLxVhdU9vQkHZNdjg@mail.gmail.com>
 <CAHPuU_ZuDM2F1x7KLS-2vye3OcbvCh+9-UpD20YquK6pifu0_w@mail.gmail.com>
 <CAHPuU_bgsqq4AX7erg52iq1X7JggWkm4AMrx14PMPK_+UZQwYA@mail.gmail.com>
 <CABL7CQjxW1KWWZPS6xdwo+QVkrw1R6wa7yH+bjgRR4-a3sESpw@mail.gmail.com>
 <CAHPuU_Zd27vW=2t15HboQ_PMR_k4CT0JJsGPZXVSOAVCG5s++g@mail.gmail.com>
 <CABL7CQgOahJ7yVc1rDqB8D99mMgZ1vc7OY5XUtLn2NaCO5o0-g@mail.gmail.com>
 <CAHPuU_Y2HOo9J6894DbETFgEFsSdzRyCW5Y9+3mtcn=JmPjfwA@mail.gmail.com>
 <CAHPuU_a5pq+BteVkD72i6-ggcBvi5g96_pvRfRExUXPzOxKR=Q@mail.gmail.com>
 <CABL7CQjbmYEbNT6U+67ZGev8V9PCkP3vfcSTbtLg7+c9ijSRmw@mail.gmail.com>
 <CAHPuU_bupMtBJPPwbP1qskfBd3eawwLGKw2GbyZLPgDTnKDqxw@mail.gmail.com>
 <CAHPuU_bew8Ov8qAW7tsB=hqnXvti+KHOdLovDT69squatOHdFw@mail.gmail.com>
 <CAHPuU_ZUV1cmpLJx8MKp2gohA+emL9nOZjBcgwAvsp=itt7oAA@mail.gmail.com>
Message-ID: <CAEfGn+whjk49tSLsd=_j1WwmwXGPaqkfw7nGBqkf+5pC2fgdAg@mail.gmail.com>

The scipy.sparse PR is merged.

On Mon, Dec 2, 2019 at 9:05 PM Tyler Reddy <tyler.je.reddy at gmail.com> wrote:

> I think there are two remaining PRs/issues that could use a boost/review
> to get over the line for 1.4.0rc2:
>
> https://github.com/scipy/scipy/pull/11152 (scipy.stats)
> https://github.com/scipy/scipy/pull/11166 (scipy.sparse)
>
>
>
> On Fri, 22 Nov 2019 at 16:49, Tyler Reddy <tyler.je.reddy at gmail.com>
> wrote:
>
>> An attempt at building the wheels for the SciPy 1.3.3 release is underway:
>>
>> https://travis-ci.org/MacPython/scipy-wheels/builds/615811782
>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29063776
>>
>> If those are successful I will try to get it out soon to address some
>> recent
>> issues affecting DLL loading and multiprocessing tests.
>>
>> On Thu, 21 Nov 2019 at 14:01, Tyler Reddy <tyler.je.reddy at gmail.com>
>> wrote:
>>
>>> First attempt at 1.4.0rc1 wheel builds are now underway, with
>>> fingers crossed:
>>>
>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615256054
>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29034442
>>>
>>> On Sun, 17 Nov 2019 at 01:40, Ralf Gommers <ralf.gommers at gmail.com>
>>> wrote:
>>>
>>>>
>>>>
>>>> On Sat, Nov 16, 2019 at 9:12 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>>> wrote:
>>>>
>>>>> I branched maintenance/1.4.x at ~10 pm Mountain Time on Nov. 16/2019.
>>>>>
>>>>
>>>> Awesome, thanks Tyler!
>>>>
>>>> Ralf
>>>>
>>>>
>>>>> The SciPy master branch is now open for development of version 1.5.0.
>>>>>
>>>>> Best wishes,
>>>>> Tyler
>>>>>
>>>>> On Fri, 15 Nov 2019 at 22:38, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>> wrote:
>>>>>
>>>>>> Please do take a look at the release notes in preparation for 1.4.0
>>>>>> branching:  https://github.com/scipy/scipy/pull/11061
>>>>>>
>>>>>> The number of pull requests is quite massive (347, I think), so it is
>>>>>> a first draft, but I've transcribed the material from the wiki, made a
>>>>>> no-doubt-controversial draft of release highlights, and tried to curate
>>>>>> author names/mailmap based on the first round of contributor feedback (~144
>>>>>> authors vs. 97 for 1.3.0).
>>>>>>
>>>>>> On Wed, 13 Nov 2019 at 21:28, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> On Wed, Nov 13, 2019 at 7:35 PM Tyler Reddy <
>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>
>>>>>>>> Alright, shall we aim for a two-day bump on the branching to Nov.
>>>>>>>> 16th (Saturday)? I see we're at ~8 PRs with the milestone now, but I also
>>>>>>>> still have to work on release notes, etc.
>>>>>>>>
>>>>>>>
>>>>>>> Thanks, that sounds good!
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>> I'm also expecting one or two surprises to pop up in the wheels
>>>>>>>> repo given major release + 3.8.
>>>>>>>>
>>>>>>>> On Wed, 13 Nov 2019 at 20:21, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>>> wrote:
>>>>>>>>
>>>>>>>>> Hi Tyler, are you still planning to branch 1.4.x tomorrow? It
>>>>>>>>> looks like there's no real blockers, but there's a bunch of stuff that
>>>>>>>>> people seem to be scrambling to get in, so perhaps a 24-48 hour bump could
>>>>>>>>> be useful.
>>>>>>>>>
>>>>>>>>> Cheers,
>>>>>>>>> Ralf
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> On Tue, Nov 12, 2019 at 8:31 AM Tyler Reddy <
>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>
>>>>>>>>>> Down to 12 open PRs with 1.4.0 milestone--getting closer!
>>>>>>>>>>
>>>>>>>>>> On Sat, 9 Nov 2019 at 21:40, Tyler Reddy <
>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>
>>>>>>>>>>> We currently sit at 31 open PRs and 20 open issues with 1.4.0
>>>>>>>>>>> milestone.
>>>>>>>>>>>
>>>>>>>>>>> That's a substantial drop in PRs but a rise in issues since the
>>>>>>>>>>> last accounting. Things got
>>>>>>>>>>> a little hectic with Python 3.8 for 1.3.2, but hopefully the
>>>>>>>>>>> wheels stuff is in good shape
>>>>>>>>>>> for 1.4.x series now.
>>>>>>>>>>>
>>>>>>>>>>> Branching in about 5 days is ambitious, but let's aim to stay
>>>>>>>>>>> reasonably on track if possible.
>>>>>>>>>>>
>>>>>>>>>>> On Mon, 21 Oct 2019 at 13:39, Matt Haberland <haberland at ucla.edu>
>>>>>>>>>>> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> Re: 1.2.3 release, I did get a request in gh-10915
>>>>>>>>>>>> <https://github.com/scipy/scipy/issues/10915> for gh-10498
>>>>>>>>>>>> <https://github.com/scipy/scipy/pull/10498> to be backported
>>>>>>>>>>>> to 1.2.
>>>>>>>>>>>>
>>>>>>>>>>>> On Mon, Oct 21, 2019 at 8:47 AM Ralf Gommers <
>>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> On Sat, Oct 19, 2019 at 12:24 AM Tyler Reddy <
>>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> SciPy 1.3.0 was released May 17 (5 months ago), and I think
>>>>>>>>>>>>>> we'd like to keep a roughly biannual release cadence.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> I'd like to propose the following schedule for 1.4.0:
>>>>>>>>>>>>>> - November 14: branch 1.4.x
>>>>>>>>>>>>>> - November 17: rc1
>>>>>>>>>>>>>> - December 1: rc2 (if needed)
>>>>>>>>>>>>>> - December 10: final release
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> Sounds good to me.
>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> The arrival of Python 3.8 and simultaneous responsibility to
>>>>>>>>>>>>>> get at least one more 1.2.x LTS Python 2.7 release out the door means
>>>>>>>>>>>>>> things will probably be busy on the release front until 2020.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> True. I think supporting 3.8 is fairly high-prio, there's a
>>>>>>>>>>>>> lot of demand for it. Doing a 1.3.2 release that supports it would make
>>>>>>>>>>>>> sense I guess.
>>>>>>>>>>>>>
>>>>>>>>>>>>> There don't seem to be any new commits on the 1.2.x branch nor
>>>>>>>>>>>>> urgent Python 2.7 fixes that need to go out. So do we need a 1.2.3 release?
>>>>>>>>>>>>>
>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>> Ralf
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>> As always, it is a good idea to start tagging things that
>>>>>>>>>>>>>> should be in 1.4.0 & please do help with reviewing PRs/issues that are
>>>>>>>>>>>>>> tagged--current counts are:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> - PRs: 40 open with 1.4.0 milestone
>>>>>>>>>>>>>> - issues: 17 open with 1.4.0 milestone
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> While helping with that, also great if the release notes wiki
>>>>>>>>>>>>>> is updated for appropriate changes:
>>>>>>>>>>>>>> https://github.com/scipy/scipy/wiki/Release-note-entries-for-SciPy-1.4.0
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Curating those final notes can be painful if the wiki isn't
>>>>>>>>>>>>>> updated.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Thoughts/objections for the schedule?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Best wishes,
>>>>>>>>>>>>>> Tyler
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>>
>>>>>>>>>>>> --
>>>>>>>>>>>> Matt Haberland
>>>>>>>>>>>> Assistant Adjunct Professor in the Program in Computing
>>>>>>>>>>>> Department of Mathematics
>>>>>>>>>>>> 6617A Math Sciences Building, UCLA
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>
>>>>>>>>>>> _______________________________________________
>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>
>>>>>>>>> _______________________________________________
>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> SciPy-Dev mailing list
>>>>>>>> SciPy-Dev at python.org
>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>
>>>>>>> _______________________________________________
>>>>>>> SciPy-Dev mailing list
>>>>>>> SciPy-Dev at python.org
>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>
>>>>>> _______________________________________________
>>>>> SciPy-Dev mailing list
>>>>> SciPy-Dev at python.org
>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>
>>>> _______________________________________________
>>>> SciPy-Dev mailing list
>>>> SciPy-Dev at python.org
>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>
>>> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From charlesr.harris at gmail.com  Thu Dec  5 21:40:55 2019
From: charlesr.harris at gmail.com (Charles R Harris)
Date: Thu, 5 Dec 2019 19:40:55 -0700
Subject: [SciPy-Dev] NumPy 1.18.0rc1 released.
Message-ID: <CAB6mnxJRcYtsjKtk3aaw0WhK72qcEEhvy+OF6m+Jm=3GLq-F7A@mail.gmail.com>

Hi All,

On behalf of the NumPy team I am pleased to announce that NumPy 1.18.0rc1
has been released. In addition to the usual bug fixes, this NumPy release
cleans up and documents the new random C-API, expires a large number of old
deprecations, and improves the appearance and organization of the
documentation. The Python versions supported are 3.5-3.8. This is the last
NumPy release series that will support Python 3.5.

The highlights of this release are:

   - the C-API for ``numpy.random`` has been defined and documented,
   - basic infrastructure for linking with 64 bit BLAS and LAPACK libraries,
   - many documentation improvements.

Downstream developers should use Cython >= 0.29.14 for Python 3.8 support
and OpenBLAS >= 3.7 to avoid wrong results on the Skylake architecture. The
NumPy Wheels for this release can be downloaded from PyPI
<https://pypi.org/project/numpy/1.18.0rc1/>, source archives and release
notes are available from Github
<https://github.com/numpy/numpy/releases/tag/v1.18.0rc1>.

*Highlights*

   - The C-API for ``numpy.random`` has been defined and documented.
   - Basic infrastructure for linking with 64 bit BLAS and LAPACK libraries.
   - Many documentation improvements.

*Contributors*

A total of 113 people contributed to this release.  People with a "+" by
their
names contributed a patch for the first time.


   - Abhinav Sagar
   - Alex Henrie +
   - Alexander Jung +
   - Allan Haldane
   - Andrea Pattori
   - Andrew Liu +
   - Anis Ladram +
   - Anne Bonner +
   - Antoine Dechaume +
   - Aryan Naraghi +
   - Bastian Eichenberger +
   - Brian Wignall +
   - Brigitta Sipocz
   - CakeWithSteak +
   - Charles Harris
   - Chris Barker
   - Chris Burr +
   - Chris Markiewicz +
   - Christoph Gohlke
   - Christopher Whelan
   - Colin Snyder
   - Dan Allan
   - Daniel Ching
   - David Stansby +
   - David Zwicker +
   - Dieter Werthm?ller
   - Disconnect3d +
   - Dmytro +
   - Doug Davis +
   - Eric Larson
   - Eric Wieser
   - Esben Haabendal +
   - Eugene Prilepin +
   - Felix Divo +
   - Gary Gurlaskie
   - Gina +
   - Giuseppe Cuccu +
   - Grzegorz Bokota +
   - Guanqun Lu +
   - Guilherme Leobas +
   - Guillaume Horel
   - G?raud Le Falher +
   - Hameer Abbasi
   - Harmon
   - Hiroyuki V. Yamazaki
   - Huang, Guangtai +
   - Hugo +
   - Hyeonguk Ryu +
   - Ilhan Polat +
   - Isaac Virshup
   - Jack J. Woehr +
   - Jack Woehr +
   - Jackie Leng
   - Jaime Fernandez
   - Jeff Hale +
   - Johann Faouzi +
   - Jon Dufresne +
   - Joseph Fox-Rabinovitz
   - Joseph R. Fox-Rabinovitz +
   - Jo?o Marcos Gris +
   - Justus Magin +
   - J?r?mie du Boisberranger
   - Kai Striega
   - Kevin Sheppard
   - Kexuan Sun
   - Kmol Yuan +
   - Kriti Singh
   - Larry Bradley +
   - Lars Grueter
   - Luis Pedro Coelho
   - MSeifert04
   - Magdalena Proszewska +
   - Manny +
   - Mark Harfouche
   - Martin Reinecke
   - Martin Thoma
   - Matt Haberland +
   - Matt McCormick +
   - Matthias Bussonnier
   - Matti Picus
   - Max Bolingbroke +
   - Maxwell Aladago +
   - Michael Hudson-Doyle +
   - Oleksandr Pavlyk
   - Omar Merghany +
   - Pauli Virtanen
   - Peter Andreas Entschev
   - Peter Bell
   - Peter Cock +
   - Pradeep Reddy Raamana +
   - Qiming Sun +
   - Raghuveer Devulapalli
   - Ralf Gommers
   - Samesh +
   - Samesh Lakhotia +
   - Sebastian Berg
   - Sergei Lebedev
   - Seth Troisi +
   - Siddhesh Poyarekar +
   - Simon +
   - Simon Notley +
   - Stefan van der Walt
   - Stephan Hoyer
   - Steve Stagg
   - Thomas A Caswell
   - Thomas Kluyver
   - Tim Hoffmann +
   - Tyler Reddy
   - Vladimir Pershin +
   - Warren Weckesser
   - Yadong Zhang +
   - Zieji Pohz +
   - Zolisa Bleki +

Cheers,

Charles Harris
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From tyler.je.reddy at gmail.com  Fri Dec  6 19:59:28 2019
From: tyler.je.reddy at gmail.com (Tyler Reddy)
Date: Fri, 6 Dec 2019 17:59:28 -0700
Subject: [SciPy-Dev] Proposed SciPy 1.4.0 Release Schedule
In-Reply-To: <CAEfGn+whjk49tSLsd=_j1WwmwXGPaqkfw7nGBqkf+5pC2fgdAg@mail.gmail.com>
References: <CAHPuU_Y0T2jjWMHcF4M3GuKGQjB+oVSYDhtmaNbOQsJX45+d_w@mail.gmail.com>
 <CABL7CQgEYJFvw7YDkguNyQJ-EXLU5_ZX1tXMcOaj_QnQ83_aYg@mail.gmail.com>
 <CADuxUiw9qN+RHdNXRtka+F9vkRoR=JM3GsLxVhdU9vQkHZNdjg@mail.gmail.com>
 <CAHPuU_ZuDM2F1x7KLS-2vye3OcbvCh+9-UpD20YquK6pifu0_w@mail.gmail.com>
 <CAHPuU_bgsqq4AX7erg52iq1X7JggWkm4AMrx14PMPK_+UZQwYA@mail.gmail.com>
 <CABL7CQjxW1KWWZPS6xdwo+QVkrw1R6wa7yH+bjgRR4-a3sESpw@mail.gmail.com>
 <CAHPuU_Zd27vW=2t15HboQ_PMR_k4CT0JJsGPZXVSOAVCG5s++g@mail.gmail.com>
 <CABL7CQgOahJ7yVc1rDqB8D99mMgZ1vc7OY5XUtLn2NaCO5o0-g@mail.gmail.com>
 <CAHPuU_Y2HOo9J6894DbETFgEFsSdzRyCW5Y9+3mtcn=JmPjfwA@mail.gmail.com>
 <CAHPuU_a5pq+BteVkD72i6-ggcBvi5g96_pvRfRExUXPzOxKR=Q@mail.gmail.com>
 <CABL7CQjbmYEbNT6U+67ZGev8V9PCkP3vfcSTbtLg7+c9ijSRmw@mail.gmail.com>
 <CAHPuU_bupMtBJPPwbP1qskfBd3eawwLGKw2GbyZLPgDTnKDqxw@mail.gmail.com>
 <CAHPuU_bew8Ov8qAW7tsB=hqnXvti+KHOdLovDT69squatOHdFw@mail.gmail.com>
 <CAHPuU_ZUV1cmpLJx8MKp2gohA+emL9nOZjBcgwAvsp=itt7oAA@mail.gmail.com>
 <CAEfGn+whjk49tSLsd=_j1WwmwXGPaqkfw7nGBqkf+5pC2fgdAg@mail.gmail.com>
Message-ID: <CAHPuU_aXVi6op05tWR8p=YWkSpXUZvjm5n72T6jRLqEDE8UEWg@mail.gmail.com>

I believe the temporary reversion to the last blocker (dtype=object array
creation deprecation matter) was merged into NumPy master today, so the
nightly NumPy wheels that are "blocking" the release should be fixed up by
sometime on the weekend (I hope). I'll try to proceed with rc2 as soon as
possible.

On Tue, 3 Dec 2019 at 18:01, CJ Carey <perimosocordiae at gmail.com> wrote:

> The scipy.sparse PR is merged.
>
> On Mon, Dec 2, 2019 at 9:05 PM Tyler Reddy <tyler.je.reddy at gmail.com>
> wrote:
>
>> I think there are two remaining PRs/issues that could use a boost/review
>> to get over the line for 1.4.0rc2:
>>
>> https://github.com/scipy/scipy/pull/11152 (scipy.stats)
>> https://github.com/scipy/scipy/pull/11166 (scipy.sparse)
>>
>>
>>
>> On Fri, 22 Nov 2019 at 16:49, Tyler Reddy <tyler.je.reddy at gmail.com>
>> wrote:
>>
>>> An attempt at building the wheels for the SciPy 1.3.3 release is
>>> underway:
>>>
>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615811782
>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29063776
>>>
>>> If those are successful I will try to get it out soon to address some
>>> recent
>>> issues affecting DLL loading and multiprocessing tests.
>>>
>>> On Thu, 21 Nov 2019 at 14:01, Tyler Reddy <tyler.je.reddy at gmail.com>
>>> wrote:
>>>
>>>> First attempt at 1.4.0rc1 wheel builds are now underway, with
>>>> fingers crossed:
>>>>
>>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615256054
>>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29034442
>>>>
>>>> On Sun, 17 Nov 2019 at 01:40, Ralf Gommers <ralf.gommers at gmail.com>
>>>> wrote:
>>>>
>>>>>
>>>>>
>>>>> On Sat, Nov 16, 2019 at 9:12 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>> wrote:
>>>>>
>>>>>> I branched maintenance/1.4.x at ~10 pm Mountain Time on Nov. 16/2019.
>>>>>>
>>>>>
>>>>> Awesome, thanks Tyler!
>>>>>
>>>>> Ralf
>>>>>
>>>>>
>>>>>> The SciPy master branch is now open for development of version 1.5.0.
>>>>>>
>>>>>> Best wishes,
>>>>>> Tyler
>>>>>>
>>>>>> On Fri, 15 Nov 2019 at 22:38, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>>> Please do take a look at the release notes in preparation for 1.4.0
>>>>>>> branching:  https://github.com/scipy/scipy/pull/11061
>>>>>>>
>>>>>>> The number of pull requests is quite massive (347, I think), so it
>>>>>>> is a first draft, but I've transcribed the material from the wiki, made a
>>>>>>> no-doubt-controversial draft of release highlights, and tried to curate
>>>>>>> author names/mailmap based on the first round of contributor feedback (~144
>>>>>>> authors vs. 97 for 1.3.0).
>>>>>>>
>>>>>>> On Wed, 13 Nov 2019 at 21:28, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>> wrote:
>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>> On Wed, Nov 13, 2019 at 7:35 PM Tyler Reddy <
>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>
>>>>>>>>> Alright, shall we aim for a two-day bump on the branching to Nov.
>>>>>>>>> 16th (Saturday)? I see we're at ~8 PRs with the milestone now, but I also
>>>>>>>>> still have to work on release notes, etc.
>>>>>>>>>
>>>>>>>>
>>>>>>>> Thanks, that sounds good!
>>>>>>>>
>>>>>>>>
>>>>>>>>
>>>>>>>>> I'm also expecting one or two surprises to pop up in the wheels
>>>>>>>>> repo given major release + 3.8.
>>>>>>>>>
>>>>>>>>> On Wed, 13 Nov 2019 at 20:21, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>>>> wrote:
>>>>>>>>>
>>>>>>>>>> Hi Tyler, are you still planning to branch 1.4.x tomorrow? It
>>>>>>>>>> looks like there's no real blockers, but there's a bunch of stuff that
>>>>>>>>>> people seem to be scrambling to get in, so perhaps a 24-48 hour bump could
>>>>>>>>>> be useful.
>>>>>>>>>>
>>>>>>>>>> Cheers,
>>>>>>>>>> Ralf
>>>>>>>>>>
>>>>>>>>>>
>>>>>>>>>> On Tue, Nov 12, 2019 at 8:31 AM Tyler Reddy <
>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>
>>>>>>>>>>> Down to 12 open PRs with 1.4.0 milestone--getting closer!
>>>>>>>>>>>
>>>>>>>>>>> On Sat, 9 Nov 2019 at 21:40, Tyler Reddy <
>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> We currently sit at 31 open PRs and 20 open issues with 1.4.0
>>>>>>>>>>>> milestone.
>>>>>>>>>>>>
>>>>>>>>>>>> That's a substantial drop in PRs but a rise in issues since the
>>>>>>>>>>>> last accounting. Things got
>>>>>>>>>>>> a little hectic with Python 3.8 for 1.3.2, but hopefully the
>>>>>>>>>>>> wheels stuff is in good shape
>>>>>>>>>>>> for 1.4.x series now.
>>>>>>>>>>>>
>>>>>>>>>>>> Branching in about 5 days is ambitious, but let's aim to stay
>>>>>>>>>>>> reasonably on track if possible.
>>>>>>>>>>>>
>>>>>>>>>>>> On Mon, 21 Oct 2019 at 13:39, Matt Haberland <
>>>>>>>>>>>> haberland at ucla.edu> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>> Re: 1.2.3 release, I did get a request in gh-10915
>>>>>>>>>>>>> <https://github.com/scipy/scipy/issues/10915> for gh-10498
>>>>>>>>>>>>> <https://github.com/scipy/scipy/pull/10498> to be backported
>>>>>>>>>>>>> to 1.2.
>>>>>>>>>>>>>
>>>>>>>>>>>>> On Mon, Oct 21, 2019 at 8:47 AM Ralf Gommers <
>>>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> On Sat, Oct 19, 2019 at 12:24 AM Tyler Reddy <
>>>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> SciPy 1.3.0 was released May 17 (5 months ago), and I think
>>>>>>>>>>>>>>> we'd like to keep a roughly biannual release cadence.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> I'd like to propose the following schedule for 1.4.0:
>>>>>>>>>>>>>>> - November 14: branch 1.4.x
>>>>>>>>>>>>>>> - November 17: rc1
>>>>>>>>>>>>>>> - December 1: rc2 (if needed)
>>>>>>>>>>>>>>> - December 10: final release
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Sounds good to me.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> The arrival of Python 3.8 and simultaneous responsibility to
>>>>>>>>>>>>>>> get at least one more 1.2.x LTS Python 2.7 release out the door means
>>>>>>>>>>>>>>> things will probably be busy on the release front until 2020.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> True. I think supporting 3.8 is fairly high-prio, there's a
>>>>>>>>>>>>>> lot of demand for it. Doing a 1.3.2 release that supports it would make
>>>>>>>>>>>>>> sense I guess.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> There don't seem to be any new commits on the 1.2.x branch
>>>>>>>>>>>>>> nor urgent Python 2.7 fixes that need to go out. So do we need a 1.2.3
>>>>>>>>>>>>>> release?
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>>> Ralf
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> As always, it is a good idea to start tagging things that
>>>>>>>>>>>>>>> should be in 1.4.0 & please do help with reviewing PRs/issues that are
>>>>>>>>>>>>>>> tagged--current counts are:
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> - PRs: 40 open with 1.4.0 milestone
>>>>>>>>>>>>>>> - issues: 17 open with 1.4.0 milestone
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> While helping with that, also great if the release notes
>>>>>>>>>>>>>>> wiki is updated for appropriate changes:
>>>>>>>>>>>>>>> https://github.com/scipy/scipy/wiki/Release-note-entries-for-SciPy-1.4.0
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Curating those final notes can be painful if the wiki isn't
>>>>>>>>>>>>>>> updated.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Thoughts/objections for the schedule?
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Best wishes,
>>>>>>>>>>>>>>> Tyler
>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>>
>>>>>>>>>>>>> --
>>>>>>>>>>>>> Matt Haberland
>>>>>>>>>>>>> Assistant Adjunct Professor in the Program in Computing
>>>>>>>>>>>>> Department of Mathematics
>>>>>>>>>>>>> 6617A Math Sciences Building, UCLA
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>
>>>>>>>>>> _______________________________________________
>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>
>>>>>>>>> _______________________________________________
>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>>> SciPy-Dev mailing list
>>>>>>>> SciPy-Dev at python.org
>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>
>>>>>>> _______________________________________________
>>>>>> SciPy-Dev mailing list
>>>>>> SciPy-Dev at python.org
>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>
>>>>> _______________________________________________
>>>>> SciPy-Dev mailing list
>>>>> SciPy-Dev at python.org
>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>
>>>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>>
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From koumura at cycentum.com  Fri Dec  6 23:33:36 2019
From: koumura at cycentum.com (Takuya Koumura)
Date: Sat, 7 Dec 2019 13:33:36 +0900
Subject: [SciPy-Dev] Adding logsoftmax function to scipy.special
In-Reply-To: <CADz60t3qbYeeJqRa_hqh5+w5Xyvoa0TnBXf2nD9J9UdL=d=10g@mail.gmail.com>
References: <CADz60t01kY1So9FjSRbWBAiBfPVuu6aRiNxr2W0JHi9juPeRnQ@mail.gmail.com>
 <CABL7CQh9MJH8=QmroERcOvgz_TmuueC5oNUZKT9LBV2Aah0Oyw@mail.gmail.com>
 <CAKFGQGyAYBkJO0nED1VRQMebJMFM_WNcWzG3wKKmtBZ0HhRnHQ@mail.gmail.com>
 <CADz60t3qbYeeJqRa_hqh5+w5Xyvoa0TnBXf2nD9J9UdL=d=10g@mail.gmail.com>
Message-ID: <CADz60t1-QySj3Dhgv4Oy6HM5tRY6SXFLoq4BgCFgx9w4cyWwWw@mail.gmail.com>

Hi,

I implemented log_softmax and I wrote a docstring for it. Can anyone tell
me how to add the function name to the scipy.special index page (
https://docs.scipy.org/doc/scipy/reference/special.html)?  Is it Okay to
directly edit the docstring in special/__init__.py? I wonder ?..
autosummary::  :toctree: generated/? indicates it was generated by Sphinx?

Best regards,
Takuya


2019?11?18?(?) 17:38 Takuya Koumura <koumura at cycentum.com>:

> Hi Ralf, Josh, and all,
>
> Thank you for your positive comments and raising potential issues.
>
> Having read Josh?s comment, I conducted several experiments and found
> there indeed is a case where cancellation occurs in my original
> implementation, in which log_softmax(x) = x - logsumexp(x) = x - (m +
> log(sum(exp(x - m)))) where m = max(x).
>
> Calculating s = x - m first and using it to calculate log_softmax(x) = s -
> logsumexp(s) should decrease the chance of cancellation because it does not
> involve subtraction other than x - m. Note that s is always <=0, so s -
> log(sum(exp(s))) is actually addition of negative values.
> Also, reusing s may be a bit more efficient in computational time.
>
> Best,
> Takuya
>
>
> 2019?11?18?(?) 3:51 Joshua Wilson <josh.craig.wilson at gmail.com>:
>
>> > I would like to implement logsoftmax(x) as x-logsumexp(x)
>>
>> The function seems reasonable to add, but I am not so sure about that
>> implementation, as it appears that it could lead to cancellation.
>> Note, for example, that because of the scaling `logsumexp` does to
>> prevent overflow, with that implementation you will end up adding and
>> subtracting the component `x_i` of the largest magnitude when
>> computing the `i`th component of the results array, see e.g.
>>
>>
>> https://github.com/scipy/scipy/blob/master/scipy/special/_logsumexp.py#L124
>>
>> Off the top of my head, it is not obvious to me that situations
>> similar to that will not lead to cancellation errors.
>>
>> Of course, I might be wrong, but my overall point is that in order to
>> use a particular implementation we should have a reasonable
>> understanding of its theoretical properties, so I would like to see
>> some exploration of that before proceeding.
>>
>> - Josh
>>
>> On Fri, Nov 15, 2019 at 5:17 PM Ralf Gommers <ralf.gommers at gmail.com>
>> wrote:
>> >
>> > Hi Takuya,
>> >
>> >
>> > On Tue, Nov 12, 2019 at 9:05 PM Takuya Koumura <koumura at cycentum.com>
>> wrote:
>> >>
>> >> Hello,
>> >>
>> >> I raised a GitHub issue (#11058) and was suggested to post it to
>> scipy-dev.
>> >>
>> >> I?m considering to send a PR to add logsoftmax function in
>> scipy.special. Before that, I would like to hear your opinion (partly
>> because it?s my first time to send a PR to scipy).
>> >
>> >
>> > Welcome! Thanks for proposing that. logsoftmax is fairly popular at
>> least in deep learning, so it makes sense I think, and we already have a
>> bunch of other log* functions in scipy.special.
>> >
>> > I noticed that both PyTorch and Tensorflow name this function
>> `log_softmax` rather than `logsoftmax`. The latter would be a little more
>> consistent with other functions (although we also have `special.log_ndtr`),
>> while the former is consistent with other implementations of the same
>> functionality. I'd be okay with either, with a slight preference for
>> `log_softmax`.
>> >
>> >>
>> >> I would like to implement logsoftmax(x) as x-logsumexp(x). Actually,
>> special.softmax(x) = np.exp(x-logsumexp(x)), so it is trivial for those who
>> read the source code of softmax, but I think including logsoftmax as a
>> separate function will be useful for other users. Logsoftmax is more
>> accurate with inputs that make softmax saturate, eg: When x=[1000, 0],
>> np.log(softmax(x))=[0, -Inf] (maybe depending on the floating point
>> precision), while logsoftmax(x)=[0, -1000].
>> >>
>> >> I am planning to add the new function at the bottom of
>> special/_logsumexp.py following the softmax function, and add some unit
>> tests in special/test/test_logsumexp.py. If you have comments, I?d
>> appreciate any.
>> >
>> >
>> > That seems like a good place.
>> >
>> > Cheers,
>> > Ralf
>> >
>> >>
>> >> Best wishes,
>> >> --
>> >> Takuya KOUMURA
>> >> koumura at cycentum.com
>> >> _______________________________________________
>> >> SciPy-Dev mailing list
>> >> SciPy-Dev at python.org
>> >> https://mail.python.org/mailman/listinfo/scipy-dev
>> >
>> > _______________________________________________
>> > SciPy-Dev mailing list
>> > SciPy-Dev at python.org
>> > https://mail.python.org/mailman/listinfo/scipy-dev
>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>>
>
>
> --
> --
> Takuya KOUMURA
> koumura at cycentum.com
>


-- 
--
Takuya KOUMURA
koumura at cycentum.com
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From stanczakdominik at gmail.com  Fri Dec  6 23:43:16 2019
From: stanczakdominik at gmail.com (=?UTF-8?Q?Dominik_Sta=C5=84czak?=)
Date: Sat, 7 Dec 2019 05:43:16 +0100
Subject: [SciPy-Dev] Adding logsoftmax function to scipy.special
In-Reply-To: <CADz60t1-QySj3Dhgv4Oy6HM5tRY6SXFLoq4BgCFgx9w4cyWwWw@mail.gmail.com>
References: <CADz60t01kY1So9FjSRbWBAiBfPVuu6aRiNxr2W0JHi9juPeRnQ@mail.gmail.com>
 <CABL7CQh9MJH8=QmroERcOvgz_TmuueC5oNUZKT9LBV2Aah0Oyw@mail.gmail.com>
 <CAKFGQGyAYBkJO0nED1VRQMebJMFM_WNcWzG3wKKmtBZ0HhRnHQ@mail.gmail.com>
 <CADz60t3qbYeeJqRa_hqh5+w5Xyvoa0TnBXf2nD9J9UdL=d=10g@mail.gmail.com>
 <CADz60t1-QySj3Dhgv4Oy6HM5tRY6SXFLoq4BgCFgx9w4cyWwWw@mail.gmail.com>
Message-ID: <CALqoO-7yb63hFQZy2vV5Smo=qe+HtiPe9WThZH9GUJi=1kmqvw@mail.gmail.com>

Hey,

your function may not show up if there's an __all__ variable in that module
that lists importable functions and you didn't add your function to it.
Sphinx goes by that one if it's available.

Not sure that's relevant, but it's likely to be.

Cheers,
Dominik

On Sat, Dec 7, 2019, 05:34 Takuya Koumura <koumura at cycentum.com> wrote:

> Hi,
>
> I implemented log_softmax and I wrote a docstring for it. Can anyone tell
> me how to add the function name to the scipy.special index page (
> https://docs.scipy.org/doc/scipy/reference/special.html)?  Is it Okay to
> directly edit the docstring in special/__init__.py? I wonder ?..
> autosummary::  :toctree: generated/? indicates it was generated by Sphinx?
>
> Best regards,
> Takuya
>
>
> 2019?11?18?(?) 17:38 Takuya Koumura <koumura at cycentum.com>:
>
>> Hi Ralf, Josh, and all,
>>
>> Thank you for your positive comments and raising potential issues.
>>
>> Having read Josh?s comment, I conducted several experiments and found
>> there indeed is a case where cancellation occurs in my original
>> implementation, in which log_softmax(x) = x - logsumexp(x) = x - (m +
>> log(sum(exp(x - m)))) where m = max(x).
>>
>> Calculating s = x - m first and using it to calculate log_softmax(x) = s
>> - logsumexp(s) should decrease the chance of cancellation because it does
>> not involve subtraction other than x - m. Note that s is always <=0, so s -
>> log(sum(exp(s))) is actually addition of negative values.
>> Also, reusing s may be a bit more efficient in computational time.
>>
>> Best,
>> Takuya
>>
>>
>> 2019?11?18?(?) 3:51 Joshua Wilson <josh.craig.wilson at gmail.com>:
>>
>>> > I would like to implement logsoftmax(x) as x-logsumexp(x)
>>>
>>> The function seems reasonable to add, but I am not so sure about that
>>> implementation, as it appears that it could lead to cancellation.
>>> Note, for example, that because of the scaling `logsumexp` does to
>>> prevent overflow, with that implementation you will end up adding and
>>> subtracting the component `x_i` of the largest magnitude when
>>> computing the `i`th component of the results array, see e.g.
>>>
>>>
>>> https://github.com/scipy/scipy/blob/master/scipy/special/_logsumexp.py#L124
>>>
>>> Off the top of my head, it is not obvious to me that situations
>>> similar to that will not lead to cancellation errors.
>>>
>>> Of course, I might be wrong, but my overall point is that in order to
>>> use a particular implementation we should have a reasonable
>>> understanding of its theoretical properties, so I would like to see
>>> some exploration of that before proceeding.
>>>
>>> - Josh
>>>
>>> On Fri, Nov 15, 2019 at 5:17 PM Ralf Gommers <ralf.gommers at gmail.com>
>>> wrote:
>>> >
>>> > Hi Takuya,
>>> >
>>> >
>>> > On Tue, Nov 12, 2019 at 9:05 PM Takuya Koumura <koumura at cycentum.com>
>>> wrote:
>>> >>
>>> >> Hello,
>>> >>
>>> >> I raised a GitHub issue (#11058) and was suggested to post it to
>>> scipy-dev.
>>> >>
>>> >> I?m considering to send a PR to add logsoftmax function in
>>> scipy.special. Before that, I would like to hear your opinion (partly
>>> because it?s my first time to send a PR to scipy).
>>> >
>>> >
>>> > Welcome! Thanks for proposing that. logsoftmax is fairly popular at
>>> least in deep learning, so it makes sense I think, and we already have a
>>> bunch of other log* functions in scipy.special.
>>> >
>>> > I noticed that both PyTorch and Tensorflow name this function
>>> `log_softmax` rather than `logsoftmax`. The latter would be a little more
>>> consistent with other functions (although we also have `special.log_ndtr`),
>>> while the former is consistent with other implementations of the same
>>> functionality. I'd be okay with either, with a slight preference for
>>> `log_softmax`.
>>> >
>>> >>
>>> >> I would like to implement logsoftmax(x) as x-logsumexp(x). Actually,
>>> special.softmax(x) = np.exp(x-logsumexp(x)), so it is trivial for those who
>>> read the source code of softmax, but I think including logsoftmax as a
>>> separate function will be useful for other users. Logsoftmax is more
>>> accurate with inputs that make softmax saturate, eg: When x=[1000, 0],
>>> np.log(softmax(x))=[0, -Inf] (maybe depending on the floating point
>>> precision), while logsoftmax(x)=[0, -1000].
>>> >>
>>> >> I am planning to add the new function at the bottom of
>>> special/_logsumexp.py following the softmax function, and add some unit
>>> tests in special/test/test_logsumexp.py. If you have comments, I?d
>>> appreciate any.
>>> >
>>> >
>>> > That seems like a good place.
>>> >
>>> > Cheers,
>>> > Ralf
>>> >
>>> >>
>>> >> Best wishes,
>>> >> --
>>> >> Takuya KOUMURA
>>> >> koumura at cycentum.com
>>> >> _______________________________________________
>>> >> SciPy-Dev mailing list
>>> >> SciPy-Dev at python.org
>>> >> https://mail.python.org/mailman/listinfo/scipy-dev
>>> >
>>> > _______________________________________________
>>> > SciPy-Dev mailing list
>>> > SciPy-Dev at python.org
>>> > https://mail.python.org/mailman/listinfo/scipy-dev
>>> _______________________________________________
>>> SciPy-Dev mailing list
>>> SciPy-Dev at python.org
>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>
>>
>>
>> --
>> --
>> Takuya KOUMURA
>> koumura at cycentum.com
>>
>
>
> --
> --
> Takuya KOUMURA
> koumura at cycentum.com
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From ralf.gommers at gmail.com  Fri Dec  6 23:48:27 2019
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Fri, 6 Dec 2019 20:48:27 -0800
Subject: [SciPy-Dev] Adding logsoftmax function to scipy.special
In-Reply-To: <CALqoO-7yb63hFQZy2vV5Smo=qe+HtiPe9WThZH9GUJi=1kmqvw@mail.gmail.com>
References: <CADz60t01kY1So9FjSRbWBAiBfPVuu6aRiNxr2W0JHi9juPeRnQ@mail.gmail.com>
 <CABL7CQh9MJH8=QmroERcOvgz_TmuueC5oNUZKT9LBV2Aah0Oyw@mail.gmail.com>
 <CAKFGQGyAYBkJO0nED1VRQMebJMFM_WNcWzG3wKKmtBZ0HhRnHQ@mail.gmail.com>
 <CADz60t3qbYeeJqRa_hqh5+w5Xyvoa0TnBXf2nD9J9UdL=d=10g@mail.gmail.com>
 <CADz60t1-QySj3Dhgv4Oy6HM5tRY6SXFLoq4BgCFgx9w4cyWwWw@mail.gmail.com>
 <CALqoO-7yb63hFQZy2vV5Smo=qe+HtiPe9WThZH9GUJi=1kmqvw@mail.gmail.com>
Message-ID: <CABL7CQgCfVnBU1tWKpxcynNnbkn+4kc+JDV3Zz57h9VkrgzAdg@mail.gmail.com>

On Fri, Dec 6, 2019 at 8:43 PM Dominik Sta?czak <stanczakdominik at gmail.com>
wrote:

> Hey,
>
> your function may not show up if there's an __all__ variable in that
> module that lists importable functions and you didn't add your function to
> it. Sphinx goes by that one if it's available.
>
> Not sure that's relevant, but it's likely to be.
>
> Cheers,
> Dominik
>
> On Sat, Dec 7, 2019, 05:34 Takuya Koumura <koumura at cycentum.com> wrote:
>
>> Hi,
>>
>> I implemented log_softmax and I wrote a docstring for it. Can anyone tell
>> me how to add the function name to the scipy.special index page (
>> https://docs.scipy.org/doc/scipy/reference/special.html)?  Is it Okay to
>> directly edit the docstring in special/__init__.py?
>>
>
Yes, you need to add your function to __init__.py, right under `softmax`
looks like the correct place.

And indeed, as Dominic suggests, you also need to add the function name to
`__all__` in the file where you added it - `__all__` is a list of all
public names in each file.


> I wonder ?.. autosummary::  :toctree: generated/? indicates it was
>> generated by Sphinx?
>>
>
No, that is a directive to tell Sphinx it should take the functions listed
below it, and generated links and doc pages for those in the html/pdf
output.

Cheers,
Ralf



>
>> Best regards,
>> Takuya
>>
>>
>> 2019?11?18?(?) 17:38 Takuya Koumura <koumura at cycentum.com>:
>>
>>> Hi Ralf, Josh, and all,
>>>
>>> Thank you for your positive comments and raising potential issues.
>>>
>>> Having read Josh?s comment, I conducted several experiments and found
>>> there indeed is a case where cancellation occurs in my original
>>> implementation, in which log_softmax(x) = x - logsumexp(x) = x - (m +
>>> log(sum(exp(x - m)))) where m = max(x).
>>>
>>> Calculating s = x - m first and using it to calculate log_softmax(x) = s
>>> - logsumexp(s) should decrease the chance of cancellation because it does
>>> not involve subtraction other than x - m. Note that s is always <=0, so s -
>>> log(sum(exp(s))) is actually addition of negative values.
>>> Also, reusing s may be a bit more efficient in computational time.
>>>
>>> Best,
>>> Takuya
>>>
>>>
>>> 2019?11?18?(?) 3:51 Joshua Wilson <josh.craig.wilson at gmail.com>:
>>>
>>>> > I would like to implement logsoftmax(x) as x-logsumexp(x)
>>>>
>>>> The function seems reasonable to add, but I am not so sure about that
>>>> implementation, as it appears that it could lead to cancellation.
>>>> Note, for example, that because of the scaling `logsumexp` does to
>>>> prevent overflow, with that implementation you will end up adding and
>>>> subtracting the component `x_i` of the largest magnitude when
>>>> computing the `i`th component of the results array, see e.g.
>>>>
>>>>
>>>> https://github.com/scipy/scipy/blob/master/scipy/special/_logsumexp.py#L124
>>>>
>>>> Off the top of my head, it is not obvious to me that situations
>>>> similar to that will not lead to cancellation errors.
>>>>
>>>> Of course, I might be wrong, but my overall point is that in order to
>>>> use a particular implementation we should have a reasonable
>>>> understanding of its theoretical properties, so I would like to see
>>>> some exploration of that before proceeding.
>>>>
>>>> - Josh
>>>>
>>>> On Fri, Nov 15, 2019 at 5:17 PM Ralf Gommers <ralf.gommers at gmail.com>
>>>> wrote:
>>>> >
>>>> > Hi Takuya,
>>>> >
>>>> >
>>>> > On Tue, Nov 12, 2019 at 9:05 PM Takuya Koumura <koumura at cycentum.com>
>>>> wrote:
>>>> >>
>>>> >> Hello,
>>>> >>
>>>> >> I raised a GitHub issue (#11058) and was suggested to post it to
>>>> scipy-dev.
>>>> >>
>>>> >> I?m considering to send a PR to add logsoftmax function in
>>>> scipy.special. Before that, I would like to hear your opinion (partly
>>>> because it?s my first time to send a PR to scipy).
>>>> >
>>>> >
>>>> > Welcome! Thanks for proposing that. logsoftmax is fairly popular at
>>>> least in deep learning, so it makes sense I think, and we already have a
>>>> bunch of other log* functions in scipy.special.
>>>> >
>>>> > I noticed that both PyTorch and Tensorflow name this function
>>>> `log_softmax` rather than `logsoftmax`. The latter would be a little more
>>>> consistent with other functions (although we also have `special.log_ndtr`),
>>>> while the former is consistent with other implementations of the same
>>>> functionality. I'd be okay with either, with a slight preference for
>>>> `log_softmax`.
>>>> >
>>>> >>
>>>> >> I would like to implement logsoftmax(x) as x-logsumexp(x). Actually,
>>>> special.softmax(x) = np.exp(x-logsumexp(x)), so it is trivial for those who
>>>> read the source code of softmax, but I think including logsoftmax as a
>>>> separate function will be useful for other users. Logsoftmax is more
>>>> accurate with inputs that make softmax saturate, eg: When x=[1000, 0],
>>>> np.log(softmax(x))=[0, -Inf] (maybe depending on the floating point
>>>> precision), while logsoftmax(x)=[0, -1000].
>>>> >>
>>>> >> I am planning to add the new function at the bottom of
>>>> special/_logsumexp.py following the softmax function, and add some unit
>>>> tests in special/test/test_logsumexp.py. If you have comments, I?d
>>>> appreciate any.
>>>> >
>>>> >
>>>> > That seems like a good place.
>>>> >
>>>> > Cheers,
>>>> > Ralf
>>>> >
>>>> >>
>>>> >> Best wishes,
>>>> >> --
>>>> >> Takuya KOUMURA
>>>> >> koumura at cycentum.com
>>>> >> _______________________________________________
>>>> >> SciPy-Dev mailing list
>>>> >> SciPy-Dev at python.org
>>>> >> https://mail.python.org/mailman/listinfo/scipy-dev
>>>> >
>>>> > _______________________________________________
>>>> > SciPy-Dev mailing list
>>>> > SciPy-Dev at python.org
>>>> > https://mail.python.org/mailman/listinfo/scipy-dev
>>>> _______________________________________________
>>>> SciPy-Dev mailing list
>>>> SciPy-Dev at python.org
>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>
>>>
>>>
>>> --
>>> --
>>> Takuya KOUMURA
>>> koumura at cycentum.com
>>>
>>
>>
>> --
>> --
>> Takuya KOUMURA
>> koumura at cycentum.com
>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>>
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From ralf.gommers at gmail.com  Sat Dec  7 00:10:36 2019
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Fri, 6 Dec 2019 21:10:36 -0800
Subject: [SciPy-Dev] Proposed SciPy 1.4.0 Release Schedule
In-Reply-To: <CAHPuU_aXVi6op05tWR8p=YWkSpXUZvjm5n72T6jRLqEDE8UEWg@mail.gmail.com>
References: <CAHPuU_Y0T2jjWMHcF4M3GuKGQjB+oVSYDhtmaNbOQsJX45+d_w@mail.gmail.com>
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 <CABL7CQgOahJ7yVc1rDqB8D99mMgZ1vc7OY5XUtLn2NaCO5o0-g@mail.gmail.com>
 <CAHPuU_Y2HOo9J6894DbETFgEFsSdzRyCW5Y9+3mtcn=JmPjfwA@mail.gmail.com>
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Message-ID: <CABL7CQiHsuM9r7FcrMO7FsDR7gEScshkyCMt9AjNozkUjypcuQ@mail.gmail.com>

On Fri, Dec 6, 2019 at 4:59 PM Tyler Reddy <tyler.je.reddy at gmail.com> wrote:

> I believe the temporary reversion to the last blocker (dtype=object array
> creation deprecation matter) was merged into NumPy master today, so the
> nightly NumPy wheels that are "blocking" the release should be fixed up by
> sometime on the weekend (I hope). I'll try to proceed with rc2 as soon as
> possible.
>

That reversion isn't all that temporary - it will come back, but in a
different yet-to-be-determined form. It did expose some things we should
clean up in SciPy, but should be fine to ignore for 1.4.0

RC2 soon sounds good!

Cheers,
Ralf



> On Tue, 3 Dec 2019 at 18:01, CJ Carey <perimosocordiae at gmail.com> wrote:
>
>> The scipy.sparse PR is merged.
>>
>> On Mon, Dec 2, 2019 at 9:05 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>> wrote:
>>
>>> I think there are two remaining PRs/issues that could use a boost/review
>>> to get over the line for 1.4.0rc2:
>>>
>>> https://github.com/scipy/scipy/pull/11152 (scipy.stats)
>>> https://github.com/scipy/scipy/pull/11166 (scipy.sparse)
>>>
>>>
>>>
>>> On Fri, 22 Nov 2019 at 16:49, Tyler Reddy <tyler.je.reddy at gmail.com>
>>> wrote:
>>>
>>>> An attempt at building the wheels for the SciPy 1.3.3 release is
>>>> underway:
>>>>
>>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615811782
>>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29063776
>>>>
>>>> If those are successful I will try to get it out soon to address some
>>>> recent
>>>> issues affecting DLL loading and multiprocessing tests.
>>>>
>>>> On Thu, 21 Nov 2019 at 14:01, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>> wrote:
>>>>
>>>>> First attempt at 1.4.0rc1 wheel builds are now underway, with
>>>>> fingers crossed:
>>>>>
>>>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615256054
>>>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29034442
>>>>>
>>>>> On Sun, 17 Nov 2019 at 01:40, Ralf Gommers <ralf.gommers at gmail.com>
>>>>> wrote:
>>>>>
>>>>>>
>>>>>>
>>>>>> On Sat, Nov 16, 2019 at 9:12 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>> wrote:
>>>>>>
>>>>>>> I branched maintenance/1.4.x at ~10 pm Mountain Time on Nov. 16/2019.
>>>>>>>
>>>>>>
>>>>>> Awesome, thanks Tyler!
>>>>>>
>>>>>> Ralf
>>>>>>
>>>>>>
>>>>>>> The SciPy master branch is now open for development of version 1.5.0.
>>>>>>>
>>>>>>> Best wishes,
>>>>>>> Tyler
>>>>>>>
>>>>>>> On Fri, 15 Nov 2019 at 22:38, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>>> wrote:
>>>>>>>
>>>>>>>> Please do take a look at the release notes in preparation for 1.4.0
>>>>>>>> branching:  https://github.com/scipy/scipy/pull/11061
>>>>>>>>
>>>>>>>> The number of pull requests is quite massive (347, I think), so it
>>>>>>>> is a first draft, but I've transcribed the material from the wiki, made a
>>>>>>>> no-doubt-controversial draft of release highlights, and tried to curate
>>>>>>>> author names/mailmap based on the first round of contributor feedback (~144
>>>>>>>> authors vs. 97 for 1.3.0).
>>>>>>>>
>>>>>>>> On Wed, 13 Nov 2019 at 21:28, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>>> wrote:
>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>> On Wed, Nov 13, 2019 at 7:35 PM Tyler Reddy <
>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>
>>>>>>>>>> Alright, shall we aim for a two-day bump on the branching to Nov.
>>>>>>>>>> 16th (Saturday)? I see we're at ~8 PRs with the milestone now, but I also
>>>>>>>>>> still have to work on release notes, etc.
>>>>>>>>>>
>>>>>>>>>
>>>>>>>>> Thanks, that sounds good!
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>
>>>>>>>>>> I'm also expecting one or two surprises to pop up in the wheels
>>>>>>>>>> repo given major release + 3.8.
>>>>>>>>>>
>>>>>>>>>> On Wed, 13 Nov 2019 at 20:21, Ralf Gommers <
>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>
>>>>>>>>>>> Hi Tyler, are you still planning to branch 1.4.x tomorrow? It
>>>>>>>>>>> looks like there's no real blockers, but there's a bunch of stuff that
>>>>>>>>>>> people seem to be scrambling to get in, so perhaps a 24-48 hour bump could
>>>>>>>>>>> be useful.
>>>>>>>>>>>
>>>>>>>>>>> Cheers,
>>>>>>>>>>> Ralf
>>>>>>>>>>>
>>>>>>>>>>>
>>>>>>>>>>> On Tue, Nov 12, 2019 at 8:31 AM Tyler Reddy <
>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>
>>>>>>>>>>>> Down to 12 open PRs with 1.4.0 milestone--getting closer!
>>>>>>>>>>>>
>>>>>>>>>>>> On Sat, 9 Nov 2019 at 21:40, Tyler Reddy <
>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>
>>>>>>>>>>>>> We currently sit at 31 open PRs and 20 open issues with 1.4.0
>>>>>>>>>>>>> milestone.
>>>>>>>>>>>>>
>>>>>>>>>>>>> That's a substantial drop in PRs but a rise in issues since
>>>>>>>>>>>>> the last accounting. Things got
>>>>>>>>>>>>> a little hectic with Python 3.8 for 1.3.2, but hopefully the
>>>>>>>>>>>>> wheels stuff is in good shape
>>>>>>>>>>>>> for 1.4.x series now.
>>>>>>>>>>>>>
>>>>>>>>>>>>> Branching in about 5 days is ambitious, but let's aim to stay
>>>>>>>>>>>>> reasonably on track if possible.
>>>>>>>>>>>>>
>>>>>>>>>>>>> On Mon, 21 Oct 2019 at 13:39, Matt Haberland <
>>>>>>>>>>>>> haberland at ucla.edu> wrote:
>>>>>>>>>>>>>
>>>>>>>>>>>>>> Re: 1.2.3 release, I did get a request in gh-10915
>>>>>>>>>>>>>> <https://github.com/scipy/scipy/issues/10915> for gh-10498
>>>>>>>>>>>>>> <https://github.com/scipy/scipy/pull/10498> to be backported
>>>>>>>>>>>>>> to 1.2.
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> On Mon, Oct 21, 2019 at 8:47 AM Ralf Gommers <
>>>>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> On Sat, Oct 19, 2019 at 12:24 AM Tyler Reddy <
>>>>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> SciPy 1.3.0 was released May 17 (5 months ago), and I think
>>>>>>>>>>>>>>>> we'd like to keep a roughly biannual release cadence.
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> I'd like to propose the following schedule for 1.4.0:
>>>>>>>>>>>>>>>> - November 14: branch 1.4.x
>>>>>>>>>>>>>>>> - November 17: rc1
>>>>>>>>>>>>>>>> - December 1: rc2 (if needed)
>>>>>>>>>>>>>>>> - December 10: final release
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Sounds good to me.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> The arrival of Python 3.8 and simultaneous responsibility
>>>>>>>>>>>>>>>> to get at least one more 1.2.x LTS Python 2.7 release out the door means
>>>>>>>>>>>>>>>> things will probably be busy on the release front until 2020.
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> True. I think supporting 3.8 is fairly high-prio, there's a
>>>>>>>>>>>>>>> lot of demand for it. Doing a 1.3.2 release that supports it would make
>>>>>>>>>>>>>>> sense I guess.
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> There don't seem to be any new commits on the 1.2.x branch
>>>>>>>>>>>>>>> nor urgent Python 2.7 fixes that need to go out. So do we need a 1.2.3
>>>>>>>>>>>>>>> release?
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>>>> Ralf
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> As always, it is a good idea to start tagging things that
>>>>>>>>>>>>>>>> should be in 1.4.0 & please do help with reviewing PRs/issues that are
>>>>>>>>>>>>>>>> tagged--current counts are:
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> - PRs: 40 open with 1.4.0 milestone
>>>>>>>>>>>>>>>> - issues: 17 open with 1.4.0 milestone
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> While helping with that, also great if the release notes
>>>>>>>>>>>>>>>> wiki is updated for appropriate changes:
>>>>>>>>>>>>>>>> https://github.com/scipy/scipy/wiki/Release-note-entries-for-SciPy-1.4.0
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Curating those final notes can be painful if the wiki isn't
>>>>>>>>>>>>>>>> updated.
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Thoughts/objections for the schedule?
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>>> Best wishes,
>>>>>>>>>>>>>>>> Tyler
>>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>>
>>>>>>>>>>>>>> --
>>>>>>>>>>>>>> Matt Haberland
>>>>>>>>>>>>>> Assistant Adjunct Professor in the Program in Computing
>>>>>>>>>>>>>> Department of Mathematics
>>>>>>>>>>>>>> 6617A Math Sciences Building, UCLA
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>
>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>
>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>
>>>>>>>>>> _______________________________________________
>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>
>>>>>>>>> _______________________________________________
>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>
>>>>>>>> _______________________________________________
>>>>>>> SciPy-Dev mailing list
>>>>>>> SciPy-Dev at python.org
>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>
>>>>>> _______________________________________________
>>>>>> SciPy-Dev mailing list
>>>>>> SciPy-Dev at python.org
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>>>>>>
>>>>> _______________________________________________
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From rlucas7 at vt.edu  Sat Dec  7 09:23:35 2019
From: rlucas7 at vt.edu (rlucas7 at vt.edu)
Date: Sat, 7 Dec 2019 09:23:35 -0500
Subject: [SciPy-Dev] Adding logsoftmax function to scipy.special
Message-ID: <56F9F9BD-30C7-4251-84CD-0FC4C66CCFBF@vt.edu>

On Dec 7, 2019, at 12:12 AM, scipy-dev-request at python.org wrote:
> 
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> Today's Topics:
> 
>   1. Re: Adding logsoftmax function to scipy.special (Ralf Gommers)
> 
> 
> ----------------------------------------------------------------------
> 
> Message: 1
> Date: Fri, 6 Dec 2019 20:48:27 -0800
> From: Ralf Gommers <ralf.gommers at gmail.com>
> To: SciPy Developers List <scipy-dev at python.org>
> Subject: Re: [SciPy-Dev] Adding logsoftmax function to scipy.special
> Message-ID:
>    <CABL7CQgCfVnBU1tWKpxcynNnbkn+4kc+JDV3Zz57h9VkrgzAdg at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
> 
>> On Fri, Dec 6, 2019 at 8:43 PM Dominik Sta?czak <stanczakdominik at gmail.com>
>> wrote:
>> 
>> Hey,
>> 
>> your function may not show up if there's an __all__ variable in that
>> module that lists importable functions and you didn't add your function to
>> it. Sphinx goes by that one if it's available.
>> 
>> Not sure that's relevant, but it's likely to be.
>> 
>> Cheers,
>> Dominik
>> 
>>> On Sat, Dec 7, 2019, 05:34 Takuya Koumura <koumura at cycentum.com> wrote:
>>> 
>>> Hi,
>>> 
>>> I implemented log_softmax and I wrote a docstring for it. Can anyone tell
>>> me how to add the function name to the scipy.special index page (
>>> https://docs.scipy.org/doc/scipy/reference/special.html)?  Is it Okay to
>>> directly edit the docstring in special/__init__.py?
>>> 
>> 
> Yes, you need to add your function to __init__.py, right under `softmax`
> looks like the correct place.
> 
> And indeed, as Dominic suggests, you also need to add the function name to
> `__all__` in the file where you added it - `__all__` is a list of all
> public names in each file.
> 
> 
>> I wonder ?.. autosummary::  :toctree: generated/? indicates it was
>>> generated by Sphinx?
>>> 
>> 
> No, that is a directive to tell Sphinx it should take the functions listed
> below it, and generated links and doc pages for those in the html/pdf
> output.
> 
> Cheers,
> Ralf
> 
> 
> 
>> 
>>> Best regards,
>>> Takuya
>>> 
>>> 
>>> 2019?11?18?(?) 17:38 Takuya Koumura <koumura at cycentum.com>:
>>> 
>>>> Hi Ralf, Josh, and all,
>>>> 
>>>> Thank you for your positive comments and raising potential issues.
>>>> 
>>>> Having read Josh?s comment, I conducted several experiments and found
>>>> there indeed is a case where cancellation occurs in my original
>>>> implementation, in which log_softmax(x) = x - logsumexp(x) = x - (m +
>>>> log(sum(exp(x - m)))) where m = max(x).
>>>> 
>>>> Calculating s = x - m first and using it to calculate log_softmax(x) = s
>>>> - logsumexp(s) should decrease the chance of cancellation because it does
>>>> not involve subtraction other than x - m. Note that s is always <=0, so s -
>>>> log(sum(exp(s))) is actually addition of negative values.
>>>> Also, reusing s may be a bit more efficient in computational time.
>>>> 
>>>> Best,
>>>> Takuya
>>>> 
>>>> 
>>>> 2019?11?18?(?) 3:51 Joshua Wilson <josh.craig.wilson at gmail.com>:
>>>> 
>>>>>> I would like to implement logsoftmax(x) as x-logsumexp(x)
>>>>> 
>>>>> The function seems reasonable to add, but I am not so sure about that
>>>>> implementation, as it appears that it could lead to cancellation.
>>>>> Note, for example, that because of the scaling `logsumexp` does to
>>>>> prevent overflow, with that implementation you will end up adding and
>>>>> subtracting the component `x_i` of the largest magnitude when
>>>>> computing the `i`th component of the results array, see e.g.
>>>>> 
>>>>> 
>>>>> https://github.com/scipy/scipy/blob/master/scipy/special/_logsumexp.py#L124
>>>>> 
>>>>> Off the top of my head, it is not obvious to me that situations
>>>>> similar to that will not lead to cancellation errors.
>>>>> 
>>>>> Of course, I might be wrong, but my overall point is that in order to
>>>>> use a particular implementation we should have a reasonable
>>>>> understanding of its theoretical properties, so I would like to see
>>>>> some exploration of that before proceeding.
>>>>> 
>>>>> - Josh

There was a recent paper by Nick Higham?s group in Manchester related to these types of calculations and investigation of stability. 

Not sure if it shows anything about the specific method being discussed here but I?ll pass on the link anyway in case it helps Takuya,

https://arxiv.org/pdf/1909.03469.pdf

IIRC The paper refers to the scipy functions and the shift by max. There are also some computational study to determine stability empirically too. 

Hope that helps. 

>>>>> On Fri, Nov 15, 2019 at 5:17 PM Ralf Gommers <ralf.gommers at gmail.com>
>>>>> wrote:
>>>>>> 
>>>>>> Hi Takuya,
>>>>>> 
>>>>>> 
>>>>>> On Tue, Nov 12, 2019 at 9:05 PM Takuya Koumura <koumura at cycentum.com>
>>>>> wrote:
>>>>>>> 
>>>>>>> Hello,
>>>>>>> 
>>>>>>> I raised a GitHub issue (#11058) and was suggested to post it to
>>>>> scipy-dev.
>>>>>>> 
>>>>>>> I?m considering to send a PR to add logsoftmax function in
>>>>> scipy.special. Before that, I would like to hear your opinion (partly
>>>>> because it?s my first time to send a PR to scipy).
>>>>>> 
>>>>>> 
>>>>>> Welcome! Thanks for proposing that. logsoftmax is fairly popular at
>>>>> least in deep learning, so it makes sense I think, and we already have a
>>>>> bunch of other log* functions in scipy.special.
>>>>>> 
>>>>>> I noticed that both PyTorch and Tensorflow name this function
>>>>> `log_softmax` rather than `logsoftmax`. The latter would be a little more
>>>>> consistent with other functions (although we also have `special.log_ndtr`),
>>>>> while the former is consistent with other implementations of the same
>>>>> functionality. I'd be okay with either, with a slight preference for
>>>>> `log_softmax`.
>>>>>> 
>>>>>>> 
>>>>>>> I would like to implement logsoftmax(x) as x-logsumexp(x). Actually,
>>>>> special.softmax(x) = np.exp(x-logsumexp(x)), so it is trivial for those who
>>>>> read the source code of softmax, but I think including logsoftmax as a
>>>>> separate function will be useful for other users. Logsoftmax is more
>>>>> accurate with inputs that make softmax saturate, eg: When x=[1000, 0],
>>>>> np.log(softmax(x))=[0, -Inf] (maybe depending on the floating point
>>>>> precision), while logsoftmax(x)=[0, -1000].
>>>>>>> 
>>>>>>> I am planning to add the new function at the bottom of
>>>>> special/_logsumexp.py following the softmax function, and add some unit
>>>>> tests in special/test/test_logsumexp.py. If you have comments, I?d
>>>>> appreciate any.
>>>>>> 
>>>>>> 
>>>>>> That seems like a good place.
>>>>>> 
>>>>>> Cheers,
>>>>>> Ralf
>>>>>> 
>>>>>>> 
>>>>>>> Best wishes,
>>>>>>> --
>>>>>>> Takuya KOUMURA
>>>>>>> koumura at cycentum.com
>>>>>>> _______________________________________________
>>>>>>> SciPy-Dev mailing list
>>>>>>> SciPy-Dev at python.org
>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>> 
>>>>>> _______________________________________________
>>>>>> SciPy-Dev mailing list
>>>>>> SciPy-Dev at python.org
>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>> _______________________________________________
>>>>> SciPy-Dev mailing list
>>>>> SciPy-Dev at python.org
>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>> 
>>>> 
>>>> 
>>>> --
>>>> --
>>>> Takuya KOUMURA
>>>> koumura at cycentum.com
>>>> 
>>> 
>>> 
>>> --
>>> --
>>> Takuya KOUMURA
>>> koumura at cycentum.com
>>> _______________________________________________
>>> SciPy-Dev mailing list
>>> SciPy-Dev at python.org
>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>> 
>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>> 
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> ------------------------------
> 
> Message: 2
> Date: Fri, 6 Dec 2019 21:10:36 -0800
> From: Ralf Gommers <ralf.gommers at gmail.com>
> To: SciPy Developers List <scipy-dev at python.org>
> Subject: Re: [SciPy-Dev] Proposed SciPy 1.4.0 Release Schedule
> Message-ID:
>    <CABL7CQiHsuM9r7FcrMO7FsDR7gEScshkyCMt9AjNozkUjypcuQ at mail.gmail.com>
> Content-Type: text/plain; charset="utf-8"
> 
>> On Fri, Dec 6, 2019 at 4:59 PM Tyler Reddy <tyler.je.reddy at gmail.com> wrote:
>> 
>> I believe the temporary reversion to the last blocker (dtype=object array
>> creation deprecation matter) was merged into NumPy master today, so the
>> nightly NumPy wheels that are "blocking" the release should be fixed up by
>> sometime on the weekend (I hope). I'll try to proceed with rc2 as soon as
>> possible.
>> 
> 
> That reversion isn't all that temporary - it will come back, but in a
> different yet-to-be-determined form. It did expose some things we should
> clean up in SciPy, but should be fine to ignore for 1.4.0
> 
> RC2 soon sounds good!
> 
> Cheers,
> Ralf
> 
> 
> 
>>> On Tue, 3 Dec 2019 at 18:01, CJ Carey <perimosocordiae at gmail.com> wrote:
>>> 
>>> The scipy.sparse PR is merged.
>>> 
>>> On Mon, Dec 2, 2019 at 9:05 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>> wrote:
>>> 
>>>> I think there are two remaining PRs/issues that could use a boost/review
>>>> to get over the line for 1.4.0rc2:
>>>> 
>>>> https://github.com/scipy/scipy/pull/11152 (scipy.stats)
>>>> https://github.com/scipy/scipy/pull/11166 (scipy.sparse)
>>>> 
>>>> 
>>>> 
>>>> On Fri, 22 Nov 2019 at 16:49, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>> wrote:
>>>> 
>>>>> An attempt at building the wheels for the SciPy 1.3.3 release is
>>>>> underway:
>>>>> 
>>>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615811782
>>>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29063776
>>>>> 
>>>>> If those are successful I will try to get it out soon to address some
>>>>> recent
>>>>> issues affecting DLL loading and multiprocessing tests.
>>>>> 
>>>>> On Thu, 21 Nov 2019 at 14:01, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>> wrote:
>>>>> 
>>>>>> First attempt at 1.4.0rc1 wheel builds are now underway, with
>>>>>> fingers crossed:
>>>>>> 
>>>>>> https://travis-ci.org/MacPython/scipy-wheels/builds/615256054
>>>>>> https://ci.appveyor.com/project/scipy/scipy-wheels/builds/29034442
>>>>>> 
>>>>>> On Sun, 17 Nov 2019 at 01:40, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>> wrote:
>>>>>> 
>>>>>>> 
>>>>>>> 
>>>>>>> On Sat, Nov 16, 2019 at 9:12 PM Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>>> wrote:
>>>>>>> 
>>>>>>>> I branched maintenance/1.4.x at ~10 pm Mountain Time on Nov. 16/2019.
>>>>>>>> 
>>>>>>> 
>>>>>>> Awesome, thanks Tyler!
>>>>>>> 
>>>>>>> Ralf
>>>>>>> 
>>>>>>> 
>>>>>>>> The SciPy master branch is now open for development of version 1.5.0.
>>>>>>>> 
>>>>>>>> Best wishes,
>>>>>>>> Tyler
>>>>>>>> 
>>>>>>>> On Fri, 15 Nov 2019 at 22:38, Tyler Reddy <tyler.je.reddy at gmail.com>
>>>>>>>> wrote:
>>>>>>>> 
>>>>>>>>> Please do take a look at the release notes in preparation for 1.4.0
>>>>>>>>> branching:  https://github.com/scipy/scipy/pull/11061
>>>>>>>>> 
>>>>>>>>> The number of pull requests is quite massive (347, I think), so it
>>>>>>>>> is a first draft, but I've transcribed the material from the wiki, made a
>>>>>>>>> no-doubt-controversial draft of release highlights, and tried to curate
>>>>>>>>> author names/mailmap based on the first round of contributor feedback (~144
>>>>>>>>> authors vs. 97 for 1.3.0).
>>>>>>>>> 
>>>>>>>>> On Wed, 13 Nov 2019 at 21:28, Ralf Gommers <ralf.gommers at gmail.com>
>>>>>>>>> wrote:
>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>> On Wed, Nov 13, 2019 at 7:35 PM Tyler Reddy <
>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>> 
>>>>>>>>>>> Alright, shall we aim for a two-day bump on the branching to Nov.
>>>>>>>>>>> 16th (Saturday)? I see we're at ~8 PRs with the milestone now, but I also
>>>>>>>>>>> still have to work on release notes, etc.
>>>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>> Thanks, that sounds good!
>>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>> 
>>>>>>>>>>> I'm also expecting one or two surprises to pop up in the wheels
>>>>>>>>>>> repo given major release + 3.8.
>>>>>>>>>>> 
>>>>>>>>>>> On Wed, 13 Nov 2019 at 20:21, Ralf Gommers <
>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>> 
>>>>>>>>>>>> Hi Tyler, are you still planning to branch 1.4.x tomorrow? It
>>>>>>>>>>>> looks like there's no real blockers, but there's a bunch of stuff that
>>>>>>>>>>>> people seem to be scrambling to get in, so perhaps a 24-48 hour bump could
>>>>>>>>>>>> be useful.
>>>>>>>>>>>> 
>>>>>>>>>>>> Cheers,
>>>>>>>>>>>> Ralf
>>>>>>>>>>>> 
>>>>>>>>>>>> 
>>>>>>>>>>>> On Tue, Nov 12, 2019 at 8:31 AM Tyler Reddy <
>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>> 
>>>>>>>>>>>>> Down to 12 open PRs with 1.4.0 milestone--getting closer!
>>>>>>>>>>>>> 
>>>>>>>>>>>>> On Sat, 9 Nov 2019 at 21:40, Tyler Reddy <
>>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>> 
>>>>>>>>>>>>>> We currently sit at 31 open PRs and 20 open issues with 1.4.0
>>>>>>>>>>>>>> milestone.
>>>>>>>>>>>>>> 
>>>>>>>>>>>>>> That's a substantial drop in PRs but a rise in issues since
>>>>>>>>>>>>>> the last accounting. Things got
>>>>>>>>>>>>>> a little hectic with Python 3.8 for 1.3.2, but hopefully the
>>>>>>>>>>>>>> wheels stuff is in good shape
>>>>>>>>>>>>>> for 1.4.x series now.
>>>>>>>>>>>>>> 
>>>>>>>>>>>>>> Branching in about 5 days is ambitious, but let's aim to stay
>>>>>>>>>>>>>> reasonably on track if possible.
>>>>>>>>>>>>>> 
>>>>>>>>>>>>>> On Mon, 21 Oct 2019 at 13:39, Matt Haberland <
>>>>>>>>>>>>>> haberland at ucla.edu> wrote:
>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>> Re: 1.2.3 release, I did get a request in gh-10915
>>>>>>>>>>>>>>> <https://github.com/scipy/scipy/issues/10915> for gh-10498
>>>>>>>>>>>>>>> <https://github.com/scipy/scipy/pull/10498> to be backported
>>>>>>>>>>>>>>> to 1.2.
>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>> On Mon, Oct 21, 2019 at 8:47 AM Ralf Gommers <
>>>>>>>>>>>>>>> ralf.gommers at gmail.com> wrote:
>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> On Sat, Oct 19, 2019 at 12:24 AM Tyler Reddy <
>>>>>>>>>>>>>>>> tyler.je.reddy at gmail.com> wrote:
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> Hi,
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> SciPy 1.3.0 was released May 17 (5 months ago), and I think
>>>>>>>>>>>>>>>>> we'd like to keep a roughly biannual release cadence.
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> I'd like to propose the following schedule for 1.4.0:
>>>>>>>>>>>>>>>>> - November 14: branch 1.4.x
>>>>>>>>>>>>>>>>> - November 17: rc1
>>>>>>>>>>>>>>>>> - December 1: rc2 (if needed)
>>>>>>>>>>>>>>>>> - December 10: final release
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> Sounds good to me.
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> The arrival of Python 3.8 and simultaneous responsibility
>>>>>>>>>>>>>>>>> to get at least one more 1.2.x LTS Python 2.7 release out the door means
>>>>>>>>>>>>>>>>> things will probably be busy on the release front until 2020.
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> True. I think supporting 3.8 is fairly high-prio, there's a
>>>>>>>>>>>>>>>> lot of demand for it. Doing a 1.3.2 release that supports it would make
>>>>>>>>>>>>>>>> sense I guess.
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> There don't seem to be any new commits on the 1.2.x branch
>>>>>>>>>>>>>>>> nor urgent Python 2.7 fixes that need to go out. So do we need a 1.2.3
>>>>>>>>>>>>>>>> release?
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> Cheers,
>>>>>>>>>>>>>>>> Ralf
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> As always, it is a good idea to start tagging things that
>>>>>>>>>>>>>>>>> should be in 1.4.0 & please do help with reviewing PRs/issues that are
>>>>>>>>>>>>>>>>> tagged--current counts are:
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> - PRs: 40 open with 1.4.0 milestone
>>>>>>>>>>>>>>>>> - issues: 17 open with 1.4.0 milestone
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> While helping with that, also great if the release notes
>>>>>>>>>>>>>>>>> wiki is updated for appropriate changes:
>>>>>>>>>>>>>>>>> https://github.com/scipy/scipy/wiki/Release-note-entries-for-SciPy-1.4.0
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> Curating those final notes can be painful if the wiki isn't
>>>>>>>>>>>>>>>>> updated.
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> Thoughts/objections for the schedule?
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>>> Best wishes,
>>>>>>>>>>>>>>>>> Tyler
>>>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>>> --
>>>>>>>>>>>>>>> Matt Haberland
>>>>>>>>>>>>>>> Assistant Adjunct Professor in the Program in Computing
>>>>>>>>>>>>>>> Department of Mathematics
>>>>>>>>>>>>>>> 6617A Math Sciences Building, UCLA
>>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>>>> 
>>>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>>> 
>>>>>>>>>>>> _______________________________________________
>>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>>> 
>>>>>>>>>>> _______________________________________________
>>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>>> 
>>>>>>>>>> _______________________________________________
>>>>>>>>>> SciPy-Dev mailing list
>>>>>>>>>> SciPy-Dev at python.org
>>>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>>>> 
>>>>>>>>> _______________________________________________
>>>>>>>> SciPy-Dev mailing list
>>>>>>>> SciPy-Dev at python.org
>>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>>> 
>>>>>>> _______________________________________________
>>>>>>> SciPy-Dev mailing list
>>>>>>> SciPy-Dev at python.org
>>>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>>> 
>>>>>> _______________________________________________
>>>> SciPy-Dev mailing list
>>>> SciPy-Dev at python.org
>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>> 
>>> _______________________________________________
>>> SciPy-Dev mailing list
>>> SciPy-Dev at python.org
>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>> 
>> _______________________________________________
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>> SciPy-Dev at python.org
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From koumura at cycentum.com  Sat Dec  7 11:58:33 2019
From: koumura at cycentum.com (Takuya Koumura)
Date: Sun, 8 Dec 2019 01:58:33 +0900
Subject: [SciPy-Dev] Adding logsoftmax function to scipy.special
In-Reply-To: <CABL7CQgCfVnBU1tWKpxcynNnbkn+4kc+JDV3Zz57h9VkrgzAdg@mail.gmail.com>
References: <CADz60t01kY1So9FjSRbWBAiBfPVuu6aRiNxr2W0JHi9juPeRnQ@mail.gmail.com>
 <CABL7CQh9MJH8=QmroERcOvgz_TmuueC5oNUZKT9LBV2Aah0Oyw@mail.gmail.com>
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 <CADz60t3qbYeeJqRa_hqh5+w5Xyvoa0TnBXf2nD9J9UdL=d=10g@mail.gmail.com>
 <CADz60t1-QySj3Dhgv4Oy6HM5tRY6SXFLoq4BgCFgx9w4cyWwWw@mail.gmail.com>
 <CALqoO-7yb63hFQZy2vV5Smo=qe+HtiPe9WThZH9GUJi=1kmqvw@mail.gmail.com>
 <CABL7CQgCfVnBU1tWKpxcynNnbkn+4kc+JDV3Zz57h9VkrgzAdg@mail.gmail.com>
Message-ID: <CADz60t0y371RjeAmqSLZ7D+RPg+Zb8b_TqhSEKf=ztQT0yLqVQ@mail.gmail.com>

Hi Dominik and Ralf,

Thank you for your prompt response.
I got it!

Best,
Takuya

2019?12?7?(?) 13:48 Ralf Gommers <ralf.gommers at gmail.com>:

>
>
> On Fri, Dec 6, 2019 at 8:43 PM Dominik Sta?czak <stanczakdominik at gmail.com>
> wrote:
>
>> Hey,
>>
>> your function may not show up if there's an __all__ variable in that
>> module that lists importable functions and you didn't add your function to
>> it. Sphinx goes by that one if it's available.
>>
>> Not sure that's relevant, but it's likely to be.
>>
>> Cheers,
>> Dominik
>>
>> On Sat, Dec 7, 2019, 05:34 Takuya Koumura <koumura at cycentum.com> wrote:
>>
>>> Hi,
>>>
>>> I implemented log_softmax and I wrote a docstring for it. Can anyone
>>> tell me how to add the function name to the scipy.special index page (
>>> https://docs.scipy.org/doc/scipy/reference/special.html)?  Is it Okay
>>> to directly edit the docstring in special/__init__.py?
>>>
>>
> Yes, you need to add your function to __init__.py, right under `softmax`
> looks like the correct place.
>
> And indeed, as Dominic suggests, you also need to add the function name to
> `__all__` in the file where you added it - `__all__` is a list of all
> public names in each file.
>
>
>> I wonder ?.. autosummary::  :toctree: generated/? indicates it was
>>> generated by Sphinx?
>>>
>>
> No, that is a directive to tell Sphinx it should take the functions listed
> below it, and generated links and doc pages for those in the html/pdf
> output.
>
> Cheers,
> Ralf
>
>
>
>>
>>> Best regards,
>>> Takuya
>>>
>>>
>>> 2019?11?18?(?) 17:38 Takuya Koumura <koumura at cycentum.com>:
>>>
>>>> Hi Ralf, Josh, and all,
>>>>
>>>> Thank you for your positive comments and raising potential issues.
>>>>
>>>> Having read Josh?s comment, I conducted several experiments and found
>>>> there indeed is a case where cancellation occurs in my original
>>>> implementation, in which log_softmax(x) = x - logsumexp(x) = x - (m +
>>>> log(sum(exp(x - m)))) where m = max(x).
>>>>
>>>> Calculating s = x - m first and using it to calculate log_softmax(x) =
>>>> s - logsumexp(s) should decrease the chance of cancellation because it does
>>>> not involve subtraction other than x - m. Note that s is always <=0, so s -
>>>> log(sum(exp(s))) is actually addition of negative values.
>>>> Also, reusing s may be a bit more efficient in computational time.
>>>>
>>>> Best,
>>>> Takuya
>>>>
>>>>
>>>> 2019?11?18?(?) 3:51 Joshua Wilson <josh.craig.wilson at gmail.com>:
>>>>
>>>>> > I would like to implement logsoftmax(x) as x-logsumexp(x)
>>>>>
>>>>> The function seems reasonable to add, but I am not so sure about that
>>>>> implementation, as it appears that it could lead to cancellation.
>>>>> Note, for example, that because of the scaling `logsumexp` does to
>>>>> prevent overflow, with that implementation you will end up adding and
>>>>> subtracting the component `x_i` of the largest magnitude when
>>>>> computing the `i`th component of the results array, see e.g.
>>>>>
>>>>>
>>>>> https://github.com/scipy/scipy/blob/master/scipy/special/_logsumexp.py#L124
>>>>>
>>>>> Off the top of my head, it is not obvious to me that situations
>>>>> similar to that will not lead to cancellation errors.
>>>>>
>>>>> Of course, I might be wrong, but my overall point is that in order to
>>>>> use a particular implementation we should have a reasonable
>>>>> understanding of its theoretical properties, so I would like to see
>>>>> some exploration of that before proceeding.
>>>>>
>>>>> - Josh
>>>>>
>>>>> On Fri, Nov 15, 2019 at 5:17 PM Ralf Gommers <ralf.gommers at gmail.com>
>>>>> wrote:
>>>>> >
>>>>> > Hi Takuya,
>>>>> >
>>>>> >
>>>>> > On Tue, Nov 12, 2019 at 9:05 PM Takuya Koumura <koumura at cycentum.com>
>>>>> wrote:
>>>>> >>
>>>>> >> Hello,
>>>>> >>
>>>>> >> I raised a GitHub issue (#11058) and was suggested to post it to
>>>>> scipy-dev.
>>>>> >>
>>>>> >> I?m considering to send a PR to add logsoftmax function in
>>>>> scipy.special. Before that, I would like to hear your opinion (partly
>>>>> because it?s my first time to send a PR to scipy).
>>>>> >
>>>>> >
>>>>> > Welcome! Thanks for proposing that. logsoftmax is fairly popular at
>>>>> least in deep learning, so it makes sense I think, and we already have a
>>>>> bunch of other log* functions in scipy.special.
>>>>> >
>>>>> > I noticed that both PyTorch and Tensorflow name this function
>>>>> `log_softmax` rather than `logsoftmax`. The latter would be a little more
>>>>> consistent with other functions (although we also have `special.log_ndtr`),
>>>>> while the former is consistent with other implementations of the same
>>>>> functionality. I'd be okay with either, with a slight preference for
>>>>> `log_softmax`.
>>>>> >
>>>>> >>
>>>>> >> I would like to implement logsoftmax(x) as x-logsumexp(x).
>>>>> Actually, special.softmax(x) = np.exp(x-logsumexp(x)), so it is trivial for
>>>>> those who read the source code of softmax, but I think including logsoftmax
>>>>> as a separate function will be useful for other users. Logsoftmax is more
>>>>> accurate with inputs that make softmax saturate, eg: When x=[1000, 0],
>>>>> np.log(softmax(x))=[0, -Inf] (maybe depending on the floating point
>>>>> precision), while logsoftmax(x)=[0, -1000].
>>>>> >>
>>>>> >> I am planning to add the new function at the bottom of
>>>>> special/_logsumexp.py following the softmax function, and add some unit
>>>>> tests in special/test/test_logsumexp.py. If you have comments, I?d
>>>>> appreciate any.
>>>>> >
>>>>> >
>>>>> > That seems like a good place.
>>>>> >
>>>>> > Cheers,
>>>>> > Ralf
>>>>> >
>>>>> >>
>>>>> >> Best wishes,
>>>>> >> --
>>>>> >> Takuya KOUMURA
>>>>> >> koumura at cycentum.com
>>>>> >> _______________________________________________
>>>>> >> SciPy-Dev mailing list
>>>>> >> SciPy-Dev at python.org
>>>>> >> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>> >
>>>>> > _______________________________________________
>>>>> > SciPy-Dev mailing list
>>>>> > SciPy-Dev at python.org
>>>>> > https://mail.python.org/mailman/listinfo/scipy-dev
>>>>> _______________________________________________
>>>>> SciPy-Dev mailing list
>>>>> SciPy-Dev at python.org
>>>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>>>
>>>>
>>>>
>>>> --
>>>> --
>>>> Takuya KOUMURA
>>>> koumura at cycentum.com
>>>>
>>>
>>>
>>> --
>>> --
>>> Takuya KOUMURA
>>> koumura at cycentum.com
>>> _______________________________________________
>>> SciPy-Dev mailing list
>>> SciPy-Dev at python.org
>>> https://mail.python.org/mailman/listinfo/scipy-dev
>>>
>> _______________________________________________
>> SciPy-Dev mailing list
>> SciPy-Dev at python.org
>> https://mail.python.org/mailman/listinfo/scipy-dev
>>
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>


-- 
--
Takuya KOUMURA
koumura at cycentum.com
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From tyler.je.reddy at gmail.com  Sun Dec  8 15:53:51 2019
From: tyler.je.reddy at gmail.com (Tyler Reddy)
Date: Sun, 8 Dec 2019 13:53:51 -0700
Subject: [SciPy-Dev] ANN: SciPy 1.4.0rc2 -- please test
Message-ID: <CAHPuU_aVbqUwUrwByJnFGfCfPTXbzbUEHbTygm8Q=eesiXRj4A@mail.gmail.com>

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Hi all,

On behalf of the SciPy development team I'm pleased to announce
the release candidate SciPy 1.4.0rc2. 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/v1.4.0rc2

One of a few ways to install the release candidate with pip:

pip install scipy==1.4.0rc2

==========================
SciPy 1.4.0 Release Notes
==========================

Note: Scipy 1.4.0 is not released yet!

SciPy 1.4.0 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
1.4.x branch, and on adding new features on the master branch.

This release requires Python 3.5+ and NumPy >=1.13.3 (for Python 3.5, 3.6),
>=1.14.5 (for Python 3.7), >= 1.17.3 (for Python 3.8)

For running on PyPy, PyPy3 6.0+ and NumPy 1.15.0 are required.

Highlights of this release
-----------------------------------

- a new submodule, `scipy.fft`, now supersedes `scipy.fftpack`; this
  means support for ``long double`` transforms, faster multi-dimensional
  transforms, improved algorithm time complexity, release of the global
  intepreter lock, and control over threading behavior
- support for ``pydata/sparse`` arrays in `scipy.sparse.linalg`
- substantial improvement to the documentation and functionality of
  several `scipy.special` functions, and some new additions
- the generalized inverse Gaussian distribution has been added to
  `scipy.stats`
- an implementation of the Edmonds-Karp algorithm in
  `scipy.sparse.csgraph.maximum_flow`
- `scipy.spatial.SphericalVoronoi` now supports n-dimensional input,
   has linear memory complexity, improved performance, and
   supports single-hemisphere generators


New features
============

Infrastructure
--------------------
Documentation can now be built with ``runtests.py --doc``

A ``Dockerfile`` is now available in the ``scipy/scipy-dev`` repository to
facilitate getting started with SciPy development.

`scipy.constants` improvements
----------------------------------------------
`scipy.constants` has been updated with the CODATA 2018 constants.


`scipy.fft` added
-----------------------
`scipy.fft` is a new submodule that supersedes the `scipy.fftpack`
submodule.
For the most part, this is a drop-in replacement for ``numpy.fft`` and
`scipy.fftpack` alike. With some important differences, `scipy.fft`:
- uses NumPy's conventions for real transforms (``rfft``). This means the
return value is a complex array, half the size of the full ``fft`` output.
This is different from the output of ``fftpack`` which returned a real
array
representing complex components packed together.
- the inverse real to real transforms (``idct`` and ``idst``) are
normalized
for ``norm=None`` in thesame way as ``ifft``. This means the identity
``idct(dct(x)) == x`` is now ``True`` for all norm modes.
- does not include the convolutions or pseudo-differential operators
from ``fftpack``.

This submodule is based on the ``pypocketfft`` library, developed by the
author of ``pocketfft`` which was recently adopted by NumPy as well.
``pypocketfft`` offers a number of advantages over fortran ``FFTPACK``:
- support for long double (``np.longfloat``) precision transforms.
- faster multi-dimensional transforms using vectorisation
- Bluestein?s algorithm removes the worst-case ``O(n^2)`` complexity of
``FFTPACK``
- the global interpreter lock (``GIL``) is released during transforms
- optional multithreading of multi-dimensional transforms via the
``workers``
argument

Note that `scipy.fftpack` has not been deprecated and will continue to be
maintained but is now considered legacy. New code is recommended to use
`scipy.fft` instead, where possible.

`scipy.fftpack` improvements
----------------------------------------
`scipy.fftpack` now uses pypocketfft to perform its FFTs, offering the same
speed and accuracy benefits listed for scipy.fft above but without the
improved API.

`scipy.integrate` improvements
-------------------------------------------

The function `scipy.integrate.solve_ivp` now has an ``args`` argument.
This allows the user-defined functions passed to the function to have
additional parameters without having to create wrapper functions or
lambda expressions for them.

`scipy.integrate.solve_ivp` can now return a ``y_events`` attribute
representing the solution of the ODE at event times

New ``OdeSolver`` is implemented --- ``DOP853``. This is a high-order
explicit
Runge-Kutta method originally implemented in Fortran. Now we provide a pure
Python implementation usable through ``solve_ivp`` with all its features.

`scipy.integrate.quad` provides better user feedback when break points are
specified with a weighted integrand.

`scipy.integrate.quad_vec` is now available for general purpose integration
of vector-valued functions


`scipy.interpolate` improvements
--------------------------------------------
`scipy.interpolate.pade` now handles complex input data gracefully

`scipy.interpolate.Rbf` can now interpolate multi-dimensional functions

`scipy.io` improvements
---------------------------------

`scipy.io.wavfile.read` can now read data from a `WAV` file that has a
malformed header, similar to other modern `WAV` file parsers

`scipy.io.FortranFile` now has an expanded set of available ``Exception``
classes for handling poorly-formatted files


`scipy.linalg` improvements
--------------------------------------
The function ``scipy.linalg.subspace_angles(A, B)`` now gives correct
results for complex-valued matrices. Before this, the function only returned
correct values for real-valued matrices.

New boolean keyword argument ``check_finite`` for `scipy.linalg.norm`;
whether
to check that the input matrix contains only finite numbers. Disabling may
give a performance gain, but may result in problems (crashes,
non-termination)
if the inputs do contain infinities or NaNs.

`scipy.linalg.solve_triangular` has improved performance for a C-ordered
triangular matrix

``LAPACK`` wrappers have been added for ``?geequ``, ``?geequb``,
``?syequb``,
and ``?heequb``

Some performance improvements may be observed due to an internal
optimization
in operations involving LAPACK routines via ``_compute_lwork``. This is
particularly true for operations on small arrays.

Block ``QR`` wrappers are now available in `scipy.linalg.lapack`


`scipy.ndimage` improvements
------------------------------------------


`scipy.optimize` improvements
------------------------------------------
It is now possible to use linear and non-linear constraints with
`scipy.optimize.differential_evolution`.

`scipy.optimize.linear_sum_assignment` has been re-written in C++ to
improve
performance, and now allows input costs to be infinite.

A ``ScalarFunction.fun_and_grad`` method was added for convenient
simultaneous
retrieval of a function and gradient evaluation

`scipy.optimize.minimize` ``BFGS`` method has improved performance by
avoiding
duplicate evaluations in some cases

Better user feedback is provided when an objective function returns an array
instead of a scalar.


`scipy.signal` improvements
---------------------------------------

Added a new function to calculate convolution using the overlap-add method,
named `scipy.signal.oaconvolve`. Like `scipy.signal.fftconvolve`, this
function supports specifying dimensions along which to do the convolution.

`scipy.signal.cwt` now supports complex wavelets.

The implementation of ``choose_conv_method`` has been updated to reflect
the
new FFT implementation. In addition, the performance has been significantly
improved (with rather drastic improvements in edge cases).

The function ``upfirdn`` now has a ``mode`` keyword argument that can be
used
to select the signal extension mode used at the signal boundaries. These
modes
are also available for use in ``resample_poly`` via a newly added
``padtype``
argument.

`scipy.signal.sosfilt` now benefits from Cython code for improved
performance

`scipy.signal.resample` should be more efficient by leveraging ``rfft`` when
possible

`scipy.sparse` improvements
----------------------------------------
It is now possible to use the LOBPCG method in `scipy.sparse.linalg.svds`.

`scipy.sparse.linalg.LinearOperator` now supports the operation ``rmatmat``
for adjoint matrix-matrix multiplication, in addition to ``rmatvec``.

Multiple stability updates enable float32 support in the LOBPCG eigenvalue
solver for symmetric and Hermitian eigenvalues problems in
``scipy.sparse.linalg.lobpcg``.

A solver for the maximum flow problem has been added as
`scipy.sparse.csgraph.maximum_flow`.

`scipy.sparse.csgraph.maximum_bipartite_matching` now allows non-square
inputs,
no longer requires a perfect matching to exist, and has improved
performance.

`scipy.sparse.lil_matrix` conversions now perform better in some scenarios

Basic support is available for ``pydata/sparse`` arrays in
`scipy.sparse.linalg`

`scipy.sparse.linalg.spsolve_triangular` now supports the ``unit_diagonal``
argument to improve call signature similarity with its dense counterpart,
`scipy.linalg.solve_triangular`

``assertAlmostEqual`` may now be used with sparse matrices, which have added
support for ``__round__``

`scipy.spatial` improvements
--------------------------------------
The bundled Qhull library was upgraded to version 2019.1, fixing several
issues. Scipy-specific patches are no longer applied to it.

`scipy.spatial.SphericalVoronoi` now has linear memory complexity, improved
performance, and supports single-hemisphere generators. Support has also
been
added for handling generators that lie on a great circle arc (geodesic
input)
and for generators in n-dimensions.

`scipy.spatial.transform.Rotation` now includes functions for calculation
of a
mean rotation, generation of the 3D rotation groups, and reduction of
rotations
with rotational symmetries.

`scipy.spatial.transform.Slerp` is now callable with a scalar argument

`scipy.spatial.voronoi_plot_2d` now supports furthest site Voronoi diagrams

`scipy.spatial.Delaunay` and `scipy.spatial.Voronoi` now have attributes
for tracking whether they are furthest site diagrams

`scipy.special` improvements
---------------------------------------
The Voigt profile has been added as `scipy.special.voigt_profile`.

A real dispatch has been added for the Wright Omega function
(`scipy.special.wrightomega`).

The analytic continuation of the Riemann zeta function has been added. (The
Riemann zeta function is the one-argument variant of `scipy.special.zeta`.)

The complete elliptic integral of the first kind (`scipy.special.ellipk`)
is
now available in `scipy.special.cython_special`.

The accuracy of `scipy.special.hyp1f1` for real arguments has been improved.

The documentation of many functions has been improved.

`scipy.stats` improvements
-------------------------------------
`scipy.stats.multiscale_graphcorr` added as an independence test that
operates on high dimensional and nonlinear data sets. It has higher
statistical
power than other `scipy.stats` tests while being the only one that operates
on
multivariate data.

The generalized inverse Gaussian distribution (`scipy.stats.geninvgauss`)
has
been added.

It is now possible to efficiently reuse `scipy.stats.binned_statistic_dd`
with new values by providing the result of a previous call to the function.

`scipy.stats.hmean` now handles input with zeros more gracefully.

The beta-binomial distribution is now available in `scipy.stats.betabinom`.

`scipy.stats.zscore`, `scipy.stats.circmean`, `scipy.stats.circstd`, and
`scipy.stats.circvar` now support the ``nan_policy`` argument for enhanced
handling of ``NaN`` values

`scipy.stats.entropy` now accepts an ``axis`` argument

`scipy.stats.gaussian_kde.resample` now accepts a ``seed`` argument to
empower
reproducibility

`scipy.stats.kendalltau` performance has improved, especially for large
inputs,
due to improved cache usage

`scipy.stats.truncnorm` distribution has been rewritten to support much
wider
tails


Deprecated features
===================

`scipy` deprecations
----------------------------
Support for NumPy functions exposed via the root SciPy namespace is
deprecated
and will be removed in 2.0.0. For example, if you use ``scipy.rand`` or
``scipy.diag``, you should change your code to directly use
``numpy.random.default_rng`` or ``numpy.diag``, respectively.
They remain available in the currently continuing Scipy 1.x release series.

The exception to this rule is using ``scipy.fft`` as a function --
:mod:`scipy.fft` is now meant to be used only as a module, so the ability to
call ``scipy.fft(...)`` will be removed in SciPy 1.5.0.

In `scipy.spatial.Rotation` methods ``from_dcm``, ``as_dcm`` were renamed
to
``from_matrix``, ``as_matrix`` respectively. The old names will be removed
in
SciPy 1.6.0.

Method ``Rotation.match_vectors`` was deprecated in favor of
``Rotation.align_vectors``, which provides a more logical and
general API to the same functionality. The old method
will be removed in SciPy 1.6.0.

Backwards incompatible changes
==============================

`scipy.special` changes
--------------------------------
The deprecated functions ``hyp2f0``, ``hyp1f2``, and ``hyp3f0`` have been
removed.

The deprecated function ``bessel_diff_formula`` has been removed.

The function ``i0`` is no longer registered with ``numpy.dual``, so that
``numpy.dual.i0`` will unconditionally refer to the NumPy version
regardless
of whether `scipy.special` is imported.

The function ``expn`` has been changed to return ``nan`` outside of its
domain of definition (``x, n < 0``) instead of ``inf``.

`scipy.sparse` changes
--------------------------------
Sparse matrix reshape now raises an error if shape is not two-dimensional,
rather than guessing what was meant. The behavior is now the same as before
SciPy 1.1.0.

``CSR`` and ``CSC`` sparse matrix classes should now return empty matrices
of the same type when indexed out of bounds. Previously, for some versions
of SciPy, this would raise an ``IndexError``. The change is largely
motivated
by greater consistency with ``ndarray`` and ``numpy.matrix`` semantics.

`scipy.signal` changes
------------------------------
`scipy.signal.resample` behavior for length-1 signal inputs has been
fixed to output a constant (DC) value rather than an impulse, consistent
with
the assumption of signal periodicity in the FFT method.

`scipy.signal.cwt` now performs complex conjugation and time-reversal of
wavelet data, which is a backwards-incompatible bugfix for
time-asymmetric wavelets.

`scipy.stats` changes
-----------------------------
`scipy.stats.loguniform` added with better documentation as (an alias for
``scipy.stats.reciprocal``). ``loguniform`` generates random variables
that are equally likely in the log space; e.g., ``1``, ``10`` and ``100``
are all equally likely if ``loguniform(10 ** 0, 10 ** 2).rvs()`` is used.


Other changes
=============
The ``LSODA`` method of `scipy.integrate.solve_ivp` now correctly detects
stiff
problems.

`scipy.spatial.cKDTree` now accepts and correctly handles empty input data

`scipy.stats.binned_statistic_dd` now calculates the standard deviation
statistic in a numerically stable way.

`scipy.stats.binned_statistic_dd` now throws an error if the input data
contains either ``np.nan`` or ``np.inf``. Similarly, in `scipy.stats` now
all
continuous distributions' ``.fit()`` methods throw an error if the input
data
contain any instance of either ``np.nan`` or ``np.inf``.


Authors
=======

* @endolith
* @wenhui-prudencemed +
* Abhinav +
* Anne Archibald
* ashwinpathak20nov1996 +
* Danilo Augusto +
* Nelson Auner +
* aypiggott +
* Christoph Baumgarten
* Peter Bell
* Sebastian Berg
* Arman Bilge +
* Benedikt Boecking +
* Christoph Boeddeker +
* Daniel Bunting
* Evgeni Burovski
* Angeline Burrell +
* Angeline G. Burrell +
* CJ Carey
* Carlos Ramos Carre?o +
* Mak Sze Chun +
* Malayaja Chutani +
* Christian Clauss +
* Jonathan Conroy +
* Stephen P Cook +
* Dylan Cutler +
* Anirudh Dagar +
* Aidan Dang +
* dankleeman +
* Brandon David +
* Tyler Dawson +
* Dieter Werthm?ller
* Joe Driscoll +
* Jakub Dyczek +
* D?vid Bodn?r
* Fletcher Easton +
* Stefan Endres
* etienne +
* Johann Faouzi
* Yu Feng
* Isuru Fernando +
* Matthew H Flamm
* Martin Gauch +
* Gabriel Gerlero +
* Ralf Gommers
* Chris Gorgolewski +
* Domen Gorjup +
* Edouard Goudenhoofdt +
* Jan Gwinner +
* Maja Gwozdz +
* Matt Haberland
* hadshirt +
* Pierre Haessig +
* David Hagen
* Charles Harris
* Gina Helfrich +
* Alex Henrie +
* Francisco J. Hernandez Heras +
* Andreas Hilboll
* Lindsey Hiltner
* Thomas Hisch
* Min ho Kim +
* Gert-Ludwig Ingold
* jakobjakobson13 +
* Todd Jennings
* He Jia
* Muhammad Firmansyah Kasim +
* Andrew Knyazev +
* Holger Kohr +
* Mateusz Konieczny +
* Krzysztof Pi?ro +
* Philipp Lang +
* Peter Mahler Larsen +
* Eric Larson
* Antony Lee
* Gregory R. Lee
* Chelsea Liu +
* Jesse Livezey
* Peter Lysakovski +
* Jason Manley +
* Michael Marien +
* Nikolay Mayorov
* G. D. McBain +
* Sam McCormack +
* Melissa Weber Mendon?a +
* Kevin Michel +
* mikeWShef +
* Sturla Molden
* Eric Moore
* Peyton Murray +
* Andrew Nelson
* Clement Ng +
* Juan Nunez-Iglesias
* Renee Otten +
* Kellie Ottoboni +
* Ayappan P
* Sambit Panda +
* Tapasweni Pathak +
* Oleksandr Pavlyk
* Fabian Pedregosa
* Petar Mlinari?
* Matti Picus
* Marcel Plch +
* Christoph Pohl +
* Ilhan Polat
* Siddhesh Poyarekar +
* Ioannis Prapas +
* James Alan Preiss +
* Yisheng Qiu +
* Eric Quintero
* Bharat Raghunathan +
* Tyler Reddy
* Joscha Reimer
* Antonio Horta Ribeiro
* Lucas Roberts
* rtshort +
* Josua Sassen
* Kevin Sheppard
* Scott Sievert
* Leo Singer
* Kai Striega
* S?ren Fuglede J?rgensen
* tborisow +
* ?tienne Tremblay +
* tuxcell +
* Miguel de Val-Borro
* Andrew Valentine +
* Hugo van Kemenade
* Paul van Mulbregt
* Sebastiano Vigna
* Pauli Virtanen
* Dany Vohl +
* Ben Walsh +
* Huize Wang +
* Warren Weckesser
* Anreas Weh +
* Joseph Weston +
* Adrian Wijaya +
* Timothy Willard +
* Josh Wilson
* Kentaro Yamamoto +
* Dave Zbarsky +

A total of 142 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 1.4.0
--------------------------------

* `#1255 <https://github.com/scipy/scipy/issues/1255>`__: maxiter broken
for Scipy.sparse.linalg gmres, in addition to...
* `#1301 <https://github.com/scipy/scipy/issues/1301>`__: consolidate
multipack.h from interpolate and integrate packages...
* `#1739 <https://github.com/scipy/scipy/issues/1739>`__: Single precision
FFT insufficiently accurate. (Trac #1212)
* `#1795 <https://github.com/scipy/scipy/issues/1795>`__: stats
test_distributions.py: replace old fuzz tests (Trac #1269)
* `#2233 <https://github.com/scipy/scipy/issues/2233>`__: fftpack segfault
with big arrays (Trac #1714)
* `#2434 <https://github.com/scipy/scipy/issues/2434>`__: rmatmat and the
sophistication of linear operator objects
* `#2477 <https://github.com/scipy/scipy/issues/2477>`__:
stats.truncnorm.rvs() does not give symmetric results for negative...
* `#2629 <https://github.com/scipy/scipy/issues/2629>`__: FFTpack is
unacceptably slow on non power of 2
* `#2883 <https://github.com/scipy/scipy/issues/2883>`__: UnboundLocalError
in scipy.interpolate.splrep
* `#2956 <https://github.com/scipy/scipy/issues/2956>`__: Feature Request:
axis argument for stats.entropy function
* `#3528 <https://github.com/scipy/scipy/issues/3528>`__: Segfault on
test_djbfft (possibly MKL-related?)
* `#3793 <https://github.com/scipy/scipy/issues/3793>`__: cwt should also
return complex array
* `#4464 <https://github.com/scipy/scipy/issues/4464>`__: TST:
residue/residuez/invres/invresz don't have any tests
* `#4561 <https://github.com/scipy/scipy/issues/4561>`__: BUG: tf filter
trailing and leading zeros in residuez
* `#4669 <https://github.com/scipy/scipy/issues/4669>`__: Rewrite sosfilt
to make a single loop over the input?
* `#5040 <https://github.com/scipy/scipy/issues/5040>`__: BUG: Empty data
handling of (c)KDTrees
* `#5112 <https://github.com/scipy/scipy/issues/5112>`__: boxcox transform
edge cases could use more care
* `#5441 <https://github.com/scipy/scipy/issues/5441>`__: scipy.stats.ncx2
fails for nc=0
* `#5502 <https://github.com/scipy/scipy/issues/5502>`__: args keyword not
handled in optimize.curve_fit
* `#6484 <https://github.com/scipy/scipy/issues/6484>`__: Qhull
segmentation fault
* `#6900 <https://github.com/scipy/scipy/issues/6900>`__:
linear_sum_assignment with infinite weights
* `#6966 <https://github.com/scipy/scipy/issues/6966>`__: Hypergeometric
Functions documentation is lacking
* `#6999 <https://github.com/scipy/scipy/issues/6999>`__: possible false
positive corruption check in compressed loadmat()
* `#7018 <https://github.com/scipy/scipy/issues/7018>`__: ydata that needs
broadcasting renders curve_fit unable to compute...
* `#7140 <https://github.com/scipy/scipy/issues/7140>`__: trouble with
documentation for windows
* `#7327 <https://github.com/scipy/scipy/issues/7327>`__:
interpolate.ndgriddata.griddata causes Python to crash rather...
* `#7396 <https://github.com/scipy/scipy/issues/7396>`__:
MatrixLinearOperator implements _adjoint(), but not _transpose()
* `#7400 <https://github.com/scipy/scipy/issues/7400>`__: BUG(?): special:
factorial and factorial2 return a 0-dimensional...
* `#7434 <https://github.com/scipy/scipy/issues/7434>`__: Testing of
scipy.stats continuous distributions misses 25 distributions
* `#7491 <https://github.com/scipy/scipy/issues/7491>`__: Several
scipy.stats distributions (fisk, burr, burr12, f) return...
* `#7759 <https://github.com/scipy/scipy/issues/7759>`__: Overflow in
stats.kruskal for large samples
* `#7906 <https://github.com/scipy/scipy/issues/7906>`__: Wrong result from
scipy.interpolate.UnivariateSpline.integral...
* `#8165 <https://github.com/scipy/scipy/issues/8165>`__: ENH: match
functionality of R for hmean
* `#8417 <https://github.com/scipy/scipy/issues/8417>`__:
optimimze.minimize(method='L-BFGS-B', options={'disp': True})...
* `#8535 <https://github.com/scipy/scipy/issues/8535>`__: Strictly
increasing requirement in UnivariateSpline
* `#8815 <https://github.com/scipy/scipy/issues/8815>`__: [BUG] GMRES:
number of iteration is only increased if callback...
* `#9207 <https://github.com/scipy/scipy/issues/9207>`__:
scipy.linalg.solve_triangular speed after scipy.linalg.lu_factor
* `#9275 <https://github.com/scipy/scipy/issues/9275>`__: new feature:
adding LOBPCG solver in svds in addition to ARPACK
* `#9403 <https://github.com/scipy/scipy/issues/9403>`__: range of
truncnorm.logpdf could be extended
* `#9429 <https://github.com/scipy/scipy/issues/9429>`__: gaussian_kde not
working with numpy matrix
* `#9515 <https://github.com/scipy/scipy/issues/9515>`__: ndimage
implementation relies on undefined behavior
* `#9643 <https://github.com/scipy/scipy/issues/9643>`__: arpack returns
singular values in ascending order
* `#9669 <https://github.com/scipy/scipy/issues/9669>`__: DOC:
matthew-brett/build-openblas has been retired
* `#9852 <https://github.com/scipy/scipy/issues/9852>`__:
scipy.spatial.ConvexHull exit with code 134, free(): invalid...
* `#9902 <https://github.com/scipy/scipy/issues/9902>`__:
scipy.stats.truncnorm second moment may be wrong
* `#9943 <https://github.com/scipy/scipy/issues/9943>`__: Custom sampling
methods in shgo do not work
* `#9947 <https://github.com/scipy/scipy/issues/9947>`__: DOC: Incorrect
documentation for \`nan_policy='propagate\` in...
* `#9994 <https://github.com/scipy/scipy/issues/9994>`__: BUG: sparse:
reshape method allows a shape containing an arbitrary...
* `#10036 <https://github.com/scipy/scipy/issues/10036>`__: Official Nelder
mead tutorial uses xtol instead of xatol, which...
* `#10078 <https://github.com/scipy/scipy/issues/10078>`__: possible to get
a better error message when objective function...
* `#10092 <https://github.com/scipy/scipy/issues/10092>`__: overflow in
truncnorm.rvs
* `#10121 <https://github.com/scipy/scipy/issues/10121>`__: A little
spelling mistake
* `#10126 <https://github.com/scipy/scipy/issues/10126>`__: inaccurate std
implementation in binned_statistic
* `#10161 <https://github.com/scipy/scipy/issues/10161>`__: Error in
documentation scipy.special.modstruve
* `#10195 <https://github.com/scipy/scipy/issues/10195>`__: Derivative of
spline with 'const' extrapolation is also extrapolted...
* `#10206 <https://github.com/scipy/scipy/issues/10206>`__: sparse matrices
indexing with scipy 1.3
* `#10236 <https://github.com/scipy/scipy/issues/10236>`__: Non-descriptive
error on type mismatch for functions of scipy.optimize...
* `#10258 <https://github.com/scipy/scipy/issues/10258>`__: LOBPCG
convergence failure if guess provided
* `#10262 <https://github.com/scipy/scipy/issues/10262>`__: distance matrix
lacks dtype checks / warnings
* `#10271 <https://github.com/scipy/scipy/issues/10271>`__: BUG: optimize
failure on wheels
* `#10277 <https://github.com/scipy/scipy/issues/10277>`__:
scipy.special.zeta(0) = NAN
* `#10292 <https://github.com/scipy/scipy/issues/10292>`__: DOC/REL: Some
sections of the release notes are not nested correctly.
* `#10300 <https://github.com/scipy/scipy/issues/10300>`__:
scipy.stats.rv_continuous.fit throws empty RuntimeError when...
* `#10319 <https://github.com/scipy/scipy/issues/10319>`__: events in
scipy.integrate.solve_ivp: How do I setup an events...
* `#10323 <https://github.com/scipy/scipy/issues/10323>`__: Adding more
low-level LAPACK wrappers
* `#10360 <https://github.com/scipy/scipy/issues/10360>`__: firwin2
inadvertently modifies input and may result in undefined...
* `#10388 <https://github.com/scipy/scipy/issues/10388>`__: BLD:
TestHerd::test_hetrd core dumps with Python-dbg
* `#10395 <https://github.com/scipy/scipy/issues/10395>`__: Remove warning
about output shape of zoom
* `#10403 <https://github.com/scipy/scipy/issues/10403>`__: DOC:
scipy.signal.resample ignores t parameter
* `#10421 <https://github.com/scipy/scipy/issues/10421>`__: Yeo-Johnson
power transformation fails with integer input data
* `#10422 <https://github.com/scipy/scipy/issues/10422>`__: BUG: scipy.fft
does not support multiprocessing
* `#10427 <https://github.com/scipy/scipy/issues/10427>`__: ENH: convolve
numbers should be updated
* `#10444 <https://github.com/scipy/scipy/issues/10444>`__: BUG:
scipy.spatial.transform.Rotation.match_vectors returns improper...
* `#10488 <https://github.com/scipy/scipy/issues/10488>`__: ENH: DCTs/DSTs
for scipy.fft
* `#10501 <https://github.com/scipy/scipy/issues/10501>`__: BUG:
scipy.spatial.HalfspaceIntersection works incorrectly
* `#10514 <https://github.com/scipy/scipy/issues/10514>`__: BUG: cKDTree
GIL handling is incorrect
* `#10535 <https://github.com/scipy/scipy/issues/10535>`__: TST: master
branch CI failures
* `#10588 <https://github.com/scipy/scipy/issues/10588>`__: scipy.fft and
numpy.fft inconsistency when axes=None and shape...
* `#10628 <https://github.com/scipy/scipy/issues/10628>`__: Scipy
python>3.6 Windows wheels don't ship msvcp\*.dll
* `#10733 <https://github.com/scipy/scipy/issues/10733>`__: DOC/BUG:
min_only result does not match documentation
* `#10774 <https://github.com/scipy/scipy/issues/10774>`__: min_only=true
djisktra infinite loop with duplicate indices
* `#10775 <https://github.com/scipy/scipy/issues/10775>`__:
UnboundLocalError in Radau when given a NaN
* `#10835 <https://github.com/scipy/scipy/issues/10835>`__: io.wavfile.read
unnecessarily raises an error for a bad wav header
* `#10838 <https://github.com/scipy/scipy/issues/10838>`__: Error in
documentation for scipy.linalg.lu_factor
* `#10875 <https://github.com/scipy/scipy/issues/10875>`__: DOC: Graphical
guides (using TikZ)
* `#10880 <https://github.com/scipy/scipy/issues/10880>`__: setting verbose
> 2 in minimize with trust-constr method leads...
* `#10887 <https://github.com/scipy/scipy/issues/10887>`__:
scipy.signal.signaltools._fftconv_faster has incorrect estimates
* `#10948 <https://github.com/scipy/scipy/issues/10948>`__: gammainc(0,x) =
nan but should be 1, gammaincc(0,x) = nan but...
* `#10952 <https://github.com/scipy/scipy/issues/10952>`__:
TestQRdelete_F.test_delete_last_p_col test failure
* `#10968 <https://github.com/scipy/scipy/issues/10968>`__: API: Change
normalized=False to normalize=True in Rotation
* `#10987 <https://github.com/scipy/scipy/issues/10987>`__: Memory leak in
shgo triangulation
* `#10991 <https://github.com/scipy/scipy/issues/10991>`__: Error running
openBlas probably missing a step
* `#11033 <https://github.com/scipy/scipy/issues/11033>`__: deadlock on osx
for python 3.8
* `#11041 <https://github.com/scipy/scipy/issues/11041>`__: Test failure in
wheel builds for TestTf2zpk.test_simple
* `#11089 <https://github.com/scipy/scipy/issues/11089>`__: Regression in
scipy.stats where distribution will not accept loc and scale parameters
* `#11100 <https://github.com/scipy/scipy/issues/11100>`__: BUG:
multiscale_graphcorr random state seeding and parallel use
* `#11121 <https://github.com/scipy/scipy/issues/11121>`__: Calls to
`scipy.interpolate.splprep` increase RAM usage.
* `#11125 <https://github.com/scipy/scipy/issues/11125>`__: BUG: segfault
when slicing a CSR or CSC sparse matrix with slice start index > stop index

Pull requests for 1.4.0
-------------------------------

* `#4591 <https://github.com/scipy/scipy/pull/4591>`__: BUG, TST: Several
issues with scipy.signal.residue
* `#6629 <https://github.com/scipy/scipy/pull/6629>`__: ENH: sparse:
canonicalize on initialization
* `#7076 <https://github.com/scipy/scipy/pull/7076>`__: ENH: add complex
wavelet support to scipy.signal.cwt.
* `#8681 <https://github.com/scipy/scipy/pull/8681>`__: ENH add generalized
inverse Gaussian distribution to scipy.stats
* `#9064 <https://github.com/scipy/scipy/pull/9064>`__: BUG/ENH: Added
default _transpose into LinearOperator. Fixes...
* `#9215 <https://github.com/scipy/scipy/pull/9215>`__: ENH: Rbf
interpolation of large multi-dimensional data
* `#9311 <https://github.com/scipy/scipy/pull/9311>`__: ENH: Added voigt in
scipy.special.
* `#9642 <https://github.com/scipy/scipy/pull/9642>`__: ENH: integrate:
quad() for vector-valued functions
* `#9679 <https://github.com/scipy/scipy/pull/9679>`__: DOC: expand
docstring of exponweib distribution
* `#9684 <https://github.com/scipy/scipy/pull/9684>`__: TST: add ppc64le ci
testing
* `#9800 <https://github.com/scipy/scipy/pull/9800>`__: WIP : ENH:
Refactored _hungarian.py for speed and added a minimize/maximize?
* `#9847 <https://github.com/scipy/scipy/pull/9847>`__: DOC: Change
integrate tutorial to use solve_ivp instead of odeint
* `#9876 <https://github.com/scipy/scipy/pull/9876>`__: ENH: Use rfft when
possible in resampling
* `#9998 <https://github.com/scipy/scipy/pull/9998>`__: BUG: Do not remove
1s when calling sparse: reshape method #9994
* `#10002 <https://github.com/scipy/scipy/pull/10002>`__: ENH: adds
constraints for differential evolution
* `#10098 <https://github.com/scipy/scipy/pull/10098>`__: ENH: integrate:
add args argument to solve_ivp.
* `#10099 <https://github.com/scipy/scipy/pull/10099>`__: DOC: Add missing
docs for linprog unknown_options
* `#10104 <https://github.com/scipy/scipy/pull/10104>`__: BUG: Rewrite of
stats.truncnorm distribution.
* `#10105 <https://github.com/scipy/scipy/pull/10105>`__: MAINT improve
efficiency of rvs_ratio_uniforms in scipy.stats
* `#10107 <https://github.com/scipy/scipy/pull/10107>`__: TST:
dual_annealing set seed
* `#10108 <https://github.com/scipy/scipy/pull/10108>`__: ENH: stats:
improve kendall_tau cache usage
* `#10110 <https://github.com/scipy/scipy/pull/10110>`__: MAINT: _lib: Fix
a build warning.
* `#10114 <https://github.com/scipy/scipy/pull/10114>`__: FIX: only print
bounds when supported by minimizer (shgo)
* `#10115 <https://github.com/scipy/scipy/pull/10115>`__: TST: Add a test
with an almost singular design matrix for lsq_linear
* `#10118 <https://github.com/scipy/scipy/pull/10118>`__: MAINT: fix rdist
methods in scipy.stats
* `#10119 <https://github.com/scipy/scipy/pull/10119>`__: MAINT: improve
rvs of randint in scipy.stats
* `#10127 <https://github.com/scipy/scipy/pull/10127>`__: Fix typo in
record array field name (spatial-ckdtree-sparse_distance?
* `#10130 <https://github.com/scipy/scipy/pull/10130>`__: MAINT: ndimage:
Fix some compiler warnings.
* `#10131 <https://github.com/scipy/scipy/pull/10131>`__: DOC: Note the
solve_ivp args enhancement in the 1.4.0 release...
* `#10133 <https://github.com/scipy/scipy/pull/10133>`__: MAINT: add rvs
for semicircular in scipy.stats
* `#10138 <https://github.com/scipy/scipy/pull/10138>`__: BUG: special:
Invalid arguments to ellip_harm can crash Python.
* `#10139 <https://github.com/scipy/scipy/pull/10139>`__: MAINT: spatial:
Fix some compiler warnings in the file distance_wrap.c.
* `#10140 <https://github.com/scipy/scipy/pull/10140>`__: ENH: add handling
of NaN in RuntimeWarning except clause
* `#10142 <https://github.com/scipy/scipy/pull/10142>`__: DOC: return value
of scipy.special.comb
* `#10143 <https://github.com/scipy/scipy/pull/10143>`__: MAINT: Loosen
linprog tol
* `#10152 <https://github.com/scipy/scipy/pull/10152>`__: BUG: Fix custom
sampling input for shgo, add unittest
* `#10154 <https://github.com/scipy/scipy/pull/10154>`__: MAINT: add
moments and improve doc of mielke in scipy.stats
* `#10158 <https://github.com/scipy/scipy/pull/10158>`__: Issue #6999: read
zlib checksum before checking bytes read.
* `#10166 <https://github.com/scipy/scipy/pull/10166>`__: BUG: Correctly
handle broadcasted ydata in curve_fit pcov computation.
* `#10167 <https://github.com/scipy/scipy/pull/10167>`__: DOC: special: Add
missing factor of \`i\` to \`modstruve\` docstring
* `#10168 <https://github.com/scipy/scipy/pull/10168>`__: MAINT: stats: Fix
an incorrect comment.
* `#10169 <https://github.com/scipy/scipy/pull/10169>`__: ENH: optimize:
Clarify error when objective function returns...
* `#10172 <https://github.com/scipy/scipy/pull/10172>`__: DEV: Run tests in
parallel when --parallel flag is passed to...
* `#10173 <https://github.com/scipy/scipy/pull/10173>`__: ENH: Implement
DOP853 ODE integrator
* `#10176 <https://github.com/scipy/scipy/pull/10176>`__: Fixed typo
* `#10182 <https://github.com/scipy/scipy/pull/10182>`__: TST: fix test
issue for stats.pearsonr
* `#10184 <https://github.com/scipy/scipy/pull/10184>`__: MAINT: stats:
Simplify zmap and zscore (we can use keepdims now).
* `#10191 <https://github.com/scipy/scipy/pull/10191>`__: DOC: fix a
formatting issue in the scipy.spatial module docstring.
* `#10193 <https://github.com/scipy/scipy/pull/10193>`__: DOC: Updated
docstring for optimize.nnls
* `#10198 <https://github.com/scipy/scipy/pull/10198>`__: DOC, ENH:
special: Make \`hyp2f1\` references more specific
* `#10202 <https://github.com/scipy/scipy/pull/10202>`__: DOC: Format DST
and DCT definitions as latex equations
* `#10207 <https://github.com/scipy/scipy/pull/10207>`__: BUG: Compressed
matrix indexing should return a scalar
* `#10210 <https://github.com/scipy/scipy/pull/10210>`__: DOC: Update docs
for connection='weak' in connected_components
* `#10225 <https://github.com/scipy/scipy/pull/10225>`__: DOC: Clarify new
interfaces for legacy functions in 'optimize'
* `#10231 <https://github.com/scipy/scipy/pull/10231>`__: DOC, MAINT: gpg2
updates to release docs / pavement
* `#10235 <https://github.com/scipy/scipy/pull/10235>`__: LICENSE: split
license file in standard BSD 3-clause and bundled.
* `#10238 <https://github.com/scipy/scipy/pull/10238>`__: ENH: Add new
scipy.fft module using pocketfft
* `#10243 <https://github.com/scipy/scipy/pull/10243>`__: BUG: fix ARFF
reader regression with quoted values.
* `#10248 <https://github.com/scipy/scipy/pull/10248>`__: DOC: update
README file
* `#10255 <https://github.com/scipy/scipy/pull/10255>`__: CI: bump OpenBLAS
to match wheels
* `#10264 <https://github.com/scipy/scipy/pull/10264>`__: TST: add tests
for stats.tvar with unflattened arrays
* `#10280 <https://github.com/scipy/scipy/pull/10280>`__: MAINT: stats: Use
a constant value for sqrt(2/PI).
* `#10286 <https://github.com/scipy/scipy/pull/10286>`__: Development
Documentation Overhaul
* `#10290 <https://github.com/scipy/scipy/pull/10290>`__: MAINT: Deprecate
NumPy functions in SciPy root
* `#10291 <https://github.com/scipy/scipy/pull/10291>`__: FIX: Avoid
importing xdist when checking for availability
* `#10295 <https://github.com/scipy/scipy/pull/10295>`__: Disable
deprecated Numpy API in __odrpack.c
* `#10296 <https://github.com/scipy/scipy/pull/10296>`__: ENH: C++
extension for linear assignment problem
* `#10298 <https://github.com/scipy/scipy/pull/10298>`__: ENH: Made pade
function work with complex inputs
* `#10301 <https://github.com/scipy/scipy/pull/10301>`__: DOC: Fix critical
value significance levels in stats.anderson_ksamp
* `#10307 <https://github.com/scipy/scipy/pull/10307>`__: Minkowski
Distance Type Fix (issue #10262)
* `#10309 <https://github.com/scipy/scipy/pull/10309>`__: BUG: Pass
jac=None directly to lsoda
* `#10310 <https://github.com/scipy/scipy/pull/10310>`__: BUG: interpolate:
UnivariateSpline.derivative.ext is 'zeros'...
* `#10312 <https://github.com/scipy/scipy/pull/10312>`__: FIX: Fixing a
typo in a comment
* `#10314 <https://github.com/scipy/scipy/pull/10314>`__: scipy.spatial
enhancement request
* `#10315 <https://github.com/scipy/scipy/pull/10315>`__: DOC: Update
integration tutorial to solve_ivp
* `#10318 <https://github.com/scipy/scipy/pull/10318>`__: DOC: update the
example for PPoly.solve
* `#10333 <https://github.com/scipy/scipy/pull/10333>`__: TST: add tests
for stats.tvar with unflattened arrays
* `#10334 <https://github.com/scipy/scipy/pull/10334>`__: MAINT: special:
Remove deprecated \`hyp2f0\`, \`hyp1f2\`, and...
* `#10336 <https://github.com/scipy/scipy/pull/10336>`__: BUG:
linalg/interpolative: fix interp_decomp modifying input
* `#10341 <https://github.com/scipy/scipy/pull/10341>`__: BUG:
sparse.linalg/gmres: deprecate effect of callback on semantics...
* `#10344 <https://github.com/scipy/scipy/pull/10344>`__: DOC: improve
wording of mathematical formulation
* `#10345 <https://github.com/scipy/scipy/pull/10345>`__: ENH: Tiled QR
wrappers for scipy.linalg.lapack
* `#10350 <https://github.com/scipy/scipy/pull/10350>`__: MAINT: linalg:
Use the new fft subpackage in linalg.dft test...
* `#10351 <https://github.com/scipy/scipy/pull/10351>`__: BUG: Fix unstable
standard deviation calculation in histogram
* `#10353 <https://github.com/scipy/scipy/pull/10353>`__: Bug:
interpolate.NearestNDInterpolator (issue #10352)
* `#10357 <https://github.com/scipy/scipy/pull/10357>`__: DOC: linalg:
Refer to scipy.fft.fft (not fftpack) in the dft...
* `#10359 <https://github.com/scipy/scipy/pull/10359>`__: DOC: Update
roadmap now scipy.fft has been merged
* `#10361 <https://github.com/scipy/scipy/pull/10361>`__: ENH: Prefer
scipy.fft to scipy.fftpack in scipy.signal
* `#10371 <https://github.com/scipy/scipy/pull/10371>`__: DOC: Tweaks to
fft documentation
* `#10372 <https://github.com/scipy/scipy/pull/10372>`__: DOC: Fix typos
* `#10377 <https://github.com/scipy/scipy/pull/10377>`__: TST, MAINT:
adjustments for pytest 5.0
* `#10378 <https://github.com/scipy/scipy/pull/10378>`__: ENH: _lib: allow
new np.random.Generator in check_random_state
* `#10379 <https://github.com/scipy/scipy/pull/10379>`__: BUG: sparse: set
writeability to be forward-compatible with numpy>=1.17
* `#10381 <https://github.com/scipy/scipy/pull/10381>`__: BUG: Fixes
gh-7491, pdf at x=0 of fisk/burr/burr12/f distributions.
* `#10387 <https://github.com/scipy/scipy/pull/10387>`__: ENH:
optimize/bfgs: don't evaluate twice at initial point for...
* `#10392 <https://github.com/scipy/scipy/pull/10392>`__: [DOC] Add an
example for _binned_statistic_dd
* `#10396 <https://github.com/scipy/scipy/pull/10396>`__: Remove warning
about output shape of zoom
* `#10397 <https://github.com/scipy/scipy/pull/10397>`__: ENH: Add
check_finite to sp.linalg.norm
* `#10399 <https://github.com/scipy/scipy/pull/10399>`__: ENH: Add
__round__ method to sparse matrix
* `#10407 <https://github.com/scipy/scipy/pull/10407>`__: MAINT: drop
pybind11 from install_requires, it's only build-time...
* `#10408 <https://github.com/scipy/scipy/pull/10408>`__: TST: use
pytest.raises, not numpy assert_raises
* `#10409 <https://github.com/scipy/scipy/pull/10409>`__: CI: uninstall
nose on Travis
* `#10410 <https://github.com/scipy/scipy/pull/10410>`__: [ENH] ncx2
dispatch to chi2 when nc=0
* `#10411 <https://github.com/scipy/scipy/pull/10411>`__: TST: optimize:
test should use assert_allclose for fp comparisons
* `#10414 <https://github.com/scipy/scipy/pull/10414>`__: DOC: add pybind11
to the other part of quickstart guides
* `#10417 <https://github.com/scipy/scipy/pull/10417>`__: DOC: special:
don't mark non-ufuncs with a \`[+]\`
* `#10423 <https://github.com/scipy/scipy/pull/10423>`__: FIX: Use
pybind11::isinstace to check array dtypes
* `#10424 <https://github.com/scipy/scipy/pull/10424>`__: DOC: add doctest
example for binary data for ttest_ind_from_stats
* `#10425 <https://github.com/scipy/scipy/pull/10425>`__: ENH: Add missing
Hermitian transforms to scipy.fft
* `#10426 <https://github.com/scipy/scipy/pull/10426>`__: MAINT: Fix doc
build bugs
* `#10431 <https://github.com/scipy/scipy/pull/10431>`__: Update numpy
version for AIX
* `#10433 <https://github.com/scipy/scipy/pull/10433>`__: MAINT: Minor
fixes for the stats
* `#10434 <https://github.com/scipy/scipy/pull/10434>`__: BUG: special:
make \`ndtri\` return NaN outside domain of definition
* `#10435 <https://github.com/scipy/scipy/pull/10435>`__: BUG: Allow
integer input data in scipy.stats.yeojohnson
* `#10438 <https://github.com/scipy/scipy/pull/10438>`__: [DOC] Add example
for kurtosis
* `#10440 <https://github.com/scipy/scipy/pull/10440>`__: ENH: special:
make \`ellipk\` a ufunc
* `#10443 <https://github.com/scipy/scipy/pull/10443>`__: MAINT: ndimage:
malloc fail check
* `#10447 <https://github.com/scipy/scipy/pull/10447>`__: BLD: Divert
output from test compiles into a temporary directory
* `#10451 <https://github.com/scipy/scipy/pull/10451>`__: MAINT: signal:
malloc fail check
* `#10455 <https://github.com/scipy/scipy/pull/10455>`__: BUG: special: fix
values of \`hyperu\` for negative \`x\`
* `#10456 <https://github.com/scipy/scipy/pull/10456>`__: DOC: Added
comment clarifying the call for dcsrch.f in lbfgsb.f
* `#10457 <https://github.com/scipy/scipy/pull/10457>`__: BUG: Allow
ckdtree to accept empty data input
* `#10459 <https://github.com/scipy/scipy/pull/10459>`__: BUG:TST: Compute
lwork safely
* `#10460 <https://github.com/scipy/scipy/pull/10460>`__: [DOC] Add example
to entropy
* `#10461 <https://github.com/scipy/scipy/pull/10461>`__: DOC: Quickstart
Guide updates
* `#10462 <https://github.com/scipy/scipy/pull/10462>`__: TST: special:
only show max atol/rtol for test points that failed
* `#10465 <https://github.com/scipy/scipy/pull/10465>`__: BUG: Correctly
align fft inputs
* `#10467 <https://github.com/scipy/scipy/pull/10467>`__: ENH: lower-memory
duplicate generator checking in spatial.SphericalVoronoi
* `#10470 <https://github.com/scipy/scipy/pull/10470>`__: ENH: Normalise
the inverse DCT/DST in scipy.fft
* `#10472 <https://github.com/scipy/scipy/pull/10472>`__: BENCH: adjust
timeout for slow setup_cache
* `#10475 <https://github.com/scipy/scipy/pull/10475>`__: CI: include
python debug for Travis-ci
* `#10476 <https://github.com/scipy/scipy/pull/10476>`__: TST: special: use
\`__tracebackhide__\` to get better error messages
* `#10477 <https://github.com/scipy/scipy/pull/10477>`__: ENH: faster
region building in spatial.SphericalVoronoi
* `#10479 <https://github.com/scipy/scipy/pull/10479>`__: BUG: stats: Fix a
few issues with the distributions' fit method.
* `#10480 <https://github.com/scipy/scipy/pull/10480>`__: Add RuntimeError
in _distn_infrastructure.py in fit() method
* `#10481 <https://github.com/scipy/scipy/pull/10481>`__: BENCH, MAINT:
wheel_cache_size has been renamed build_cache_size
* `#10494 <https://github.com/scipy/scipy/pull/10494>`__: ENH: faster
circumcenter calculation in spatial.SphericalVoronoi
* `#10500 <https://github.com/scipy/scipy/pull/10500>`__: Splrep
_curfit_cache global variable bugfix
* `#10503 <https://github.com/scipy/scipy/pull/10503>`__: BUG:
spatial/qhull: get HalfspaceIntersection.dual_points from...
* `#10506 <https://github.com/scipy/scipy/pull/10506>`__: DOC: interp2d,
note nearest neighbor extrapolation
* `#10507 <https://github.com/scipy/scipy/pull/10507>`__: MAINT: Remove
fortran fftpack library in favour of pypocketfft
* `#10508 <https://github.com/scipy/scipy/pull/10508>`__: TST: fix a bug in
the circular import test.
* `#10509 <https://github.com/scipy/scipy/pull/10509>`__: MAINT: Set up
_build_utils as subpackage
* `#10516 <https://github.com/scipy/scipy/pull/10516>`__: BUG: Use nogil
contexts in cKDTree
* `#10517 <https://github.com/scipy/scipy/pull/10517>`__: ENH: fftconvolve
should not FFT broadcastable axes
* `#10518 <https://github.com/scipy/scipy/pull/10518>`__: ENH: Speedup
fftconvolve
* `#10520 <https://github.com/scipy/scipy/pull/10520>`__: DOC: Proper .rst
formatting for deprecated features and Backwards...
* `#10523 <https://github.com/scipy/scipy/pull/10523>`__: DOC: Improve
scipy.signal.resample documentation
* `#10524 <https://github.com/scipy/scipy/pull/10524>`__: ENH: Add MGC to
scipy.stats
* `#10525 <https://github.com/scipy/scipy/pull/10525>`__: [ENH] ncx2.ppf
dispatch to chi2 when nc=0
* `#10526 <https://github.com/scipy/scipy/pull/10526>`__: DOC: clarify
laplacian normalization
* `#10528 <https://github.com/scipy/scipy/pull/10528>`__: API: Rename
scipy.fft DCT/DST shape argument to s
* `#10531 <https://github.com/scipy/scipy/pull/10531>`__: BUG: fixed
improper rotations in spatial.transform.rotation.match_vectors
* `#10533 <https://github.com/scipy/scipy/pull/10533>`__: [DOC] Add example
for winsorize function
* `#10539 <https://github.com/scipy/scipy/pull/10539>`__: MAINT: special:
don't register \`i0\` with \`numpy.dual\`
* `#10540 <https://github.com/scipy/scipy/pull/10540>`__: MAINT: Fix Travis
and Circle
* `#10542 <https://github.com/scipy/scipy/pull/10542>`__: MAINT:
interpolate: use cython_lapack
* `#10547 <https://github.com/scipy/scipy/pull/10547>`__: Feature request.
Add furthest site Voronoi diagrams to scipy.spatial.plotutils.
* `#10549 <https://github.com/scipy/scipy/pull/10549>`__: [BUG] Fix bug in
trimr when inclusive=False
* `#10552 <https://github.com/scipy/scipy/pull/10552>`__: add
scipy.signal.upfirdn signal extension modes
* `#10555 <https://github.com/scipy/scipy/pull/10555>`__: MAINT: special:
move \`c_misc\` into Cephes
* `#10556 <https://github.com/scipy/scipy/pull/10556>`__: [DOC] Add example
for trima
* `#10562 <https://github.com/scipy/scipy/pull/10562>`__: [DOC] Fix triple
string fo trimmed so that __doc__ can show...
* `#10563 <https://github.com/scipy/scipy/pull/10563>`__: improve
least_squares error msg for mismatched shape
* `#10564 <https://github.com/scipy/scipy/pull/10564>`__: ENH: linalg:
memoize get_lapack/blas_funcs to speed it up
* `#10566 <https://github.com/scipy/scipy/pull/10566>`__: ENH: add
implementation of solver for the maximum flow problem
* `#10567 <https://github.com/scipy/scipy/pull/10567>`__: BUG: spatial: use
c++11 construct for getting start of vector...
* `#10568 <https://github.com/scipy/scipy/pull/10568>`__: DOC: special:
small tweaks to the \`zetac\` docstring
* `#10571 <https://github.com/scipy/scipy/pull/10571>`__: [ENH]
Gaussian_kde can accept matrix dataset
* `#10574 <https://github.com/scipy/scipy/pull/10574>`__: ENH: linalg:
speed up _compute_lwork by avoiding numpy constructs
* `#10582 <https://github.com/scipy/scipy/pull/10582>`__: Fix typos with
typos in bundled libraries reverted
* `#10583 <https://github.com/scipy/scipy/pull/10583>`__: ENH: special: add
the analytic continuation of Riemann zeta
* `#10584 <https://github.com/scipy/scipy/pull/10584>`__: MAINT: special:
clean up \`special.__all__\`
* `#10586 <https://github.com/scipy/scipy/pull/10586>`__: BUG:
multidimensional scipy.fft functions should accept 's' rather...
* `#10587 <https://github.com/scipy/scipy/pull/10587>`__: BUG:
integrate/lsoda: never abort run, set error istate instead
* `#10594 <https://github.com/scipy/scipy/pull/10594>`__: API: Replicate
numpy's fftn behaviour when s is given but not...
* `#10599 <https://github.com/scipy/scipy/pull/10599>`__: DOC: dev: update
documentation vs. github pull request workflow...
* `#10603 <https://github.com/scipy/scipy/pull/10603>`__: MAINT: installer
scripts removed
* `#10604 <https://github.com/scipy/scipy/pull/10604>`__: MAINT: Change
c\*np.ones(...) to np.full(..., c, ...) in many...
* `#10608 <https://github.com/scipy/scipy/pull/10608>`__: Univariate
splines should require x to be strictly increasing...
* `#10613 <https://github.com/scipy/scipy/pull/10613>`__: ENH: Add seed
option for gaussian_kde.resample
* `#10614 <https://github.com/scipy/scipy/pull/10614>`__: ENH: Add parallel
computation to scipy.fft
* `#10615 <https://github.com/scipy/scipy/pull/10615>`__: MAINT:
interpolate: remove unused header file
* `#10616 <https://github.com/scipy/scipy/pull/10616>`__: MAINT: Clean up
32-bit platform xfail markers
* `#10618 <https://github.com/scipy/scipy/pull/10618>`__: BENCH: Added
'trust-constr' to minimize benchmarks
* `#10621 <https://github.com/scipy/scipy/pull/10621>`__: [MRG] multiple
stability updates in lobpcg
* `#10622 <https://github.com/scipy/scipy/pull/10622>`__: MAINT: forward
port 1.3.1 release notes
* `#10624 <https://github.com/scipy/scipy/pull/10624>`__: DOC: stats: Fix
spelling of 'support'.
* `#10627 <https://github.com/scipy/scipy/pull/10627>`__: DOC: stats: Add
references for the alpha distribution.
* `#10629 <https://github.com/scipy/scipy/pull/10629>`__: MAINT: special:
avoid overflow longer in \`zeta\` for negative...
* `#10630 <https://github.com/scipy/scipy/pull/10630>`__: TST: GH10271,
relax test assertion, fixes #10271
* `#10631 <https://github.com/scipy/scipy/pull/10631>`__: DOC: nelder-mean
uses xatol fixes #10036
* `#10633 <https://github.com/scipy/scipy/pull/10633>`__: BUG: interpolate:
integral(a, b) should be zero when both limits...
* `#10635 <https://github.com/scipy/scipy/pull/10635>`__: DOC: special:
complete hypergeometric functions documentation
* `#10636 <https://github.com/scipy/scipy/pull/10636>`__: BUG: special: use
series for \`hyp1f1\` when it converges rapidly
* `#10641 <https://github.com/scipy/scipy/pull/10641>`__: ENH: allow
matching of general bipartite graphs
* `#10643 <https://github.com/scipy/scipy/pull/10643>`__: ENH:
scipy.sparse.linalg.spsolve triangular unit diagonal
* `#10650 <https://github.com/scipy/scipy/pull/10650>`__: ENH: Cythonize
sosfilt
* `#10654 <https://github.com/scipy/scipy/pull/10654>`__: DOC: Vertical
alignment of table entries
* `#10655 <https://github.com/scipy/scipy/pull/10655>`__: ENH: Dockerfile
for scipy development
* `#10660 <https://github.com/scipy/scipy/pull/10660>`__: TST: clean up
tests for rvs in scipy.stats
* `#10664 <https://github.com/scipy/scipy/pull/10664>`__: Throw error on
non-finite input for binned_statistic_dd()
* `#10665 <https://github.com/scipy/scipy/pull/10665>`__: DOC: special:
improve the docstrings for \`gamma\` and \`gammasgn\`
* `#10669 <https://github.com/scipy/scipy/pull/10669>`__: TST: Update
scipy.fft real transform tests
* `#10670 <https://github.com/scipy/scipy/pull/10670>`__: DOC: Clarify docs
and error messages for scipy.signal.butter
* `#10672 <https://github.com/scipy/scipy/pull/10672>`__: ENH: return
solution attribute when using events in solve_ivp
* `#10675 <https://github.com/scipy/scipy/pull/10675>`__: MAINT: special:
add an explicit NaN check for \`iv\` arguments
* `#10679 <https://github.com/scipy/scipy/pull/10679>`__: DOC: special: Add
documentation for \`beta\` function
* `#10681 <https://github.com/scipy/scipy/pull/10681>`__: TST:
sparse.linalg: fix arnoldi test seed
* `#10682 <https://github.com/scipy/scipy/pull/10682>`__: DOC: special: Add
documentation for \`betainc\` function
* `#10684 <https://github.com/scipy/scipy/pull/10684>`__: TST: special:
require Mpmath 1.1.0 for \`test_hyperu_around_0\`
* `#10686 <https://github.com/scipy/scipy/pull/10686>`__: FIX: sphinx
isattributedescriptor is not available in sphinx...
* `#10687 <https://github.com/scipy/scipy/pull/10687>`__: DOC: added Docker
quickstart guide by @andyfaff
* `#10689 <https://github.com/scipy/scipy/pull/10689>`__: DOC: special:
clarify format of parameters/returns sections for...
* `#10690 <https://github.com/scipy/scipy/pull/10690>`__: DOC: special:
improve docstrings of incomplete gamma functions
* `#10692 <https://github.com/scipy/scipy/pull/10692>`__: ENH:
higher-dimensional input in \`spatial.SphericalVoronoi\`
* `#10694 <https://github.com/scipy/scipy/pull/10694>`__: ENH:
ScalarFunction.fun_and_grad
* `#10698 <https://github.com/scipy/scipy/pull/10698>`__: DOC: special: Add
documentation for \`betaincinv\`
* `#10699 <https://github.com/scipy/scipy/pull/10699>`__: MAINT: remove
time print lbfgsb fixes #8417
* `#10701 <https://github.com/scipy/scipy/pull/10701>`__: TST, MAINT: bump
OpenBLAS to 0.3.7 stable
* `#10702 <https://github.com/scipy/scipy/pull/10702>`__: DOC: clarify
iterations consume multiple function calls
* `#10703 <https://github.com/scipy/scipy/pull/10703>`__: DOC: iprint doc
lbfgsb closes #5482
* `#10708 <https://github.com/scipy/scipy/pull/10708>`__: TST: test
suggested in gh1758
* `#10710 <https://github.com/scipy/scipy/pull/10710>`__: ENH: Added
nan_policy to circ functions in \`stats\`
* `#10712 <https://github.com/scipy/scipy/pull/10712>`__: ENH: add axis
parameter to stats.entropy
* `#10714 <https://github.com/scipy/scipy/pull/10714>`__: DOC: Formatting
fix rv_continuous.expect docs
* `#10715 <https://github.com/scipy/scipy/pull/10715>`__: DOC: BLD: update
doc Makefile for python version; add scipy version...
* `#10717 <https://github.com/scipy/scipy/pull/10717>`__: MAINT: modernize
doc/Makefile
* `#10719 <https://github.com/scipy/scipy/pull/10719>`__: Enable setting
minres initial vector
* `#10720 <https://github.com/scipy/scipy/pull/10720>`__: DOC: silence
random warning in doc build for \`stats.binned_statistic_dd\`
* `#10724 <https://github.com/scipy/scipy/pull/10724>`__: DEV: Add doc
option to runtests.py
* `#10728 <https://github.com/scipy/scipy/pull/10728>`__: MAINT: get rid of
gramA, gramB text files that lobpcg tests leave...
* `#10732 <https://github.com/scipy/scipy/pull/10732>`__: DOC: add min_only
to docstring for Dijkstra's algorithm
* `#10734 <https://github.com/scipy/scipy/pull/10734>`__: DOC: spell out
difference between source and target in shortest...
* `#10735 <https://github.com/scipy/scipy/pull/10735>`__: Fix for Python 4
* `#10739 <https://github.com/scipy/scipy/pull/10739>`__: BUG:
optimize/slsqp: deal with singular BFGS update
* `#10741 <https://github.com/scipy/scipy/pull/10741>`__: ENH: LAPACK
wrappers for ?geequ, ?geequb, ?syequb, ?heequb
* `#10742 <https://github.com/scipy/scipy/pull/10742>`__: DOC: special: add
to the docstring of \`gammaln\`
* `#10743 <https://github.com/scipy/scipy/pull/10743>`__: ENH: special: add
a real dispatch for \`wrightomega\`
* `#10746 <https://github.com/scipy/scipy/pull/10746>`__: MAINT: Fix typos
in comments, docs and test name
* `#10747 <https://github.com/scipy/scipy/pull/10747>`__: Remove spurious
quotes
* `#10750 <https://github.com/scipy/scipy/pull/10750>`__: MAINT: make
cython code more precise
* `#10751 <https://github.com/scipy/scipy/pull/10751>`__: MAINT: Check that
scipy.linalg.lapack functions are documented
* `#10752 <https://github.com/scipy/scipy/pull/10752>`__: MAINT: special:
use \`sf_error\` in Cephes
* `#10755 <https://github.com/scipy/scipy/pull/10755>`__: DOC: cluster: Add
'See Also' and 'Examples' for kmeans2.
* `#10763 <https://github.com/scipy/scipy/pull/10763>`__: MAINT: list of
minimize methods
* `#10768 <https://github.com/scipy/scipy/pull/10768>`__: BUG: Fix corner
case for sos2zpk
* `#10773 <https://github.com/scipy/scipy/pull/10773>`__: Fix error type
for complex input to scipy.fftpack.rfft and irfft
* `#10776 <https://github.com/scipy/scipy/pull/10776>`__: ENH: handle
geodesic input in \`spatial.SphericalVoronoi\`
* `#10777 <https://github.com/scipy/scipy/pull/10777>`__: MAINT:
minimizer-->custom should handle the kinds of bounds/constrain?...
* `#10781 <https://github.com/scipy/scipy/pull/10781>`__: ENH:
solve_triangular C order improvement
* `#10787 <https://github.com/scipy/scipy/pull/10787>`__: Fix behavior of
\`exp1\` on branch cut and add docstring
* `#10789 <https://github.com/scipy/scipy/pull/10789>`__: DOC: special: add
parameters/returns doc sections for erfc/erfcx/erfi
* `#10790 <https://github.com/scipy/scipy/pull/10790>`__: Travis CI: sudo
is deprecated and Xenial is default distro
* `#10792 <https://github.com/scipy/scipy/pull/10792>`__: DOC: special: add
full docstring for \`expi\`
* `#10799 <https://github.com/scipy/scipy/pull/10799>`__: DOC: special: add
a complete docstring for \`expn\`
* `#10800 <https://github.com/scipy/scipy/pull/10800>`__: Docs edits (GSoD)
* `#10802 <https://github.com/scipy/scipy/pull/10802>`__: BUG: fix
UnboundLocalError in Radau (scipy#10775)
* `#10804 <https://github.com/scipy/scipy/pull/10804>`__: ENH: Speed up
next_fast_len with LRU cache
* `#10805 <https://github.com/scipy/scipy/pull/10805>`__: DOC: Fix
unbalanced quotes in signal.place_poles
* `#10809 <https://github.com/scipy/scipy/pull/10809>`__: ENH: Speed up
next_fast_len
* `#10810 <https://github.com/scipy/scipy/pull/10810>`__: ENH: Raise
catchable exceptions for bad Fortran files
* `#10811 <https://github.com/scipy/scipy/pull/10811>`__: MAINT: optimize:
Remove extra variable from _remove_redundancy_dense
* `#10813 <https://github.com/scipy/scipy/pull/10813>`__: MAINT: special:
Remove unused variables from _kolmogi and _smirnovi
* `#10815 <https://github.com/scipy/scipy/pull/10815>`__: DOC, API:
scipy.stats.reciprocal is "log-uniform"
* `#10816 <https://github.com/scipy/scipy/pull/10816>`__: MAINT: special:
remove deprecated \`bessel_diff_formula\`
* `#10817 <https://github.com/scipy/scipy/pull/10817>`__: DOC: special:
complete the docstring for \`fresnel\`
* `#10820 <https://github.com/scipy/scipy/pull/10820>`__: Fixed
compiler_helper.py to allow compilation with ICC on Linux
* `#10823 <https://github.com/scipy/scipy/pull/10823>`__: DOC: updated
reference guide text for consistency in writing...
* `#10825 <https://github.com/scipy/scipy/pull/10825>`__: MAINT: special:
change some features of the Voigt function
* `#10828 <https://github.com/scipy/scipy/pull/10828>`__: MAINT: integrate:
Remove unused variable from init_callback
* `#10830 <https://github.com/scipy/scipy/pull/10830>`__: Adding LOBPCG
solver in svds in addition to ARPACK
* `#10837 <https://github.com/scipy/scipy/pull/10837>`__: WIP: ENH:
reduction function for \`spatial.tranform.Rotation\`...
* `#10843 <https://github.com/scipy/scipy/pull/10843>`__: ENH: Adding
optional parameter to stats.zscores to allow for...
* `#10845 <https://github.com/scipy/scipy/pull/10845>`__: Rebase kruskal fix
* `#10847 <https://github.com/scipy/scipy/pull/10847>`__: remove redundant
__getitem__ from scipy.sparse.lil
* `#10848 <https://github.com/scipy/scipy/pull/10848>`__: Better handling
of empty (not missing) docstrings
* `#10849 <https://github.com/scipy/scipy/pull/10849>`__: ENH: implement
rmatmat for LinearOperator
* `#10850 <https://github.com/scipy/scipy/pull/10850>`__: MAINT :
Refactoring lil List of Lists
* `#10851 <https://github.com/scipy/scipy/pull/10851>`__: DOC: add a
generative art example to the scipy.spatial tutorial.
* `#10852 <https://github.com/scipy/scipy/pull/10852>`__: DOC: linalg:
fixed gh-10838 unused imports in example deleted
* `#10854 <https://github.com/scipy/scipy/pull/10854>`__: DOC: special: add
a full docstring for \`pdtr\`
* `#10861 <https://github.com/scipy/scipy/pull/10861>`__: ENH: option to
reuse binnumbers in stats.binned_statistic_dd
* `#10863 <https://github.com/scipy/scipy/pull/10863>`__: DOC: partial
standardization and validation of scipy.stats reference...
* `#10865 <https://github.com/scipy/scipy/pull/10865>`__: BUG: special: fix
incomplete gamma functions for infinite \`a\`
* `#10866 <https://github.com/scipy/scipy/pull/10866>`__: ENH: calculation
of mean in spatial.transform.Rotation
* `#10867 <https://github.com/scipy/scipy/pull/10867>`__: MAINT: Also store
latex directory
* `#10869 <https://github.com/scipy/scipy/pull/10869>`__: ENH: Implement
overlap-add convolution
* `#10870 <https://github.com/scipy/scipy/pull/10870>`__: ENH: Do not raise
EOF error if wavfile data read
* `#10876 <https://github.com/scipy/scipy/pull/10876>`__: ENH: Add
beta-binomial distribution to scipy.stats
* `#10878 <https://github.com/scipy/scipy/pull/10878>`__: MAINT: Update R
project URL
* `#10883 <https://github.com/scipy/scipy/pull/10883>`__: MAINT: (ndimage)
More robust check for output being a numpy dtype
* `#10884 <https://github.com/scipy/scipy/pull/10884>`__: DOC: Added
instructions on adding a new distribution to scipy.stats.
* `#10885 <https://github.com/scipy/scipy/pull/10885>`__: [BUG] fix lobpcg
with maxiter=None results in Exception
* `#10899 <https://github.com/scipy/scipy/pull/10899>`__: ENH: Match R
functionality for hmean
* `#10900 <https://github.com/scipy/scipy/pull/10900>`__: MAINT: stats: Use
keepdims to simplify a few lines in power_divergence.
* `#10901 <https://github.com/scipy/scipy/pull/10901>`__: ENH:
sparse/linalg: support pydata/sparse matrices
* `#10907 <https://github.com/scipy/scipy/pull/10907>`__: Check whether
\`maxiter\` is integer
* `#10912 <https://github.com/scipy/scipy/pull/10912>`__: ENH: warn user
that quad() ignores \`points=...\` when \`weight=...\`...
* `#10918 <https://github.com/scipy/scipy/pull/10918>`__: CI: fix Travis CI
py3.8 build
* `#10920 <https://github.com/scipy/scipy/pull/10920>`__: MAINT: Update
constants to codata 2018 values (second try)
* `#10921 <https://github.com/scipy/scipy/pull/10921>`__: ENH:
scipy.sparse.lil: tocsr accelerated
* `#10924 <https://github.com/scipy/scipy/pull/10924>`__: BUG: Forbid
passing 'args' as kwarg in scipy.optimize.curve_fit
* `#10928 <https://github.com/scipy/scipy/pull/10928>`__: DOC: Add examples
to io.wavfile docstrings
* `#10934 <https://github.com/scipy/scipy/pull/10934>`__: typo fix
* `#10935 <https://github.com/scipy/scipy/pull/10935>`__: BUG: Avoid
undefined behaviour on float to unsigned conversion
* `#10936 <https://github.com/scipy/scipy/pull/10936>`__: DOC: Added
missing example to stats.mstats.variation
* `#10939 <https://github.com/scipy/scipy/pull/10939>`__: ENH:
scipy.sparse.lil: tocsr accelerated depending on density
* `#10946 <https://github.com/scipy/scipy/pull/10946>`__: BUG: setting
verbose > 2 in minimize with trust-constr method...
* `#10947 <https://github.com/scipy/scipy/pull/10947>`__: DOC: special:
small improvements to the \`poch\` docstring
* `#10949 <https://github.com/scipy/scipy/pull/10949>`__: BUG: fix return
type of erlang_gen._argcheck
* `#10951 <https://github.com/scipy/scipy/pull/10951>`__: DOC: fixed Ricker
wavelet formula
* `#10954 <https://github.com/scipy/scipy/pull/10954>`__: BUG: special: fix
\`factorial\` return type for 0-d inputs
* `#10955 <https://github.com/scipy/scipy/pull/10955>`__: MAINT: Relax the
assert_unitary atol value
* `#10956 <https://github.com/scipy/scipy/pull/10956>`__: WIP: make
pdtr(int, double) be pdtr(double, double)
* `#10957 <https://github.com/scipy/scipy/pull/10957>`__: BUG: Ensure full
binary compatibility of long double test data
* `#10964 <https://github.com/scipy/scipy/pull/10964>`__: ENH: Make Slerp
callable with a scalar argument
* `#10972 <https://github.com/scipy/scipy/pull/10972>`__: BUG: Handle
complex gains in zpk2sos
* `#10975 <https://github.com/scipy/scipy/pull/10975>`__: TST: skip
test_kendalltau ppc64le
* `#10978 <https://github.com/scipy/scipy/pull/10978>`__: BUG: boxcox data
dimension and constancy check #5112
* `#10979 <https://github.com/scipy/scipy/pull/10979>`__: API: Rename dcm
to (rotation) matrix in Rotation class
* `#10981 <https://github.com/scipy/scipy/pull/10981>`__: MAINT: add
support for a==0 and x>0 edge case to igam and igamc
* `#10986 <https://github.com/scipy/scipy/pull/10986>`__: MAINT: Remove
direct imports from numpy in signaltools.py
* `#10988 <https://github.com/scipy/scipy/pull/10988>`__: BUG: signal:
fixed issue #10360
* `#10989 <https://github.com/scipy/scipy/pull/10989>`__: FIX
binned_statistic_dd Mac wheel test fails
* `#10990 <https://github.com/scipy/scipy/pull/10990>`__: BUG: Fix memory
leak in shgo triangulation
* `#10992 <https://github.com/scipy/scipy/pull/10992>`__: TST: Relax
tolerance in upfirdn test_modes
* `#10993 <https://github.com/scipy/scipy/pull/10993>`__: TST: bump
tolerance in optimize tests
* `#10997 <https://github.com/scipy/scipy/pull/10997>`__: MAINT: Rework
residue and residuez
* `#11001 <https://github.com/scipy/scipy/pull/11001>`__: DOC: Updated
Windows build tutorial
* `#11004 <https://github.com/scipy/scipy/pull/11004>`__: BUG:
integrate/quad_vec: fix several bugs in quad_vec
* `#11005 <https://github.com/scipy/scipy/pull/11005>`__: TST: add Python
3.8 Win CI
* `#11006 <https://github.com/scipy/scipy/pull/11006>`__: DOC: special: add
a reference for \`kl_div\`
* `#11012 <https://github.com/scipy/scipy/pull/11012>`__: MAINT: Rework
invres and invresz
* `#11015 <https://github.com/scipy/scipy/pull/11015>`__: DOC: special: add
references for \`rel_entr\`
* `#11017 <https://github.com/scipy/scipy/pull/11017>`__: DOC: numpydoc
validation of morestats.py
* `#11018 <https://github.com/scipy/scipy/pull/11018>`__: MAINT: Filter
unrelated warning
* `#11031 <https://github.com/scipy/scipy/pull/11031>`__: MAINT: update
choose_conv_method for pocketfft implementation
* `#11034 <https://github.com/scipy/scipy/pull/11034>`__: MAINT: TST: Skip
tests with multiprocessing that use "spawn"...
* `#11036 <https://github.com/scipy/scipy/pull/11036>`__: DOC: update
doc/README with some more useful content.
* `#11037 <https://github.com/scipy/scipy/pull/11037>`__: DOC: special: add
a complete docstring for \`rgamma\`
* `#11038 <https://github.com/scipy/scipy/pull/11038>`__: DOC: special: add
a reference for the polygamma function
* `#11042 <https://github.com/scipy/scipy/pull/11042>`__: TST: fix tf2zpk
test failure due to incorrect complex sorting.
* `#11044 <https://github.com/scipy/scipy/pull/11044>`__: MAINT:
choose_conv_method can choose fftconvolution for longcomplex
* `#11046 <https://github.com/scipy/scipy/pull/11046>`__: TST: Reduce
tolerance for ppc64le with reference lapack
* `#11048 <https://github.com/scipy/scipy/pull/11048>`__: DOC: special: add
reference for orthogonal polynomial functions
* `#11049 <https://github.com/scipy/scipy/pull/11049>`__: MAINT: proper
random number initialization and readability fix
* `#11051 <https://github.com/scipy/scipy/pull/11051>`__: MAINT: pep8
cleanup
* `#11054 <https://github.com/scipy/scipy/pull/11054>`__: TST: bump test
precision for dual_annealing SLSQP test
* `#11055 <https://github.com/scipy/scipy/pull/11055>`__: DOC: special: add
a reference for \`zeta\`
* `#11056 <https://github.com/scipy/scipy/pull/11056>`__: API: Deprecated
normalized keyword in Rotation
* `#11065 <https://github.com/scipy/scipy/pull/11065>`__: DOC: Ubuntu
Development Environment Quickstart should not modify...
* `#11066 <https://github.com/scipy/scipy/pull/11066>`__: BUG: skip
deprecation for numpy top-level types
* `#11067 <https://github.com/scipy/scipy/pull/11067>`__: DOC: updated
documentation for consistency in writing style
* `#11070 <https://github.com/scipy/scipy/pull/11070>`__: DOC: Amendment to
Ubuntu Development Environment Quickstart should...
* `#11073 <https://github.com/scipy/scipy/pull/11073>`__: DOC: fix 1.4.0
release notes
* `#11081 <https://github.com/scipy/scipy/pull/11081>`__: API: Replace
Rotation.match_vectors with align_vectors
* `#11083 <https://github.com/scipy/scipy/pull/11083>`__: DOC: more 1.4.0
release note fixes
* `#11092 <https://github.com/scipy/scipy/pull/11092>`__: BUG: stats: fix
freezing of some distributions
* `#11096 <https://github.com/scipy/scipy/pull/11096>`__: BUG:
scipy.sparse.csgraph: fixed issue #10774
* `#11124 <https://github.com/scipy/scipy/pull/11124>`__: fix Cython
warnings related to _stats.pyx
* `#11126 <https://github.com/scipy/scipy/pull/11126>`__: BUG:
interpolate/fitpack: fix memory leak in splprep
* `#11127 <https://github.com/scipy/scipy/pull/11127>`__: Avoid potential
segfault in CSR and CSC matrix indexing
* `#11152 <https://github.com/scipy/scipy/pull/11152>`__: BUG: Fix random
state bug multiscale_graphcorr
* `#11166 <https://github.com/scipy/scipy/pull/11166>`__: BUG: empty sparse
slice shapes
* `#11167 <https://github.com/scipy/scipy/pull/11167>`__: BUG: redundant
fft in signal.resample

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From andyfaff at gmail.com  Wed Dec 11 06:52:12 2019
From: andyfaff at gmail.com (Andrew Nelson)
Date: Wed, 11 Dec 2019 22:52:12 +1100
Subject: [SciPy-Dev] vectorization in stats.rv_continuous
Message-ID: <CAAbtOZdWMA2YneW-8D-Jgwj0B5555SSr3TRFnXzE9_gWqN9GmQ@mail.gmail.com>

In rv_continuous there are several locations that use np.vectorize over
single instance calculations. In those locations the vectorized function
has an attribute `nin` changed, e.g.
https://github.com/scipy/scipy/blob/master/scipy/stats/_distn_infrastructure.py#L1605
.

If I look up the code for np.vectorize there's no such attribute in the
class. Is it now an obsolete attribute? If so, can it be removed?

A.

p.s. I've been experimenting with a way of speeding up the generic _ppf
function. My local changes show significant speed improvement in a
subclass, which speeds up rvs significantly. I'll have a look into
submitting a PR.
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From ralf.gommers at gmail.com  Thu Dec 12 01:59:30 2019
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Wed, 11 Dec 2019 22:59:30 -0800
Subject: [SciPy-Dev] Making it easier to pin numpy in pyproject.toml
In-Reply-To: <CAGMHX_2qFm-ABGLgR=i0WzFC8nSttO6VnqHf7e47EgacF8Gc9w@mail.gmail.com>
References: <CAGMHX_2579xgBppu8a0KDwwXf+iZ0eGF4unMJeMBoPaJA9ozgQ@mail.gmail.com>
 <5bd0d03c-2653-4766-4571-67b6f642b218@aero.iitb.ac.in>
 <CAGMHX_0oZvFP_295j06_MfDUU7+ZWGQ8E22u5TZ2r2b0rtDoxw@mail.gmail.com>
 <CABL7CQj+Js1rXEvdux4CzV+s_t-QT_X_1CjdJ0JxFrXcaKLqKA@mail.gmail.com>
 <CAGMHX_2qFm-ABGLgR=i0WzFC8nSttO6VnqHf7e47EgacF8Gc9w@mail.gmail.com>
Message-ID: <CABL7CQiqdXuD3HfKuOUaS3idtansiUHZsh83GzNBA1=Y+_UCxg@mail.gmail.com>

On Sat, Nov 30, 2019 at 7:31 AM Thomas Robitaille <
thomas.robitaille at gmail.com> wrote:

> Hi Ralf,
>
> On Sat, 30 Nov 2019 at 01:41, Ralf Gommers <ralf.gommers at gmail.com> wrote:
> >
> >
> >
> > On Wed, Nov 27, 2019 at 1:32 AM Thomas Robitaille <
> thomas.robitaille at gmail.com> wrote:
> >>
> >> Hi Ralf and Prabhu,
> >>
> >> Thanks for your feedback! I should have clarified this originally, but
> >> pyproject.toml (in oldest-supported-numpy) is not the right place to
> >> define the Numpy pinnings since pyproject build requirements are only
> >> relevant for building wheels of oldest-supported-numpy (they would not
> >> be inherited by downstream packages using oldest-supported-numpy).
> >> Numpy needs to be a runtime dependency of oldest-supported-numpy
> >> because in this case 'runtime' means inside the downstream build
> >> environment.
> >>
> >> In fact, I deliberately have only published a universal wheel (no
> >> sdist) on PyPI for oldest-supported-numpy which means that
> >> pyproject.toml would never actually be used, and in addition this
> >> means that setuptools will not get invoked in the process either. The
> >> oldest-supported-numpy wheel only contains a bunch of metadata (no
> >> setup.cfg or setup.py) of which the main one that is relevant here is
> >> Requires-Dist which I think will be directly interpreted by pip.
> >
> >
> > Ah yes, that sounds correct.
> >
> > So back to your original question: do we want to maintain this under the
> SciPy org. It sounds like a useful idea to me. What do others think?
> >
> > Also Tom, do you want to remain one of the maintainers of this package
> when we move it under https://github.com/scipy/?
>
> I'd be happy to still be one of the maintainers - I would just be more
> comfortable with not being a single point of failure if this becomes a
> build-time dependency for a number of packages, hence why I thought it
> would make sense to live under a community organization like scipy.
>

Sounds good to me. It looks like there are no concerns. So let's try and
finalize this I'd say. If you could send a transfer request for the repo, I
can accept that, set up a new team under the SciPy GitHub org, and make you
an admin of the team. And also give the whole SciPy team write access.

Cheers,
Ralf




> Thanks!
> Tom
>
> > Cheers,
> > Ralf
> >
> >
> >> I  will double check with the pip folks but I think that this means that
> >> this approach should be equivalent to pinning numpy manually.
> >>
> >> Cheers,
> >> Tom
> >>
> >> On Wed, 27 Nov 2019 at 05:18, Prabhu Ramachandran
> >> <prabhu at aero.iitb.ac.in> wrote:
> >> >
> >> > Hi Thomas,
> >> >
> >> > Thanks for doing this, I think this would be very useful for multiple
> projects that use numpy as a build dependency.  I agree with Ralf that it
> would perhaps make more sense to have a pyproject.toml with the correct
> requirements in the oldest-supported-numpy project in addition to or in
> place of the setup.cfg you have.
> >> >
> >> > Regards,
> >> > Prabhu
> >> >
> >> >
> >> > On 11/26/19 3:22 PM, Thomas Robitaille wrote:
> >> >
> >> > Hi all,
> >> >
> >> > As a developer of several packages that have numpy as a build-time
> >> > dependency, I've been having to specify pinned versions of numpy in
> >> > pyproject.toml files with environment markers, as is done by scipy:
> >> >
> >> > https://github.com/scipy/scipy/blob/master/pyproject.toml#L6
> >> >
> >> > I've also noticed that different packages are sometimes inconsistent
> >> > in what exact versions they use, and the scipy pinnings are also a
> >> > little more advanced since they take into account the platform too
> >> > (specifically the AIX case at the moment).
> >> >
> >> > [...]
> >> _______________________________________________
> >> SciPy-Dev mailing list
> >> SciPy-Dev at python.org
> >> https://mail.python.org/mailman/listinfo/scipy-dev
> >
> > _______________________________________________
> > SciPy-Dev mailing list
> > SciPy-Dev at python.org
> > https://mail.python.org/mailman/listinfo/scipy-dev
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From evgeny.burovskiy at gmail.com  Thu Dec 12 04:33:49 2019
From: evgeny.burovskiy at gmail.com (Evgeni Burovski)
Date: Thu, 12 Dec 2019 12:33:49 +0300
Subject: [SciPy-Dev] vectorization in stats.rv_continuous
In-Reply-To: <CAAbtOZdWMA2YneW-8D-Jgwj0B5555SSr3TRFnXzE9_gWqN9GmQ@mail.gmail.com>
References: <CAAbtOZdWMA2YneW-8D-Jgwj0B5555SSr3TRFnXzE9_gWqN9GmQ@mail.gmail.com>
Message-ID: <CAMRo0isiEZske8zmeT776i-cSHMjjg9QK3Y9kfKg9yY9UGd5XQ@mail.gmail.com>

There's a comment a few lines below,

Because of the *args argument of _mom0_sc, vectorize cannot count the
# number of arguments correctly.
If something changed in numpy, and this trickery is no longer needed, it'd
be nice to see it gone.


??, 11 ???. 2019 ?., 14:52 Andrew Nelson <andyfaff at gmail.com>:

> In rv_continuous there are several locations that use np.vectorize over
> single instance calculations. In those locations the vectorized function
> has an attribute `nin` changed, e.g.
> https://github.com/scipy/scipy/blob/master/scipy/stats/_distn_infrastructure.py#L1605
> .
>
> If I look up the code for np.vectorize there's no such attribute in the
> class. Is it now an obsolete attribute? If so, can it be removed?
>
> A.
>
> p.s. I've been experimenting with a way of speeding up the generic _ppf
> function. My local changes show significant speed improvement in a
> subclass, which speeds up rvs significantly. I'll have a look into
> submitting a PR.
> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From tyler.je.reddy at gmail.com  Mon Dec 16 19:37:05 2019
From: tyler.je.reddy at gmail.com (Tyler Reddy)
Date: Mon, 16 Dec 2019 17:37:05 -0700
Subject: [SciPy-Dev] ANN: SciPy 1.4.0
Message-ID: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Hi all,

On behalf of the SciPy development team I'm pleased to announce
the release of SciPy 1.4.0.

Sources and binary wheels can be found at:
https://pypi.org/project/scipy/
and at:
https://github.com/scipy/scipy/releases/tag/v1.4.0

One of a few ways to install this release with pip:

pip install scipy==1.4.0

==========================
SciPy 1.4.0 Release Notes
==========================

SciPy 1.4.0 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
1.4.x branch, and on adding new features on the master branch.

This release requires Python 3.5+ and NumPy >=1.13.3 (for Python 3.5, 3.6),
>=1.14.5 (for Python 3.7), >= 1.17.3 (for Python 3.8)

For running on PyPy, PyPy3 6.0+ and NumPy 1.15.0 are required.

Highlights of this release
----------------------------------

- a new submodule, `scipy.fft`, now supersedes `scipy.fftpack`; this
  means support for ``long double`` transforms, faster multi-dimensional
  transforms, improved algorithm time complexity, release of the global
  intepreter lock, and control over threading behavior
- support for ``pydata/sparse`` arrays in `scipy.sparse.linalg`
- substantial improvement to the documentation and functionality of
  several `scipy.special` functions, and some new additions
- the generalized inverse Gaussian distribution has been added to
  `scipy.stats`
- an implementation of the Edmonds-Karp algorithm in
  `scipy.sparse.csgraph.maximum_flow`
- `scipy.spatial.SphericalVoronoi` now supports n-dimensional input,
   has linear memory complexity, improved performance, and
   supports single-hemisphere generators


New features
============

Infrastructure
--------------------
Documentation can now be built with ``runtests.py --doc``

A ``Dockerfile`` is now available in the ``scipy/scipy-dev`` repository to
facilitate getting started with SciPy development.

`scipy.constants` improvements
---------------------------------------------
`scipy.constants` has been updated with the CODATA 2018 constants.


`scipy.fft` added
------------------------
`scipy.fft` is a new submodule that supersedes the `scipy.fftpack`
submodule.
For the most part, this is a drop-in replacement for ``numpy.fft`` and
`scipy.fftpack` alike. With some important differences, `scipy.fft`:
- uses NumPy's conventions for real transforms (``rfft``). This means the
return value is a complex array, half the size of the full ``fft`` output.
This is different from the output of ``fftpack`` which returned a real
array
representing complex components packed together.
- the inverse real to real transforms (``idct`` and ``idst``) are
normalized
for ``norm=None`` in thesame way as ``ifft``. This means the identity
``idct(dct(x)) == x`` is now ``True`` for all norm modes.
- does not include the convolutions or pseudo-differential operators
from ``fftpack``.

This submodule is based on the ``pypocketfft`` library, developed by the
author of ``pocketfft`` which was recently adopted by NumPy as well.
``pypocketfft`` offers a number of advantages over fortran ``FFTPACK``:
- support for long double (``np.longfloat``) precision transforms.
- faster multi-dimensional transforms using vectorisation
- Bluestein?s algorithm removes the worst-case ``O(n^2)`` complexity of
``FFTPACK``
- the global interpreter lock (``GIL``) is released during transforms
- optional multithreading of multi-dimensional transforms via the
``workers``
argument

Note that `scipy.fftpack` has not been deprecated and will continue to be
maintained but is now considered legacy. New code is recommended to use
`scipy.fft` instead, where possible.

`scipy.fftpack` improvements
----------------------------------------
`scipy.fftpack` now uses pypocketfft to perform its FFTs, offering the same
speed and accuracy benefits listed for scipy.fft above but without the
improved API.

`scipy.integrate` improvements
-------------------------------------------

The function `scipy.integrate.solve_ivp` now has an ``args`` argument.
This allows the user-defined functions passed to the function to have
additional parameters without having to create wrapper functions or
lambda expressions for them.

`scipy.integrate.solve_ivp` can now return a ``y_events`` attribute
representing the solution of the ODE at event times

New ``OdeSolver`` is implemented --- ``DOP853``. This is a high-order
explicit
Runge-Kutta method originally implemented in Fortran. Now we provide a pure
Python implementation usable through ``solve_ivp`` with all its features.

`scipy.integrate.quad` provides better user feedback when break points are
specified with a weighted integrand.

`scipy.integrate.quad_vec` is now available for general purpose integration
of vector-valued functions


`scipy.interpolate` improvements
---------------------------------------------
`scipy.interpolate.pade` now handles complex input data gracefully

`scipy.interpolate.Rbf` can now interpolate multi-dimensional functions

`scipy.io` improvements
---------------------------------

`scipy.io.wavfile.read` can now read data from a `WAV` file that has a
malformed header, similar to other modern `WAV` file parsers

`scipy.io.FortranFile` now has an expanded set of available ``Exception``
classes for handling poorly-formatted files


`scipy.linalg` improvements
-------------------------------------
The function ``scipy.linalg.subspace_angles(A, B)`` now gives correct
results for complex-valued matrices. Before this, the function only returned
correct values for real-valued matrices.

New boolean keyword argument ``check_finite`` for `scipy.linalg.norm`;
whether
to check that the input matrix contains only finite numbers. Disabling may
give a performance gain, but may result in problems (crashes,
non-termination)
if the inputs do contain infinities or NaNs.

`scipy.linalg.solve_triangular` has improved performance for a C-ordered
triangular matrix

``LAPACK`` wrappers have been added for ``?geequ``, ``?geequb``,
``?syequb``,
and ``?heequb``

Some performance improvements may be observed due to an internal
optimization
in operations involving LAPACK routines via ``_compute_lwork``. This is
particularly true for operations on small arrays.

Block ``QR`` wrappers are now available in `scipy.linalg.lapack`


`scipy.ndimage` improvements
------------------------------------------


`scipy.optimize` improvements
------------------------------------------
It is now possible to use linear and non-linear constraints with
`scipy.optimize.differential_evolution`.

`scipy.optimize.linear_sum_assignment` has been re-written in C++ to
improve
performance, and now allows input costs to be infinite.

A ``ScalarFunction.fun_and_grad`` method was added for convenient
simultaneous
retrieval of a function and gradient evaluation

`scipy.optimize.minimize` ``BFGS`` method has improved performance by
avoiding
duplicate evaluations in some cases

Better user feedback is provided when an objective function returns an array
instead of a scalar.


`scipy.signal` improvements
--------------------------------------

Added a new function to calculate convolution using the overlap-add method,
named `scipy.signal.oaconvolve`. Like `scipy.signal.fftconvolve`, this
function supports specifying dimensions along which to do the convolution.

`scipy.signal.cwt` now supports complex wavelets.

The implementation of ``choose_conv_method`` has been updated to reflect
the
new FFT implementation. In addition, the performance has been significantly
improved (with rather drastic improvements in edge cases).

The function ``upfirdn`` now has a ``mode`` keyword argument that can be
used
to select the signal extension mode used at the signal boundaries. These
modes
are also available for use in ``resample_poly`` via a newly added
``padtype``
argument.

`scipy.signal.sosfilt` now benefits from Cython code for improved
performance

`scipy.signal.resample` should be more efficient by leveraging ``rfft`` when
possible

`scipy.sparse` improvements
---------------------------------------
It is now possible to use the LOBPCG method in `scipy.sparse.linalg.svds`.

`scipy.sparse.linalg.LinearOperator` now supports the operation ``rmatmat``
for adjoint matrix-matrix multiplication, in addition to ``rmatvec``.

Multiple stability updates enable float32 support in the LOBPCG eigenvalue
solver for symmetric and Hermitian eigenvalues problems in
``scipy.sparse.linalg.lobpcg``.

A solver for the maximum flow problem has been added as
`scipy.sparse.csgraph.maximum_flow`.

`scipy.sparse.csgraph.maximum_bipartite_matching` now allows non-square
inputs,
no longer requires a perfect matching to exist, and has improved
performance.

`scipy.sparse.lil_matrix` conversions now perform better in some scenarios

Basic support is available for ``pydata/sparse`` arrays in
`scipy.sparse.linalg`

`scipy.sparse.linalg.spsolve_triangular` now supports the ``unit_diagonal``
argument to improve call signature similarity with its dense counterpart,
`scipy.linalg.solve_triangular`

``assertAlmostEqual`` may now be used with sparse matrices, which have added
support for ``__round__``

`scipy.spatial` improvements
---------------------------------------
The bundled Qhull library was upgraded to version 2019.1, fixing several
issues. Scipy-specific patches are no longer applied to it.

`scipy.spatial.SphericalVoronoi` now has linear memory complexity, improved
performance, and supports single-hemisphere generators. Support has also
been
added for handling generators that lie on a great circle arc (geodesic
input)
and for generators in n-dimensions.

`scipy.spatial.transform.Rotation` now includes functions for calculation
of a
mean rotation, generation of the 3D rotation groups, and reduction of
rotations
with rotational symmetries.

`scipy.spatial.transform.Slerp` is now callable with a scalar argument

`scipy.spatial.voronoi_plot_2d` now supports furthest site Voronoi diagrams

`scipy.spatial.Delaunay` and `scipy.spatial.Voronoi` now have attributes
for tracking whether they are furthest site diagrams

`scipy.special` improvements
-----------------------------------------
The Voigt profile has been added as `scipy.special.voigt_profile`.

A real dispatch has been added for the Wright Omega function
(`scipy.special.wrightomega`).

The analytic continuation of the Riemann zeta function has been added. (The
Riemann zeta function is the one-argument variant of `scipy.special.zeta`.)

The complete elliptic integral of the first kind (`scipy.special.ellipk`)
is
now available in `scipy.special.cython_special`.

The accuracy of `scipy.special.hyp1f1` for real arguments has been improved.

The documentation of many functions has been improved.

`scipy.stats` improvements
-------------------------------------
`scipy.stats.multiscale_graphcorr` added as an independence test that
operates on high dimensional and nonlinear data sets. It has higher
statistical
power than other `scipy.stats` tests while being the only one that operates
on
multivariate data.

The generalized inverse Gaussian distribution (`scipy.stats.geninvgauss`)
has
been added.

It is now possible to efficiently reuse `scipy.stats.binned_statistic_dd`
with new values by providing the result of a previous call to the function.

`scipy.stats.hmean` now handles input with zeros more gracefully.

The beta-binomial distribution is now available in `scipy.stats.betabinom`.

`scipy.stats.zscore`, `scipy.stats.circmean`, `scipy.stats.circstd`, and
`scipy.stats.circvar` now support the ``nan_policy`` argument for enhanced
handling of ``NaN`` values

`scipy.stats.entropy` now accepts an ``axis`` argument

`scipy.stats.gaussian_kde.resample` now accepts a ``seed`` argument to
empower
reproducibility

`scipy.stats.kendalltau` performance has improved, especially for large
inputs,
due to improved cache usage

`scipy.stats.truncnorm` distribution has been rewritten to support much
wider
tails


Deprecated features
===================

`scipy` deprecations
-----------------------------
Support for NumPy functions exposed via the root SciPy namespace is
deprecated
and will be removed in 2.0.0. For example, if you use ``scipy.rand`` or
``scipy.diag``, you should change your code to directly use
``numpy.random.default_rng`` or ``numpy.diag``, respectively.
They remain available in the currently continuing Scipy 1.x release series.

The exception to this rule is using ``scipy.fft`` as a function --
:mod:`scipy.fft` is now meant to be used only as a module, so the ability to
call ``scipy.fft(...)`` will be removed in SciPy 1.5.0.

In `scipy.spatial.Rotation` methods ``from_dcm``, ``as_dcm`` were renamed
to
``from_matrix``, ``as_matrix`` respectively. The old names will be removed
in
SciPy 1.6.0.

Method ``Rotation.match_vectors`` was deprecated in favor of
``Rotation.align_vectors``, which provides a more logical and
general API to the same functionality. The old method
will be removed in SciPy 1.6.0.

Backwards incompatible changes
==========================

`scipy.special` changes
---------------------------------
The deprecated functions ``hyp2f0``, ``hyp1f2``, and ``hyp3f0`` have been
removed.

The deprecated function ``bessel_diff_formula`` has been removed.

The function ``i0`` is no longer registered with ``numpy.dual``, so that
``numpy.dual.i0`` will unconditionally refer to the NumPy version
regardless
of whether `scipy.special` is imported.

The function ``expn`` has been changed to return ``nan`` outside of its
domain of definition (``x, n < 0``) instead of ``inf``.

`scipy.sparse` changes
--------------------------------
Sparse matrix reshape now raises an error if shape is not two-dimensional,
rather than guessing what was meant. The behavior is now the same as before
SciPy 1.1.0.

``CSR`` and ``CSC`` sparse matrix classes should now return empty matrices
of the same type when indexed out of bounds. Previously, for some versions
of SciPy, this would raise an ``IndexError``. The change is largely
motivated
by greater consistency with ``ndarray`` and ``numpy.matrix`` semantics.

`scipy.signal` changes
-------------------------------
`scipy.signal.resample` behavior for length-1 signal inputs has been
fixed to output a constant (DC) value rather than an impulse, consistent
with
the assumption of signal periodicity in the FFT method.

`scipy.signal.cwt` now performs complex conjugation and time-reversal of
wavelet data, which is a backwards-incompatible bugfix for
time-asymmetric wavelets.

`scipy.stats` changes
------------------------------
`scipy.stats.loguniform` added with better documentation as (an alias for
``scipy.stats.reciprocal``). ``loguniform`` generates random variables
that are equally likely in the log space; e.g., ``1``, ``10`` and ``100``
are all equally likely if ``loguniform(10 ** 0, 10 ** 2).rvs()`` is used.


Other changes
=============
The ``LSODA`` method of `scipy.integrate.solve_ivp` now correctly detects
stiff
problems.

`scipy.spatial.cKDTree` now accepts and correctly handles empty input data

`scipy.stats.binned_statistic_dd` now calculates the standard deviation
statistic in a numerically stable way.

`scipy.stats.binned_statistic_dd` now throws an error if the input data
contains either ``np.nan`` or ``np.inf``. Similarly, in `scipy.stats` now
all
continuous distributions' ``.fit()`` methods throw an error if the input
data
contain any instance of either ``np.nan`` or ``np.inf``.


Authors
=======

* @endolith
* @wenhui-prudencemed +
* Abhinav +
* Anne Archibald
* ashwinpathak20nov1996 +
* Danilo Augusto +
* Nelson Auner +
* aypiggott +
* Christoph Baumgarten
* Peter Bell
* Sebastian Berg
* Arman Bilge +
* Benedikt Boecking +
* Christoph Boeddeker +
* Daniel Bunting
* Evgeni Burovski
* Angeline Burrell +
* Angeline G. Burrell +
* CJ Carey
* Carlos Ramos Carre?o +
* Mak Sze Chun +
* Malayaja Chutani +
* Christian Clauss +
* Jonathan Conroy +
* Stephen P Cook +
* Dylan Cutler +
* Anirudh Dagar +
* Aidan Dang +
* dankleeman +
* Brandon David +
* Tyler Dawson +
* Dieter Werthm?ller
* Joe Driscoll +
* Jakub Dyczek +
* D?vid Bodn?r
* Fletcher Easton +
* Stefan Endres
* etienne +
* Johann Faouzi
* Yu Feng
* Isuru Fernando +
* Matthew H Flamm
* Martin Gauch +
* Gabriel Gerlero +
* Ralf Gommers
* Chris Gorgolewski +
* Domen Gorjup +
* Edouard Goudenhoofdt +
* Jan Gwinner +
* Maja Gwozdz +
* Matt Haberland
* hadshirt +
* Pierre Haessig +
* David Hagen
* Charles Harris
* Gina Helfrich +
* Alex Henrie +
* Francisco J. Hernandez Heras +
* Andreas Hilboll
* Lindsey Hiltner
* Thomas Hisch
* Min ho Kim +
* Gert-Ludwig Ingold
* jakobjakobson13 +
* Todd Jennings
* He Jia
* Muhammad Firmansyah Kasim +
* Andrew Knyazev +
* Holger Kohr +
* Mateusz Konieczny +
* Krzysztof Pi?ro +
* Philipp Lang +
* Peter Mahler Larsen +
* Eric Larson
* Antony Lee
* Gregory R. Lee
* Chelsea Liu +
* Jesse Livezey
* Peter Lysakovski +
* Jason Manley +
* Michael Marien +
* Nikolay Mayorov
* G. D. McBain +
* Sam McCormack +
* Melissa Weber Mendon?a +
* Kevin Michel +
* mikeWShef +
* Sturla Molden
* Eric Moore
* Peyton Murray +
* Andrew Nelson
* Clement Ng +
* Juan Nunez-Iglesias
* Renee Otten +
* Kellie Ottoboni +
* Ayappan P
* Sambit Panda +
* Tapasweni Pathak +
* Oleksandr Pavlyk
* Fabian Pedregosa
* Petar Mlinari?
* Matti Picus
* Marcel Plch +
* Christoph Pohl +
* Ilhan Polat
* Siddhesh Poyarekar +
* Ioannis Prapas +
* James Alan Preiss +
* Yisheng Qiu +
* Eric Quintero
* Bharat Raghunathan +
* Tyler Reddy
* Joscha Reimer
* Antonio Horta Ribeiro
* Lucas Roberts
* rtshort +
* Josua Sassen
* Kevin Sheppard
* Scott Sievert
* Leo Singer
* Kai Striega
* S?ren Fuglede J?rgensen
* tborisow +
* ?tienne Tremblay +
* tuxcell +
* Miguel de Val-Borro
* Andrew Valentine +
* Hugo van Kemenade
* Paul van Mulbregt
* Sebastiano Vigna
* Pauli Virtanen
* Dany Vohl +
* Ben Walsh +
* Huize Wang +
* Warren Weckesser
* Anreas Weh +
* Joseph Weston +
* Adrian Wijaya +
* Timothy Willard +
* Josh Wilson
* Kentaro Yamamoto +
* Dave Zbarsky +

A total of 142 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 1.4.0
--------------------------------

* `#1255 <https://github.com/scipy/scipy/issues/1255>`__: maxiter broken
for Scipy.sparse.linalg gmres, in addition to...
* `#1301 <https://github.com/scipy/scipy/issues/1301>`__: consolidate
multipack.h from interpolate and integrate packages...
* `#1739 <https://github.com/scipy/scipy/issues/1739>`__: Single precision
FFT insufficiently accurate. (Trac #1212)
* `#1795 <https://github.com/scipy/scipy/issues/1795>`__: stats
test_distributions.py: replace old fuzz tests (Trac #1269)
* `#2233 <https://github.com/scipy/scipy/issues/2233>`__: fftpack segfault
with big arrays (Trac #1714)
* `#2434 <https://github.com/scipy/scipy/issues/2434>`__: rmatmat and the
sophistication of linear operator objects
* `#2477 <https://github.com/scipy/scipy/issues/2477>`__:
stats.truncnorm.rvs() does not give symmetric results for negative...
* `#2629 <https://github.com/scipy/scipy/issues/2629>`__: FFTpack is
unacceptably slow on non power of 2
* `#2883 <https://github.com/scipy/scipy/issues/2883>`__: UnboundLocalError
in scipy.interpolate.splrep
* `#2956 <https://github.com/scipy/scipy/issues/2956>`__: Feature Request:
axis argument for stats.entropy function
* `#3528 <https://github.com/scipy/scipy/issues/3528>`__: Segfault on
test_djbfft (possibly MKL-related?)
* `#3793 <https://github.com/scipy/scipy/issues/3793>`__: cwt should also
return complex array
* `#4464 <https://github.com/scipy/scipy/issues/4464>`__: TST:
residue/residuez/invres/invresz don't have any tests
* `#4561 <https://github.com/scipy/scipy/issues/4561>`__: BUG: tf filter
trailing and leading zeros in residuez
* `#4669 <https://github.com/scipy/scipy/issues/4669>`__: Rewrite sosfilt
to make a single loop over the input?
* `#5040 <https://github.com/scipy/scipy/issues/5040>`__: BUG: Empty data
handling of (c)KDTrees
* `#5112 <https://github.com/scipy/scipy/issues/5112>`__: boxcox transform
edge cases could use more care
* `#5441 <https://github.com/scipy/scipy/issues/5441>`__: scipy.stats.ncx2
fails for nc=0
* `#5502 <https://github.com/scipy/scipy/issues/5502>`__: args keyword not
handled in optimize.curve_fit
* `#6484 <https://github.com/scipy/scipy/issues/6484>`__: Qhull
segmentation fault
* `#6900 <https://github.com/scipy/scipy/issues/6900>`__:
linear_sum_assignment with infinite weights
* `#6966 <https://github.com/scipy/scipy/issues/6966>`__: Hypergeometric
Functions documentation is lacking
* `#6999 <https://github.com/scipy/scipy/issues/6999>`__: possible false
positive corruption check in compressed loadmat()
* `#7018 <https://github.com/scipy/scipy/issues/7018>`__: ydata that needs
broadcasting renders curve_fit unable to compute...
* `#7140 <https://github.com/scipy/scipy/issues/7140>`__: trouble with
documentation for windows
* `#7327 <https://github.com/scipy/scipy/issues/7327>`__:
interpolate.ndgriddata.griddata causes Python to crash rather...
* `#7396 <https://github.com/scipy/scipy/issues/7396>`__:
MatrixLinearOperator implements _adjoint(), but not _transpose()
* `#7400 <https://github.com/scipy/scipy/issues/7400>`__: BUG(?): special:
factorial and factorial2 return a 0-dimensional...
* `#7434 <https://github.com/scipy/scipy/issues/7434>`__: Testing of
scipy.stats continuous distributions misses 25 distributions
* `#7491 <https://github.com/scipy/scipy/issues/7491>`__: Several
scipy.stats distributions (fisk, burr, burr12, f) return...
* `#7759 <https://github.com/scipy/scipy/issues/7759>`__: Overflow in
stats.kruskal for large samples
* `#7906 <https://github.com/scipy/scipy/issues/7906>`__: Wrong result from
scipy.interpolate.UnivariateSpline.integral...
* `#8165 <https://github.com/scipy/scipy/issues/8165>`__: ENH: match
functionality of R for hmean
* `#8417 <https://github.com/scipy/scipy/issues/8417>`__:
optimimze.minimize(method='L-BFGS-B', options={'disp': True})...
* `#8535 <https://github.com/scipy/scipy/issues/8535>`__: Strictly
increasing requirement in UnivariateSpline
* `#8815 <https://github.com/scipy/scipy/issues/8815>`__: [BUG] GMRES:
number of iteration is only increased if callback...
* `#9207 <https://github.com/scipy/scipy/issues/9207>`__:
scipy.linalg.solve_triangular speed after scipy.linalg.lu_factor
* `#9275 <https://github.com/scipy/scipy/issues/9275>`__: new feature:
adding LOBPCG solver in svds in addition to ARPACK
* `#9403 <https://github.com/scipy/scipy/issues/9403>`__: range of
truncnorm.logpdf could be extended
* `#9429 <https://github.com/scipy/scipy/issues/9429>`__: gaussian_kde not
working with numpy matrix
* `#9515 <https://github.com/scipy/scipy/issues/9515>`__: ndimage
implementation relies on undefined behavior
* `#9643 <https://github.com/scipy/scipy/issues/9643>`__: arpack returns
singular values in ascending order
* `#9669 <https://github.com/scipy/scipy/issues/9669>`__: DOC:
matthew-brett/build-openblas has been retired
* `#9852 <https://github.com/scipy/scipy/issues/9852>`__:
scipy.spatial.ConvexHull exit with code 134, free(): invalid...
* `#9902 <https://github.com/scipy/scipy/issues/9902>`__:
scipy.stats.truncnorm second moment may be wrong
* `#9943 <https://github.com/scipy/scipy/issues/9943>`__: Custom sampling
methods in shgo do not work
* `#9947 <https://github.com/scipy/scipy/issues/9947>`__: DOC: Incorrect
documentation for \`nan_policy='propagate\` in...
* `#9994 <https://github.com/scipy/scipy/issues/9994>`__: BUG: sparse:
reshape method allows a shape containing an arbitrary...
* `#10036 <https://github.com/scipy/scipy/issues/10036>`__: Official Nelder
mead tutorial uses xtol instead of xatol, which...
* `#10078 <https://github.com/scipy/scipy/issues/10078>`__: possible to get
a better error message when objective function...
* `#10092 <https://github.com/scipy/scipy/issues/10092>`__: overflow in
truncnorm.rvs
* `#10121 <https://github.com/scipy/scipy/issues/10121>`__: A little
spelling mistake
* `#10126 <https://github.com/scipy/scipy/issues/10126>`__: inaccurate std
implementation in binned_statistic
* `#10161 <https://github.com/scipy/scipy/issues/10161>`__: Error in
documentation scipy.special.modstruve
* `#10195 <https://github.com/scipy/scipy/issues/10195>`__: Derivative of
spline with 'const' extrapolation is also extrapolted...
* `#10206 <https://github.com/scipy/scipy/issues/10206>`__: sparse matrices
indexing with scipy 1.3
* `#10236 <https://github.com/scipy/scipy/issues/10236>`__: Non-descriptive
error on type mismatch for functions of scipy.optimize...
* `#10258 <https://github.com/scipy/scipy/issues/10258>`__: LOBPCG
convergence failure if guess provided
* `#10262 <https://github.com/scipy/scipy/issues/10262>`__: distance matrix
lacks dtype checks / warnings
* `#10271 <https://github.com/scipy/scipy/issues/10271>`__: BUG: optimize
failure on wheels
* `#10277 <https://github.com/scipy/scipy/issues/10277>`__:
scipy.special.zeta(0) = NAN
* `#10292 <https://github.com/scipy/scipy/issues/10292>`__: DOC/REL: Some
sections of the release notes are not nested correctly.
* `#10300 <https://github.com/scipy/scipy/issues/10300>`__:
scipy.stats.rv_continuous.fit throws empty RuntimeError when...
* `#10319 <https://github.com/scipy/scipy/issues/10319>`__: events in
scipy.integrate.solve_ivp: How do I setup an events...
* `#10323 <https://github.com/scipy/scipy/issues/10323>`__: Adding more
low-level LAPACK wrappers
* `#10360 <https://github.com/scipy/scipy/issues/10360>`__: firwin2
inadvertently modifies input and may result in undefined...
* `#10388 <https://github.com/scipy/scipy/issues/10388>`__: BLD:
TestHerd::test_hetrd core dumps with Python-dbg
* `#10395 <https://github.com/scipy/scipy/issues/10395>`__: Remove warning
about output shape of zoom
* `#10403 <https://github.com/scipy/scipy/issues/10403>`__: DOC:
scipy.signal.resample ignores t parameter
* `#10421 <https://github.com/scipy/scipy/issues/10421>`__: Yeo-Johnson
power transformation fails with integer input data
* `#10422 <https://github.com/scipy/scipy/issues/10422>`__: BUG: scipy.fft
does not support multiprocessing
* `#10427 <https://github.com/scipy/scipy/issues/10427>`__: ENH: convolve
numbers should be updated
* `#10444 <https://github.com/scipy/scipy/issues/10444>`__: BUG:
scipy.spatial.transform.Rotation.match_vectors returns improper...
* `#10488 <https://github.com/scipy/scipy/issues/10488>`__: ENH: DCTs/DSTs
for scipy.fft
* `#10501 <https://github.com/scipy/scipy/issues/10501>`__: BUG:
scipy.spatial.HalfspaceIntersection works incorrectly
* `#10514 <https://github.com/scipy/scipy/issues/10514>`__: BUG: cKDTree
GIL handling is incorrect
* `#10535 <https://github.com/scipy/scipy/issues/10535>`__: TST: master
branch CI failures
* `#10588 <https://github.com/scipy/scipy/issues/10588>`__: scipy.fft and
numpy.fft inconsistency when axes=None and shape...
* `#10628 <https://github.com/scipy/scipy/issues/10628>`__: Scipy
python>3.6 Windows wheels don't ship msvcp\*.dll
* `#10733 <https://github.com/scipy/scipy/issues/10733>`__: DOC/BUG:
min_only result does not match documentation
* `#10774 <https://github.com/scipy/scipy/issues/10774>`__: min_only=true
djisktra infinite loop with duplicate indices
* `#10775 <https://github.com/scipy/scipy/issues/10775>`__:
UnboundLocalError in Radau when given a NaN
* `#10835 <https://github.com/scipy/scipy/issues/10835>`__: io.wavfile.read
unnecessarily raises an error for a bad wav header
* `#10838 <https://github.com/scipy/scipy/issues/10838>`__: Error in
documentation for scipy.linalg.lu_factor
* `#10875 <https://github.com/scipy/scipy/issues/10875>`__: DOC: Graphical
guides (using TikZ)
* `#10880 <https://github.com/scipy/scipy/issues/10880>`__: setting verbose
> 2 in minimize with trust-constr method leads...
* `#10887 <https://github.com/scipy/scipy/issues/10887>`__:
scipy.signal.signaltools._fftconv_faster has incorrect estimates
* `#10948 <https://github.com/scipy/scipy/issues/10948>`__: gammainc(0,x) =
nan but should be 1, gammaincc(0,x) = nan but...
* `#10952 <https://github.com/scipy/scipy/issues/10952>`__:
TestQRdelete_F.test_delete_last_p_col test failure
* `#10968 <https://github.com/scipy/scipy/issues/10968>`__: API: Change
normalized=False to normalize=True in Rotation
* `#10987 <https://github.com/scipy/scipy/issues/10987>`__: Memory leak in
shgo triangulation
* `#10991 <https://github.com/scipy/scipy/issues/10991>`__: Error running
openBlas probably missing a step
* `#11033 <https://github.com/scipy/scipy/issues/11033>`__: deadlock on osx
for python 3.8
* `#11041 <https://github.com/scipy/scipy/issues/11041>`__: Test failure in
wheel builds for TestTf2zpk.test_simple
* `#11089 <https://github.com/scipy/scipy/issues/11089>`__: Regression in
scipy.stats where distribution will not accept loc and scale parameters
* `#11100 <https://github.com/scipy/scipy/issues/11100>`__: BUG:
multiscale_graphcorr random state seeding and parallel use
* `#11121 <https://github.com/scipy/scipy/issues/11121>`__: Calls to
`scipy.interpolate.splprep` increase RAM usage.
* `#11125 <https://github.com/scipy/scipy/issues/11125>`__: BUG: segfault
when slicing a CSR or CSC sparse matrix with slice start index > stop index
* `#11198 <https://github.com/scipy/scipy/issues/11198>`__: BUG: sparse
eigs (arpack) shift-invert drops the smallest eigenvalue for some k

Pull requests for 1.4.0
-------------------------------

* `#4591 <https://github.com/scipy/scipy/pull/4591>`__: BUG, TST: Several
issues with scipy.signal.residue
* `#6629 <https://github.com/scipy/scipy/pull/6629>`__: ENH: sparse:
canonicalize on initialization
* `#7076 <https://github.com/scipy/scipy/pull/7076>`__: ENH: add complex
wavelet support to scipy.signal.cwt.
* `#8681 <https://github.com/scipy/scipy/pull/8681>`__: ENH add generalized
inverse Gaussian distribution to scipy.stats
* `#9064 <https://github.com/scipy/scipy/pull/9064>`__: BUG/ENH: Added
default _transpose into LinearOperator. Fixes...
* `#9215 <https://github.com/scipy/scipy/pull/9215>`__: ENH: Rbf
interpolation of large multi-dimensional data
* `#9311 <https://github.com/scipy/scipy/pull/9311>`__: ENH: Added voigt in
scipy.special.
* `#9642 <https://github.com/scipy/scipy/pull/9642>`__: ENH: integrate:
quad() for vector-valued functions
* `#9679 <https://github.com/scipy/scipy/pull/9679>`__: DOC: expand
docstring of exponweib distribution
* `#9684 <https://github.com/scipy/scipy/pull/9684>`__: TST: add ppc64le ci
testing
* `#9800 <https://github.com/scipy/scipy/pull/9800>`__: WIP : ENH:
Refactored _hungarian.py for speed and added a minimize/maximize?
* `#9847 <https://github.com/scipy/scipy/pull/9847>`__: DOC: Change
integrate tutorial to use solve_ivp instead of odeint
* `#9876 <https://github.com/scipy/scipy/pull/9876>`__: ENH: Use rfft when
possible in resampling
* `#9998 <https://github.com/scipy/scipy/pull/9998>`__: BUG: Do not remove
1s when calling sparse: reshape method #9994
* `#10002 <https://github.com/scipy/scipy/pull/10002>`__: ENH: adds
constraints for differential evolution
* `#10098 <https://github.com/scipy/scipy/pull/10098>`__: ENH: integrate:
add args argument to solve_ivp.
* `#10099 <https://github.com/scipy/scipy/pull/10099>`__: DOC: Add missing
docs for linprog unknown_options
* `#10104 <https://github.com/scipy/scipy/pull/10104>`__: BUG: Rewrite of
stats.truncnorm distribution.
* `#10105 <https://github.com/scipy/scipy/pull/10105>`__: MAINT improve
efficiency of rvs_ratio_uniforms in scipy.stats
* `#10107 <https://github.com/scipy/scipy/pull/10107>`__: TST:
dual_annealing set seed
* `#10108 <https://github.com/scipy/scipy/pull/10108>`__: ENH: stats:
improve kendall_tau cache usage
* `#10110 <https://github.com/scipy/scipy/pull/10110>`__: MAINT: _lib: Fix
a build warning.
* `#10114 <https://github.com/scipy/scipy/pull/10114>`__: FIX: only print
bounds when supported by minimizer (shgo)
* `#10115 <https://github.com/scipy/scipy/pull/10115>`__: TST: Add a test
with an almost singular design matrix for lsq_linear
* `#10118 <https://github.com/scipy/scipy/pull/10118>`__: MAINT: fix rdist
methods in scipy.stats
* `#10119 <https://github.com/scipy/scipy/pull/10119>`__: MAINT: improve
rvs of randint in scipy.stats
* `#10127 <https://github.com/scipy/scipy/pull/10127>`__: Fix typo in
record array field name (spatial-ckdtree-sparse_distance?
* `#10130 <https://github.com/scipy/scipy/pull/10130>`__: MAINT: ndimage:
Fix some compiler warnings.
* `#10131 <https://github.com/scipy/scipy/pull/10131>`__: DOC: Note the
solve_ivp args enhancement in the 1.4.0 release...
* `#10133 <https://github.com/scipy/scipy/pull/10133>`__: MAINT: add rvs
for semicircular in scipy.stats
* `#10138 <https://github.com/scipy/scipy/pull/10138>`__: BUG: special:
Invalid arguments to ellip_harm can crash Python.
* `#10139 <https://github.com/scipy/scipy/pull/10139>`__: MAINT: spatial:
Fix some compiler warnings in the file distance_wrap.c.
* `#10140 <https://github.com/scipy/scipy/pull/10140>`__: ENH: add handling
of NaN in RuntimeWarning except clause
* `#10142 <https://github.com/scipy/scipy/pull/10142>`__: DOC: return value
of scipy.special.comb
* `#10143 <https://github.com/scipy/scipy/pull/10143>`__: MAINT: Loosen
linprog tol
* `#10152 <https://github.com/scipy/scipy/pull/10152>`__: BUG: Fix custom
sampling input for shgo, add unittest
* `#10154 <https://github.com/scipy/scipy/pull/10154>`__: MAINT: add
moments and improve doc of mielke in scipy.stats
* `#10158 <https://github.com/scipy/scipy/pull/10158>`__: Issue #6999: read
zlib checksum before checking bytes read.
* `#10166 <https://github.com/scipy/scipy/pull/10166>`__: BUG: Correctly
handle broadcasted ydata in curve_fit pcov computation.
* `#10167 <https://github.com/scipy/scipy/pull/10167>`__: DOC: special: Add
missing factor of \`i\` to \`modstruve\` docstring
* `#10168 <https://github.com/scipy/scipy/pull/10168>`__: MAINT: stats: Fix
an incorrect comment.
* `#10169 <https://github.com/scipy/scipy/pull/10169>`__: ENH: optimize:
Clarify error when objective function returns...
* `#10172 <https://github.com/scipy/scipy/pull/10172>`__: DEV: Run tests in
parallel when --parallel flag is passed to...
* `#10173 <https://github.com/scipy/scipy/pull/10173>`__: ENH: Implement
DOP853 ODE integrator
* `#10176 <https://github.com/scipy/scipy/pull/10176>`__: Fixed typo
* `#10182 <https://github.com/scipy/scipy/pull/10182>`__: TST: fix test
issue for stats.pearsonr
* `#10184 <https://github.com/scipy/scipy/pull/10184>`__: MAINT: stats:
Simplify zmap and zscore (we can use keepdims now).
* `#10191 <https://github.com/scipy/scipy/pull/10191>`__: DOC: fix a
formatting issue in the scipy.spatial module docstring.
* `#10193 <https://github.com/scipy/scipy/pull/10193>`__: DOC: Updated
docstring for optimize.nnls
* `#10198 <https://github.com/scipy/scipy/pull/10198>`__: DOC, ENH:
special: Make \`hyp2f1\` references more specific
* `#10202 <https://github.com/scipy/scipy/pull/10202>`__: DOC: Format DST
and DCT definitions as latex equations
* `#10207 <https://github.com/scipy/scipy/pull/10207>`__: BUG: Compressed
matrix indexing should return a scalar
* `#10210 <https://github.com/scipy/scipy/pull/10210>`__: DOC: Update docs
for connection='weak' in connected_components
* `#10225 <https://github.com/scipy/scipy/pull/10225>`__: DOC: Clarify new
interfaces for legacy functions in 'optimize'
* `#10231 <https://github.com/scipy/scipy/pull/10231>`__: DOC, MAINT: gpg2
updates to release docs / pavement
* `#10235 <https://github.com/scipy/scipy/pull/10235>`__: LICENSE: split
license file in standard BSD 3-clause and bundled.
* `#10238 <https://github.com/scipy/scipy/pull/10238>`__: ENH: Add new
scipy.fft module using pocketfft
* `#10243 <https://github.com/scipy/scipy/pull/10243>`__: BUG: fix ARFF
reader regression with quoted values.
* `#10248 <https://github.com/scipy/scipy/pull/10248>`__: DOC: update
README file
* `#10255 <https://github.com/scipy/scipy/pull/10255>`__: CI: bump OpenBLAS
to match wheels
* `#10264 <https://github.com/scipy/scipy/pull/10264>`__: TST: add tests
for stats.tvar with unflattened arrays
* `#10280 <https://github.com/scipy/scipy/pull/10280>`__: MAINT: stats: Use
a constant value for sqrt(2/PI).
* `#10286 <https://github.com/scipy/scipy/pull/10286>`__: Development
Documentation Overhaul
* `#10290 <https://github.com/scipy/scipy/pull/10290>`__: MAINT: Deprecate
NumPy functions in SciPy root
* `#10291 <https://github.com/scipy/scipy/pull/10291>`__: FIX: Avoid
importing xdist when checking for availability
* `#10295 <https://github.com/scipy/scipy/pull/10295>`__: Disable
deprecated Numpy API in __odrpack.c
* `#10296 <https://github.com/scipy/scipy/pull/10296>`__: ENH: C++
extension for linear assignment problem
* `#10298 <https://github.com/scipy/scipy/pull/10298>`__: ENH: Made pade
function work with complex inputs
* `#10301 <https://github.com/scipy/scipy/pull/10301>`__: DOC: Fix critical
value significance levels in stats.anderson_ksamp
* `#10307 <https://github.com/scipy/scipy/pull/10307>`__: Minkowski
Distance Type Fix (issue #10262)
* `#10309 <https://github.com/scipy/scipy/pull/10309>`__: BUG: Pass
jac=None directly to lsoda
* `#10310 <https://github.com/scipy/scipy/pull/10310>`__: BUG: interpolate:
UnivariateSpline.derivative.ext is 'zeros'...
* `#10312 <https://github.com/scipy/scipy/pull/10312>`__: FIX: Fixing a
typo in a comment
* `#10314 <https://github.com/scipy/scipy/pull/10314>`__: scipy.spatial
enhancement request
* `#10315 <https://github.com/scipy/scipy/pull/10315>`__: DOC: Update
integration tutorial to solve_ivp
* `#10318 <https://github.com/scipy/scipy/pull/10318>`__: DOC: update the
example for PPoly.solve
* `#10333 <https://github.com/scipy/scipy/pull/10333>`__: TST: add tests
for stats.tvar with unflattened arrays
* `#10334 <https://github.com/scipy/scipy/pull/10334>`__: MAINT: special:
Remove deprecated \`hyp2f0\`, \`hyp1f2\`, and...
* `#10336 <https://github.com/scipy/scipy/pull/10336>`__: BUG:
linalg/interpolative: fix interp_decomp modifying input
* `#10341 <https://github.com/scipy/scipy/pull/10341>`__: BUG:
sparse.linalg/gmres: deprecate effect of callback on semantics...
* `#10344 <https://github.com/scipy/scipy/pull/10344>`__: DOC: improve
wording of mathematical formulation
* `#10345 <https://github.com/scipy/scipy/pull/10345>`__: ENH: Tiled QR
wrappers for scipy.linalg.lapack
* `#10350 <https://github.com/scipy/scipy/pull/10350>`__: MAINT: linalg:
Use the new fft subpackage in linalg.dft test...
* `#10351 <https://github.com/scipy/scipy/pull/10351>`__: BUG: Fix unstable
standard deviation calculation in histogram
* `#10353 <https://github.com/scipy/scipy/pull/10353>`__: Bug:
interpolate.NearestNDInterpolator (issue #10352)
* `#10357 <https://github.com/scipy/scipy/pull/10357>`__: DOC: linalg:
Refer to scipy.fft.fft (not fftpack) in the dft...
* `#10359 <https://github.com/scipy/scipy/pull/10359>`__: DOC: Update
roadmap now scipy.fft has been merged
* `#10361 <https://github.com/scipy/scipy/pull/10361>`__: ENH: Prefer
scipy.fft to scipy.fftpack in scipy.signal
* `#10371 <https://github.com/scipy/scipy/pull/10371>`__: DOC: Tweaks to
fft documentation
* `#10372 <https://github.com/scipy/scipy/pull/10372>`__: DOC: Fix typos
* `#10377 <https://github.com/scipy/scipy/pull/10377>`__: TST, MAINT:
adjustments for pytest 5.0
* `#10378 <https://github.com/scipy/scipy/pull/10378>`__: ENH: _lib: allow
new np.random.Generator in check_random_state
* `#10379 <https://github.com/scipy/scipy/pull/10379>`__: BUG: sparse: set
writeability to be forward-compatible with numpy>=1.17
* `#10381 <https://github.com/scipy/scipy/pull/10381>`__: BUG: Fixes
gh-7491, pdf at x=0 of fisk/burr/burr12/f distributions.
* `#10387 <https://github.com/scipy/scipy/pull/10387>`__: ENH:
optimize/bfgs: don't evaluate twice at initial point for...
* `#10392 <https://github.com/scipy/scipy/pull/10392>`__: [DOC] Add an
example for _binned_statistic_dd
* `#10396 <https://github.com/scipy/scipy/pull/10396>`__: Remove warning
about output shape of zoom
* `#10397 <https://github.com/scipy/scipy/pull/10397>`__: ENH: Add
check_finite to sp.linalg.norm
* `#10399 <https://github.com/scipy/scipy/pull/10399>`__: ENH: Add
__round__ method to sparse matrix
* `#10407 <https://github.com/scipy/scipy/pull/10407>`__: MAINT: drop
pybind11 from install_requires, it's only build-time...
* `#10408 <https://github.com/scipy/scipy/pull/10408>`__: TST: use
pytest.raises, not numpy assert_raises
* `#10409 <https://github.com/scipy/scipy/pull/10409>`__: CI: uninstall
nose on Travis
* `#10410 <https://github.com/scipy/scipy/pull/10410>`__: [ENH] ncx2
dispatch to chi2 when nc=0
* `#10411 <https://github.com/scipy/scipy/pull/10411>`__: TST: optimize:
test should use assert_allclose for fp comparisons
* `#10414 <https://github.com/scipy/scipy/pull/10414>`__: DOC: add pybind11
to the other part of quickstart guides
* `#10417 <https://github.com/scipy/scipy/pull/10417>`__: DOC: special:
don't mark non-ufuncs with a \`[+]\`
* `#10423 <https://github.com/scipy/scipy/pull/10423>`__: FIX: Use
pybind11::isinstace to check array dtypes
* `#10424 <https://github.com/scipy/scipy/pull/10424>`__: DOC: add doctest
example for binary data for ttest_ind_from_stats
* `#10425 <https://github.com/scipy/scipy/pull/10425>`__: ENH: Add missing
Hermitian transforms to scipy.fft
* `#10426 <https://github.com/scipy/scipy/pull/10426>`__: MAINT: Fix doc
build bugs
* `#10431 <https://github.com/scipy/scipy/pull/10431>`__: Update numpy
version for AIX
* `#10433 <https://github.com/scipy/scipy/pull/10433>`__: MAINT: Minor
fixes for the stats
* `#10434 <https://github.com/scipy/scipy/pull/10434>`__: BUG: special:
make \`ndtri\` return NaN outside domain of definition
* `#10435 <https://github.com/scipy/scipy/pull/10435>`__: BUG: Allow
integer input data in scipy.stats.yeojohnson
* `#10438 <https://github.com/scipy/scipy/pull/10438>`__: [DOC] Add example
for kurtosis
* `#10440 <https://github.com/scipy/scipy/pull/10440>`__: ENH: special:
make \`ellipk\` a ufunc
* `#10443 <https://github.com/scipy/scipy/pull/10443>`__: MAINT: ndimage:
malloc fail check
* `#10447 <https://github.com/scipy/scipy/pull/10447>`__: BLD: Divert
output from test compiles into a temporary directory
* `#10451 <https://github.com/scipy/scipy/pull/10451>`__: MAINT: signal:
malloc fail check
* `#10455 <https://github.com/scipy/scipy/pull/10455>`__: BUG: special: fix
values of \`hyperu\` for negative \`x\`
* `#10456 <https://github.com/scipy/scipy/pull/10456>`__: DOC: Added
comment clarifying the call for dcsrch.f in lbfgsb.f
* `#10457 <https://github.com/scipy/scipy/pull/10457>`__: BUG: Allow
ckdtree to accept empty data input
* `#10459 <https://github.com/scipy/scipy/pull/10459>`__: BUG:TST: Compute
lwork safely
* `#10460 <https://github.com/scipy/scipy/pull/10460>`__: [DOC] Add example
to entropy
* `#10461 <https://github.com/scipy/scipy/pull/10461>`__: DOC: Quickstart
Guide updates
* `#10462 <https://github.com/scipy/scipy/pull/10462>`__: TST: special:
only show max atol/rtol for test points that failed
* `#10465 <https://github.com/scipy/scipy/pull/10465>`__: BUG: Correctly
align fft inputs
* `#10467 <https://github.com/scipy/scipy/pull/10467>`__: ENH: lower-memory
duplicate generator checking in spatial.SphericalVoronoi
* `#10470 <https://github.com/scipy/scipy/pull/10470>`__: ENH: Normalise
the inverse DCT/DST in scipy.fft
* `#10472 <https://github.com/scipy/scipy/pull/10472>`__: BENCH: adjust
timeout for slow setup_cache
* `#10475 <https://github.com/scipy/scipy/pull/10475>`__: CI: include
python debug for Travis-ci
* `#10476 <https://github.com/scipy/scipy/pull/10476>`__: TST: special: use
\`__tracebackhide__\` to get better error messages
* `#10477 <https://github.com/scipy/scipy/pull/10477>`__: ENH: faster
region building in spatial.SphericalVoronoi
* `#10479 <https://github.com/scipy/scipy/pull/10479>`__: BUG: stats: Fix a
few issues with the distributions' fit method.
* `#10480 <https://github.com/scipy/scipy/pull/10480>`__: Add RuntimeError
in _distn_infrastructure.py in fit() method
* `#10481 <https://github.com/scipy/scipy/pull/10481>`__: BENCH, MAINT:
wheel_cache_size has been renamed build_cache_size
* `#10494 <https://github.com/scipy/scipy/pull/10494>`__: ENH: faster
circumcenter calculation in spatial.SphericalVoronoi
* `#10500 <https://github.com/scipy/scipy/pull/10500>`__: Splrep
_curfit_cache global variable bugfix
* `#10503 <https://github.com/scipy/scipy/pull/10503>`__: BUG:
spatial/qhull: get HalfspaceIntersection.dual_points from...
* `#10506 <https://github.com/scipy/scipy/pull/10506>`__: DOC: interp2d,
note nearest neighbor extrapolation
* `#10507 <https://github.com/scipy/scipy/pull/10507>`__: MAINT: Remove
fortran fftpack library in favour of pypocketfft
* `#10508 <https://github.com/scipy/scipy/pull/10508>`__: TST: fix a bug in
the circular import test.
* `#10509 <https://github.com/scipy/scipy/pull/10509>`__: MAINT: Set up
_build_utils as subpackage
* `#10516 <https://github.com/scipy/scipy/pull/10516>`__: BUG: Use nogil
contexts in cKDTree
* `#10517 <https://github.com/scipy/scipy/pull/10517>`__: ENH: fftconvolve
should not FFT broadcastable axes
* `#10518 <https://github.com/scipy/scipy/pull/10518>`__: ENH: Speedup
fftconvolve
* `#10520 <https://github.com/scipy/scipy/pull/10520>`__: DOC: Proper .rst
formatting for deprecated features and Backwards...
* `#10523 <https://github.com/scipy/scipy/pull/10523>`__: DOC: Improve
scipy.signal.resample documentation
* `#10524 <https://github.com/scipy/scipy/pull/10524>`__: ENH: Add MGC to
scipy.stats
* `#10525 <https://github.com/scipy/scipy/pull/10525>`__: [ENH] ncx2.ppf
dispatch to chi2 when nc=0
* `#10526 <https://github.com/scipy/scipy/pull/10526>`__: DOC: clarify
laplacian normalization
* `#10528 <https://github.com/scipy/scipy/pull/10528>`__: API: Rename
scipy.fft DCT/DST shape argument to s
* `#10531 <https://github.com/scipy/scipy/pull/10531>`__: BUG: fixed
improper rotations in spatial.transform.rotation.match_vectors
* `#10533 <https://github.com/scipy/scipy/pull/10533>`__: [DOC] Add example
for winsorize function
* `#10539 <https://github.com/scipy/scipy/pull/10539>`__: MAINT: special:
don't register \`i0\` with \`numpy.dual\`
* `#10540 <https://github.com/scipy/scipy/pull/10540>`__: MAINT: Fix Travis
and Circle
* `#10542 <https://github.com/scipy/scipy/pull/10542>`__: MAINT:
interpolate: use cython_lapack
* `#10547 <https://github.com/scipy/scipy/pull/10547>`__: Feature request.
Add furthest site Voronoi diagrams to scipy.spatial.plotutils.
* `#10549 <https://github.com/scipy/scipy/pull/10549>`__: [BUG] Fix bug in
trimr when inclusive=False
* `#10552 <https://github.com/scipy/scipy/pull/10552>`__: add
scipy.signal.upfirdn signal extension modes
* `#10555 <https://github.com/scipy/scipy/pull/10555>`__: MAINT: special:
move \`c_misc\` into Cephes
* `#10556 <https://github.com/scipy/scipy/pull/10556>`__: [DOC] Add example
for trima
* `#10562 <https://github.com/scipy/scipy/pull/10562>`__: [DOC] Fix triple
string fo trimmed so that __doc__ can show...
* `#10563 <https://github.com/scipy/scipy/pull/10563>`__: improve
least_squares error msg for mismatched shape
* `#10564 <https://github.com/scipy/scipy/pull/10564>`__: ENH: linalg:
memoize get_lapack/blas_funcs to speed it up
* `#10566 <https://github.com/scipy/scipy/pull/10566>`__: ENH: add
implementation of solver for the maximum flow problem
* `#10567 <https://github.com/scipy/scipy/pull/10567>`__: BUG: spatial: use
c++11 construct for getting start of vector...
* `#10568 <https://github.com/scipy/scipy/pull/10568>`__: DOC: special:
small tweaks to the \`zetac\` docstring
* `#10571 <https://github.com/scipy/scipy/pull/10571>`__: [ENH]
Gaussian_kde can accept matrix dataset
* `#10574 <https://github.com/scipy/scipy/pull/10574>`__: ENH: linalg:
speed up _compute_lwork by avoiding numpy constructs
* `#10582 <https://github.com/scipy/scipy/pull/10582>`__: Fix typos with
typos in bundled libraries reverted
* `#10583 <https://github.com/scipy/scipy/pull/10583>`__: ENH: special: add
the analytic continuation of Riemann zeta
* `#10584 <https://github.com/scipy/scipy/pull/10584>`__: MAINT: special:
clean up \`special.__all__\`
* `#10586 <https://github.com/scipy/scipy/pull/10586>`__: BUG:
multidimensional scipy.fft functions should accept 's' rather...
* `#10587 <https://github.com/scipy/scipy/pull/10587>`__: BUG:
integrate/lsoda: never abort run, set error istate instead
* `#10594 <https://github.com/scipy/scipy/pull/10594>`__: API: Replicate
numpy's fftn behaviour when s is given but not...
* `#10599 <https://github.com/scipy/scipy/pull/10599>`__: DOC: dev: update
documentation vs. github pull request workflow...
* `#10603 <https://github.com/scipy/scipy/pull/10603>`__: MAINT: installer
scripts removed
* `#10604 <https://github.com/scipy/scipy/pull/10604>`__: MAINT: Change
c\*np.ones(...) to np.full(..., c, ...) in many...
* `#10608 <https://github.com/scipy/scipy/pull/10608>`__: Univariate
splines should require x to be strictly increasing...
* `#10613 <https://github.com/scipy/scipy/pull/10613>`__: ENH: Add seed
option for gaussian_kde.resample
* `#10614 <https://github.com/scipy/scipy/pull/10614>`__: ENH: Add parallel
computation to scipy.fft
* `#10615 <https://github.com/scipy/scipy/pull/10615>`__: MAINT:
interpolate: remove unused header file
* `#10616 <https://github.com/scipy/scipy/pull/10616>`__: MAINT: Clean up
32-bit platform xfail markers
* `#10618 <https://github.com/scipy/scipy/pull/10618>`__: BENCH: Added
'trust-constr' to minimize benchmarks
* `#10621 <https://github.com/scipy/scipy/pull/10621>`__: [MRG] multiple
stability updates in lobpcg
* `#10622 <https://github.com/scipy/scipy/pull/10622>`__: MAINT: forward
port 1.3.1 release notes
* `#10624 <https://github.com/scipy/scipy/pull/10624>`__: DOC: stats: Fix
spelling of 'support'.
* `#10627 <https://github.com/scipy/scipy/pull/10627>`__: DOC: stats: Add
references for the alpha distribution.
* `#10629 <https://github.com/scipy/scipy/pull/10629>`__: MAINT: special:
avoid overflow longer in \`zeta\` for negative...
* `#10630 <https://github.com/scipy/scipy/pull/10630>`__: TST: GH10271,
relax test assertion, fixes #10271
* `#10631 <https://github.com/scipy/scipy/pull/10631>`__: DOC: nelder-mean
uses xatol fixes #10036
* `#10633 <https://github.com/scipy/scipy/pull/10633>`__: BUG: interpolate:
integral(a, b) should be zero when both limits...
* `#10635 <https://github.com/scipy/scipy/pull/10635>`__: DOC: special:
complete hypergeometric functions documentation
* `#10636 <https://github.com/scipy/scipy/pull/10636>`__: BUG: special: use
series for \`hyp1f1\` when it converges rapidly
* `#10641 <https://github.com/scipy/scipy/pull/10641>`__: ENH: allow
matching of general bipartite graphs
* `#10643 <https://github.com/scipy/scipy/pull/10643>`__: ENH:
scipy.sparse.linalg.spsolve triangular unit diagonal
* `#10650 <https://github.com/scipy/scipy/pull/10650>`__: ENH: Cythonize
sosfilt
* `#10654 <https://github.com/scipy/scipy/pull/10654>`__: DOC: Vertical
alignment of table entries
* `#10655 <https://github.com/scipy/scipy/pull/10655>`__: ENH: Dockerfile
for scipy development
* `#10660 <https://github.com/scipy/scipy/pull/10660>`__: TST: clean up
tests for rvs in scipy.stats
* `#10664 <https://github.com/scipy/scipy/pull/10664>`__: Throw error on
non-finite input for binned_statistic_dd()
* `#10665 <https://github.com/scipy/scipy/pull/10665>`__: DOC: special:
improve the docstrings for \`gamma\` and \`gammasgn\`
* `#10669 <https://github.com/scipy/scipy/pull/10669>`__: TST: Update
scipy.fft real transform tests
* `#10670 <https://github.com/scipy/scipy/pull/10670>`__: DOC: Clarify docs
and error messages for scipy.signal.butter
* `#10672 <https://github.com/scipy/scipy/pull/10672>`__: ENH: return
solution attribute when using events in solve_ivp
* `#10675 <https://github.com/scipy/scipy/pull/10675>`__: MAINT: special:
add an explicit NaN check for \`iv\` arguments
* `#10679 <https://github.com/scipy/scipy/pull/10679>`__: DOC: special: Add
documentation for \`beta\` function
* `#10681 <https://github.com/scipy/scipy/pull/10681>`__: TST:
sparse.linalg: fix arnoldi test seed
* `#10682 <https://github.com/scipy/scipy/pull/10682>`__: DOC: special: Add
documentation for \`betainc\` function
* `#10684 <https://github.com/scipy/scipy/pull/10684>`__: TST: special:
require Mpmath 1.1.0 for \`test_hyperu_around_0\`
* `#10686 <https://github.com/scipy/scipy/pull/10686>`__: FIX: sphinx
isattributedescriptor is not available in sphinx...
* `#10687 <https://github.com/scipy/scipy/pull/10687>`__: DOC: added Docker
quickstart guide by @andyfaff
* `#10689 <https://github.com/scipy/scipy/pull/10689>`__: DOC: special:
clarify format of parameters/returns sections for...
* `#10690 <https://github.com/scipy/scipy/pull/10690>`__: DOC: special:
improve docstrings of incomplete gamma functions
* `#10692 <https://github.com/scipy/scipy/pull/10692>`__: ENH:
higher-dimensional input in \`spatial.SphericalVoronoi\`
* `#10694 <https://github.com/scipy/scipy/pull/10694>`__: ENH:
ScalarFunction.fun_and_grad
* `#10698 <https://github.com/scipy/scipy/pull/10698>`__: DOC: special: Add
documentation for \`betaincinv\`
* `#10699 <https://github.com/scipy/scipy/pull/10699>`__: MAINT: remove
time print lbfgsb fixes #8417
* `#10701 <https://github.com/scipy/scipy/pull/10701>`__: TST, MAINT: bump
OpenBLAS to 0.3.7 stable
* `#10702 <https://github.com/scipy/scipy/pull/10702>`__: DOC: clarify
iterations consume multiple function calls
* `#10703 <https://github.com/scipy/scipy/pull/10703>`__: DOC: iprint doc
lbfgsb closes #5482
* `#10708 <https://github.com/scipy/scipy/pull/10708>`__: TST: test
suggested in gh1758
* `#10710 <https://github.com/scipy/scipy/pull/10710>`__: ENH: Added
nan_policy to circ functions in \`stats\`
* `#10712 <https://github.com/scipy/scipy/pull/10712>`__: ENH: add axis
parameter to stats.entropy
* `#10714 <https://github.com/scipy/scipy/pull/10714>`__: DOC: Formatting
fix rv_continuous.expect docs
* `#10715 <https://github.com/scipy/scipy/pull/10715>`__: DOC: BLD: update
doc Makefile for python version; add scipy version...
* `#10717 <https://github.com/scipy/scipy/pull/10717>`__: MAINT: modernize
doc/Makefile
* `#10719 <https://github.com/scipy/scipy/pull/10719>`__: Enable setting
minres initial vector
* `#10720 <https://github.com/scipy/scipy/pull/10720>`__: DOC: silence
random warning in doc build for \`stats.binned_statistic_dd\`
* `#10724 <https://github.com/scipy/scipy/pull/10724>`__: DEV: Add doc
option to runtests.py
* `#10728 <https://github.com/scipy/scipy/pull/10728>`__: MAINT: get rid of
gramA, gramB text files that lobpcg tests leave...
* `#10732 <https://github.com/scipy/scipy/pull/10732>`__: DOC: add min_only
to docstring for Dijkstra's algorithm
* `#10734 <https://github.com/scipy/scipy/pull/10734>`__: DOC: spell out
difference between source and target in shortest...
* `#10735 <https://github.com/scipy/scipy/pull/10735>`__: Fix for Python 4
* `#10739 <https://github.com/scipy/scipy/pull/10739>`__: BUG:
optimize/slsqp: deal with singular BFGS update
* `#10741 <https://github.com/scipy/scipy/pull/10741>`__: ENH: LAPACK
wrappers for ?geequ, ?geequb, ?syequb, ?heequb
* `#10742 <https://github.com/scipy/scipy/pull/10742>`__: DOC: special: add
to the docstring of \`gammaln\`
* `#10743 <https://github.com/scipy/scipy/pull/10743>`__: ENH: special: add
a real dispatch for \`wrightomega\`
* `#10746 <https://github.com/scipy/scipy/pull/10746>`__: MAINT: Fix typos
in comments, docs and test name
* `#10747 <https://github.com/scipy/scipy/pull/10747>`__: Remove spurious
quotes
* `#10750 <https://github.com/scipy/scipy/pull/10750>`__: MAINT: make
cython code more precise
* `#10751 <https://github.com/scipy/scipy/pull/10751>`__: MAINT: Check that
scipy.linalg.lapack functions are documented
* `#10752 <https://github.com/scipy/scipy/pull/10752>`__: MAINT: special:
use \`sf_error\` in Cephes
* `#10755 <https://github.com/scipy/scipy/pull/10755>`__: DOC: cluster: Add
'See Also' and 'Examples' for kmeans2.
* `#10763 <https://github.com/scipy/scipy/pull/10763>`__: MAINT: list of
minimize methods
* `#10768 <https://github.com/scipy/scipy/pull/10768>`__: BUG: Fix corner
case for sos2zpk
* `#10773 <https://github.com/scipy/scipy/pull/10773>`__: Fix error type
for complex input to scipy.fftpack.rfft and irfft
* `#10776 <https://github.com/scipy/scipy/pull/10776>`__: ENH: handle
geodesic input in \`spatial.SphericalVoronoi\`
* `#10777 <https://github.com/scipy/scipy/pull/10777>`__: MAINT:
minimizer-->custom should handle the kinds of bounds/constrain?...
* `#10781 <https://github.com/scipy/scipy/pull/10781>`__: ENH:
solve_triangular C order improvement
* `#10787 <https://github.com/scipy/scipy/pull/10787>`__: Fix behavior of
\`exp1\` on branch cut and add docstring
* `#10789 <https://github.com/scipy/scipy/pull/10789>`__: DOC: special: add
parameters/returns doc sections for erfc/erfcx/erfi
* `#10790 <https://github.com/scipy/scipy/pull/10790>`__: Travis CI: sudo
is deprecated and Xenial is default distro
* `#10792 <https://github.com/scipy/scipy/pull/10792>`__: DOC: special: add
full docstring for \`expi\`
* `#10799 <https://github.com/scipy/scipy/pull/10799>`__: DOC: special: add
a complete docstring for \`expn\`
* `#10800 <https://github.com/scipy/scipy/pull/10800>`__: Docs edits (GSoD)
* `#10802 <https://github.com/scipy/scipy/pull/10802>`__: BUG: fix
UnboundLocalError in Radau (scipy#10775)
* `#10804 <https://github.com/scipy/scipy/pull/10804>`__: ENH: Speed up
next_fast_len with LRU cache
* `#10805 <https://github.com/scipy/scipy/pull/10805>`__: DOC: Fix
unbalanced quotes in signal.place_poles
* `#10809 <https://github.com/scipy/scipy/pull/10809>`__: ENH: Speed up
next_fast_len
* `#10810 <https://github.com/scipy/scipy/pull/10810>`__: ENH: Raise
catchable exceptions for bad Fortran files
* `#10811 <https://github.com/scipy/scipy/pull/10811>`__: MAINT: optimize:
Remove extra variable from _remove_redundancy_dense
* `#10813 <https://github.com/scipy/scipy/pull/10813>`__: MAINT: special:
Remove unused variables from _kolmogi and _smirnovi
* `#10815 <https://github.com/scipy/scipy/pull/10815>`__: DOC, API:
scipy.stats.reciprocal is "log-uniform"
* `#10816 <https://github.com/scipy/scipy/pull/10816>`__: MAINT: special:
remove deprecated \`bessel_diff_formula\`
* `#10817 <https://github.com/scipy/scipy/pull/10817>`__: DOC: special:
complete the docstring for \`fresnel\`
* `#10820 <https://github.com/scipy/scipy/pull/10820>`__: Fixed
compiler_helper.py to allow compilation with ICC on Linux
* `#10823 <https://github.com/scipy/scipy/pull/10823>`__: DOC: updated
reference guide text for consistency in writing...
* `#10825 <https://github.com/scipy/scipy/pull/10825>`__: MAINT: special:
change some features of the Voigt function
* `#10828 <https://github.com/scipy/scipy/pull/10828>`__: MAINT: integrate:
Remove unused variable from init_callback
* `#10830 <https://github.com/scipy/scipy/pull/10830>`__: Adding LOBPCG
solver in svds in addition to ARPACK
* `#10837 <https://github.com/scipy/scipy/pull/10837>`__: WIP: ENH:
reduction function for \`spatial.tranform.Rotation\`...
* `#10843 <https://github.com/scipy/scipy/pull/10843>`__: ENH: Adding
optional parameter to stats.zscores to allow for...
* `#10845 <https://github.com/scipy/scipy/pull/10845>`__: Rebase kruskal fix
* `#10847 <https://github.com/scipy/scipy/pull/10847>`__: remove redundant
__getitem__ from scipy.sparse.lil
* `#10848 <https://github.com/scipy/scipy/pull/10848>`__: Better handling
of empty (not missing) docstrings
* `#10849 <https://github.com/scipy/scipy/pull/10849>`__: ENH: implement
rmatmat for LinearOperator
* `#10850 <https://github.com/scipy/scipy/pull/10850>`__: MAINT :
Refactoring lil List of Lists
* `#10851 <https://github.com/scipy/scipy/pull/10851>`__: DOC: add a
generative art example to the scipy.spatial tutorial.
* `#10852 <https://github.com/scipy/scipy/pull/10852>`__: DOC: linalg:
fixed gh-10838 unused imports in example deleted
* `#10854 <https://github.com/scipy/scipy/pull/10854>`__: DOC: special: add
a full docstring for \`pdtr\`
* `#10861 <https://github.com/scipy/scipy/pull/10861>`__: ENH: option to
reuse binnumbers in stats.binned_statistic_dd
* `#10863 <https://github.com/scipy/scipy/pull/10863>`__: DOC: partial
standardization and validation of scipy.stats reference...
* `#10865 <https://github.com/scipy/scipy/pull/10865>`__: BUG: special: fix
incomplete gamma functions for infinite \`a\`
* `#10866 <https://github.com/scipy/scipy/pull/10866>`__: ENH: calculation
of mean in spatial.transform.Rotation
* `#10867 <https://github.com/scipy/scipy/pull/10867>`__: MAINT: Also store
latex directory
* `#10869 <https://github.com/scipy/scipy/pull/10869>`__: ENH: Implement
overlap-add convolution
* `#10870 <https://github.com/scipy/scipy/pull/10870>`__: ENH: Do not raise
EOF error if wavfile data read
* `#10876 <https://github.com/scipy/scipy/pull/10876>`__: ENH: Add
beta-binomial distribution to scipy.stats
* `#10878 <https://github.com/scipy/scipy/pull/10878>`__: MAINT: Update R
project URL
* `#10883 <https://github.com/scipy/scipy/pull/10883>`__: MAINT: (ndimage)
More robust check for output being a numpy dtype
* `#10884 <https://github.com/scipy/scipy/pull/10884>`__: DOC: Added
instructions on adding a new distribution to scipy.stats.
* `#10885 <https://github.com/scipy/scipy/pull/10885>`__: [BUG] fix lobpcg
with maxiter=None results in Exception
* `#10899 <https://github.com/scipy/scipy/pull/10899>`__: ENH: Match R
functionality for hmean
* `#10900 <https://github.com/scipy/scipy/pull/10900>`__: MAINT: stats: Use
keepdims to simplify a few lines in power_divergence.
* `#10901 <https://github.com/scipy/scipy/pull/10901>`__: ENH:
sparse/linalg: support pydata/sparse matrices
* `#10907 <https://github.com/scipy/scipy/pull/10907>`__: Check whether
\`maxiter\` is integer
* `#10912 <https://github.com/scipy/scipy/pull/10912>`__: ENH: warn user
that quad() ignores \`points=...\` when \`weight=...\`...
* `#10918 <https://github.com/scipy/scipy/pull/10918>`__: CI: fix Travis CI
py3.8 build
* `#10920 <https://github.com/scipy/scipy/pull/10920>`__: MAINT: Update
constants to codata 2018 values (second try)
* `#10921 <https://github.com/scipy/scipy/pull/10921>`__: ENH:
scipy.sparse.lil: tocsr accelerated
* `#10924 <https://github.com/scipy/scipy/pull/10924>`__: BUG: Forbid
passing 'args' as kwarg in scipy.optimize.curve_fit
* `#10928 <https://github.com/scipy/scipy/pull/10928>`__: DOC: Add examples
to io.wavfile docstrings
* `#10934 <https://github.com/scipy/scipy/pull/10934>`__: typo fix
* `#10935 <https://github.com/scipy/scipy/pull/10935>`__: BUG: Avoid
undefined behaviour on float to unsigned conversion
* `#10936 <https://github.com/scipy/scipy/pull/10936>`__: DOC: Added
missing example to stats.mstats.variation
* `#10939 <https://github.com/scipy/scipy/pull/10939>`__: ENH:
scipy.sparse.lil: tocsr accelerated depending on density
* `#10946 <https://github.com/scipy/scipy/pull/10946>`__: BUG: setting
verbose > 2 in minimize with trust-constr method...
* `#10947 <https://github.com/scipy/scipy/pull/10947>`__: DOC: special:
small improvements to the \`poch\` docstring
* `#10949 <https://github.com/scipy/scipy/pull/10949>`__: BUG: fix return
type of erlang_gen._argcheck
* `#10951 <https://github.com/scipy/scipy/pull/10951>`__: DOC: fixed Ricker
wavelet formula
* `#10954 <https://github.com/scipy/scipy/pull/10954>`__: BUG: special: fix
\`factorial\` return type for 0-d inputs
* `#10955 <https://github.com/scipy/scipy/pull/10955>`__: MAINT: Relax the
assert_unitary atol value
* `#10956 <https://github.com/scipy/scipy/pull/10956>`__: WIP: make
pdtr(int, double) be pdtr(double, double)
* `#10957 <https://github.com/scipy/scipy/pull/10957>`__: BUG: Ensure full
binary compatibility of long double test data
* `#10964 <https://github.com/scipy/scipy/pull/10964>`__: ENH: Make Slerp
callable with a scalar argument
* `#10972 <https://github.com/scipy/scipy/pull/10972>`__: BUG: Handle
complex gains in zpk2sos
* `#10975 <https://github.com/scipy/scipy/pull/10975>`__: TST: skip
test_kendalltau ppc64le
* `#10978 <https://github.com/scipy/scipy/pull/10978>`__: BUG: boxcox data
dimension and constancy check #5112
* `#10979 <https://github.com/scipy/scipy/pull/10979>`__: API: Rename dcm
to (rotation) matrix in Rotation class
* `#10981 <https://github.com/scipy/scipy/pull/10981>`__: MAINT: add
support for a==0 and x>0 edge case to igam and igamc
* `#10986 <https://github.com/scipy/scipy/pull/10986>`__: MAINT: Remove
direct imports from numpy in signaltools.py
* `#10988 <https://github.com/scipy/scipy/pull/10988>`__: BUG: signal:
fixed issue #10360
* `#10989 <https://github.com/scipy/scipy/pull/10989>`__: FIX
binned_statistic_dd Mac wheel test fails
* `#10990 <https://github.com/scipy/scipy/pull/10990>`__: BUG: Fix memory
leak in shgo triangulation
* `#10992 <https://github.com/scipy/scipy/pull/10992>`__: TST: Relax
tolerance in upfirdn test_modes
* `#10993 <https://github.com/scipy/scipy/pull/10993>`__: TST: bump
tolerance in optimize tests
* `#10997 <https://github.com/scipy/scipy/pull/10997>`__: MAINT: Rework
residue and residuez
* `#11001 <https://github.com/scipy/scipy/pull/11001>`__: DOC: Updated
Windows build tutorial
* `#11004 <https://github.com/scipy/scipy/pull/11004>`__: BUG:
integrate/quad_vec: fix several bugs in quad_vec
* `#11005 <https://github.com/scipy/scipy/pull/11005>`__: TST: add Python
3.8 Win CI
* `#11006 <https://github.com/scipy/scipy/pull/11006>`__: DOC: special: add
a reference for \`kl_div\`
* `#11012 <https://github.com/scipy/scipy/pull/11012>`__: MAINT: Rework
invres and invresz
* `#11015 <https://github.com/scipy/scipy/pull/11015>`__: DOC: special: add
references for \`rel_entr\`
* `#11017 <https://github.com/scipy/scipy/pull/11017>`__: DOC: numpydoc
validation of morestats.py
* `#11018 <https://github.com/scipy/scipy/pull/11018>`__: MAINT: Filter
unrelated warning
* `#11031 <https://github.com/scipy/scipy/pull/11031>`__: MAINT: update
choose_conv_method for pocketfft implementation
* `#11034 <https://github.com/scipy/scipy/pull/11034>`__: MAINT: TST: Skip
tests with multiprocessing that use "spawn"...
* `#11036 <https://github.com/scipy/scipy/pull/11036>`__: DOC: update
doc/README with some more useful content.
* `#11037 <https://github.com/scipy/scipy/pull/11037>`__: DOC: special: add
a complete docstring for \`rgamma\`
* `#11038 <https://github.com/scipy/scipy/pull/11038>`__: DOC: special: add
a reference for the polygamma function
* `#11042 <https://github.com/scipy/scipy/pull/11042>`__: TST: fix tf2zpk
test failure due to incorrect complex sorting.
* `#11044 <https://github.com/scipy/scipy/pull/11044>`__: MAINT:
choose_conv_method can choose fftconvolution for longcomplex
* `#11046 <https://github.com/scipy/scipy/pull/11046>`__: TST: Reduce
tolerance for ppc64le with reference lapack
* `#11048 <https://github.com/scipy/scipy/pull/11048>`__: DOC: special: add
reference for orthogonal polynomial functions
* `#11049 <https://github.com/scipy/scipy/pull/11049>`__: MAINT: proper
random number initialization and readability fix
* `#11051 <https://github.com/scipy/scipy/pull/11051>`__: MAINT: pep8
cleanup
* `#11054 <https://github.com/scipy/scipy/pull/11054>`__: TST: bump test
precision for dual_annealing SLSQP test
* `#11055 <https://github.com/scipy/scipy/pull/11055>`__: DOC: special: add
a reference for \`zeta\`
* `#11056 <https://github.com/scipy/scipy/pull/11056>`__: API: Deprecated
normalized keyword in Rotation
* `#11065 <https://github.com/scipy/scipy/pull/11065>`__: DOC: Ubuntu
Development Environment Quickstart should not modify...
* `#11066 <https://github.com/scipy/scipy/pull/11066>`__: BUG: skip
deprecation for numpy top-level types
* `#11067 <https://github.com/scipy/scipy/pull/11067>`__: DOC: updated
documentation for consistency in writing style
* `#11070 <https://github.com/scipy/scipy/pull/11070>`__: DOC: Amendment to
Ubuntu Development Environment Quickstart should...
* `#11073 <https://github.com/scipy/scipy/pull/11073>`__: DOC: fix 1.4.0
release notes
* `#11081 <https://github.com/scipy/scipy/pull/11081>`__: API: Replace
Rotation.match_vectors with align_vectors
* `#11083 <https://github.com/scipy/scipy/pull/11083>`__: DOC: more 1.4.0
release note fixes
* `#11092 <https://github.com/scipy/scipy/pull/11092>`__: BUG: stats: fix
freezing of some distributions
* `#11096 <https://github.com/scipy/scipy/pull/11096>`__: BUG:
scipy.sparse.csgraph: fixed issue #10774
* `#11124 <https://github.com/scipy/scipy/pull/11124>`__: fix Cython
warnings related to _stats.pyx
* `#11126 <https://github.com/scipy/scipy/pull/11126>`__: BUG:
interpolate/fitpack: fix memory leak in splprep
* `#11127 <https://github.com/scipy/scipy/pull/11127>`__: Avoid potential
segfault in CSR and CSC matrix indexing
* `#11152 <https://github.com/scipy/scipy/pull/11152>`__: BUG: Fix random
state bug multiscale_graphcorr
* `#11166 <https://github.com/scipy/scipy/pull/11166>`__: BUG: empty sparse
slice shapes
* `#11167 <https://github.com/scipy/scipy/pull/11167>`__: BUG: redundant
fft in signal.resample
* `#11181 <https://github.com/scipy/scipy/pull/11181>`__: TST: Fix
tolerance of tests for aarch64
* `#11182 <https://github.com/scipy/scipy/pull/11182>`__: TST: Bump up
tolerance for test_maxiter_worsening
* `#11199 <https://github.com/scipy/scipy/pull/11199>`__: BUG:
sparse.linalg: mistake in unsymm. real shift-invert ARPACK eigenvalue
selection

Checksums
=========

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From charlesr.harris at gmail.com  Mon Dec 16 19:48:07 2019
From: charlesr.harris at gmail.com (Charles R Harris)
Date: Mon, 16 Dec 2019 17:48:07 -0700
Subject: [SciPy-Dev] ANN: SciPy 1.4.0
In-Reply-To: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
References: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
Message-ID: <CAB6mnxKOEgm21RM2KbUihA6=rQTbpYAYApZvApOi74TkwX7X7g@mail.gmail.com>

On Mon, Dec 16, 2019 at 5:37 PM Tyler Reddy <tyler.je.reddy at gmail.com>
wrote:

> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA256
>
> Hi all,
>
> On behalf of the SciPy development team I'm pleased to announce
> the release of SciPy 1.4.0.
>
> Sources and binary wheels can be found at:
> https://pypi.org/project/scipy/
> and at:
> https://github.com/scipy/scipy/releases/tag/v1.4.0
>
> One of a few ways to install this release with pip:
>
> pip install scipy==1.4.0
>


Looks like a big release. Thanks Tyler.

Chuck
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From warren.weckesser at gmail.com  Mon Dec 16 20:13:07 2019
From: warren.weckesser at gmail.com (Warren Weckesser)
Date: Mon, 16 Dec 2019 20:13:07 -0500
Subject: [SciPy-Dev] ANN: SciPy 1.4.0
In-Reply-To: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
References: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
Message-ID: <CAGzF1udTb3DaOL=Ac71zHoZF-KvKz04rVbBGaAFnaEHA893ryQ@mail.gmail.com>

On 12/16/19, Tyler Reddy <tyler.je.reddy at gmail.com> wrote:
> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA256
>
> Hi all,
>
> On behalf of the SciPy development team I'm pleased to announce
> the release of SciPy 1.4.0.


Fantastic, thanks Tyler!

Warren


>
> Sources and binary wheels can be found at:
> https://pypi.org/project/scipy/
> and at:
> https://github.com/scipy/scipy/releases/tag/v1.4.0
>
> One of a few ways to install this release with pip:
>
> pip install scipy==1.4.0
>
> ==========================
> SciPy 1.4.0 Release Notes
> ==========================
>
> SciPy 1.4.0 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
> 1.4.x branch, and on adding new features on the master branch.
>
> This release requires Python 3.5+ and NumPy >=1.13.3 (for Python 3.5, 3.6),
>>=1.14.5 (for Python 3.7), >= 1.17.3 (for Python 3.8)
>
> For running on PyPy, PyPy3 6.0+ and NumPy 1.15.0 are required.
>
> Highlights of this release
> ----------------------------------
>
> - a new submodule, `scipy.fft`, now supersedes `scipy.fftpack`; this
>   means support for ``long double`` transforms, faster multi-dimensional
>   transforms, improved algorithm time complexity, release of the global
>   intepreter lock, and control over threading behavior
> - support for ``pydata/sparse`` arrays in `scipy.sparse.linalg`
> - substantial improvement to the documentation and functionality of
>   several `scipy.special` functions, and some new additions
> - the generalized inverse Gaussian distribution has been added to
>   `scipy.stats`
> - an implementation of the Edmonds-Karp algorithm in
>   `scipy.sparse.csgraph.maximum_flow`
> - `scipy.spatial.SphericalVoronoi` now supports n-dimensional input,
>    has linear memory complexity, improved performance, and
>    supports single-hemisphere generators
>
>
> New features
> ============
>
> Infrastructure
> --------------------
> Documentation can now be built with ``runtests.py --doc``
>
> A ``Dockerfile`` is now available in the ``scipy/scipy-dev`` repository to
> facilitate getting started with SciPy development.
>
> `scipy.constants` improvements
> ---------------------------------------------
> `scipy.constants` has been updated with the CODATA 2018 constants.
>
>
> `scipy.fft` added
> ------------------------
> `scipy.fft` is a new submodule that supersedes the `scipy.fftpack`
> submodule.
> For the most part, this is a drop-in replacement for ``numpy.fft`` and
> `scipy.fftpack` alike. With some important differences, `scipy.fft`:
> - uses NumPy's conventions for real transforms (``rfft``). This means the
> return value is a complex array, half the size of the full ``fft`` output.
> This is different from the output of ``fftpack`` which returned a real
> array
> representing complex components packed together.
> - the inverse real to real transforms (``idct`` and ``idst``) are
> normalized
> for ``norm=None`` in thesame way as ``ifft``. This means the identity
> ``idct(dct(x)) == x`` is now ``True`` for all norm modes.
> - does not include the convolutions or pseudo-differential operators
> from ``fftpack``.
>
> This submodule is based on the ``pypocketfft`` library, developed by the
> author of ``pocketfft`` which was recently adopted by NumPy as well.
> ``pypocketfft`` offers a number of advantages over fortran ``FFTPACK``:
> - support for long double (``np.longfloat``) precision transforms.
> - faster multi-dimensional transforms using vectorisation
> - Bluestein?s algorithm removes the worst-case ``O(n^2)`` complexity of
> ``FFTPACK``
> - the global interpreter lock (``GIL``) is released during transforms
> - optional multithreading of multi-dimensional transforms via the
> ``workers``
> argument
>
> Note that `scipy.fftpack` has not been deprecated and will continue to be
> maintained but is now considered legacy. New code is recommended to use
> `scipy.fft` instead, where possible.
>
> `scipy.fftpack` improvements
> ----------------------------------------
> `scipy.fftpack` now uses pypocketfft to perform its FFTs, offering the same
> speed and accuracy benefits listed for scipy.fft above but without the
> improved API.
>
> `scipy.integrate` improvements
> -------------------------------------------
>
> The function `scipy.integrate.solve_ivp` now has an ``args`` argument.
> This allows the user-defined functions passed to the function to have
> additional parameters without having to create wrapper functions or
> lambda expressions for them.
>
> `scipy.integrate.solve_ivp` can now return a ``y_events`` attribute
> representing the solution of the ODE at event times
>
> New ``OdeSolver`` is implemented --- ``DOP853``. This is a high-order
> explicit
> Runge-Kutta method originally implemented in Fortran. Now we provide a pure
> Python implementation usable through ``solve_ivp`` with all its features.
>
> `scipy.integrate.quad` provides better user feedback when break points are
> specified with a weighted integrand.
>
> `scipy.integrate.quad_vec` is now available for general purpose integration
> of vector-valued functions
>
>
> `scipy.interpolate` improvements
> ---------------------------------------------
> `scipy.interpolate.pade` now handles complex input data gracefully
>
> `scipy.interpolate.Rbf` can now interpolate multi-dimensional functions
>
> `scipy.io` improvements
> ---------------------------------
>
> `scipy.io.wavfile.read` can now read data from a `WAV` file that has a
> malformed header, similar to other modern `WAV` file parsers
>
> `scipy.io.FortranFile` now has an expanded set of available ``Exception``
> classes for handling poorly-formatted files
>
>
> `scipy.linalg` improvements
> -------------------------------------
> The function ``scipy.linalg.subspace_angles(A, B)`` now gives correct
> results for complex-valued matrices. Before this, the function only
> returned
> correct values for real-valued matrices.
>
> New boolean keyword argument ``check_finite`` for `scipy.linalg.norm`;
> whether
> to check that the input matrix contains only finite numbers. Disabling may
> give a performance gain, but may result in problems (crashes,
> non-termination)
> if the inputs do contain infinities or NaNs.
>
> `scipy.linalg.solve_triangular` has improved performance for a C-ordered
> triangular matrix
>
> ``LAPACK`` wrappers have been added for ``?geequ``, ``?geequb``,
> ``?syequb``,
> and ``?heequb``
>
> Some performance improvements may be observed due to an internal
> optimization
> in operations involving LAPACK routines via ``_compute_lwork``. This is
> particularly true for operations on small arrays.
>
> Block ``QR`` wrappers are now available in `scipy.linalg.lapack`
>
>
> `scipy.ndimage` improvements
> ------------------------------------------
>
>
> `scipy.optimize` improvements
> ------------------------------------------
> It is now possible to use linear and non-linear constraints with
> `scipy.optimize.differential_evolution`.
>
> `scipy.optimize.linear_sum_assignment` has been re-written in C++ to
> improve
> performance, and now allows input costs to be infinite.
>
> A ``ScalarFunction.fun_and_grad`` method was added for convenient
> simultaneous
> retrieval of a function and gradient evaluation
>
> `scipy.optimize.minimize` ``BFGS`` method has improved performance by
> avoiding
> duplicate evaluations in some cases
>
> Better user feedback is provided when an objective function returns an
> array
> instead of a scalar.
>
>
> `scipy.signal` improvements
> --------------------------------------
>
> Added a new function to calculate convolution using the overlap-add method,
> named `scipy.signal.oaconvolve`. Like `scipy.signal.fftconvolve`, this
> function supports specifying dimensions along which to do the convolution.
>
> `scipy.signal.cwt` now supports complex wavelets.
>
> The implementation of ``choose_conv_method`` has been updated to reflect
> the
> new FFT implementation. In addition, the performance has been significantly
> improved (with rather drastic improvements in edge cases).
>
> The function ``upfirdn`` now has a ``mode`` keyword argument that can be
> used
> to select the signal extension mode used at the signal boundaries. These
> modes
> are also available for use in ``resample_poly`` via a newly added
> ``padtype``
> argument.
>
> `scipy.signal.sosfilt` now benefits from Cython code for improved
> performance
>
> `scipy.signal.resample` should be more efficient by leveraging ``rfft``
> when
> possible
>
> `scipy.sparse` improvements
> ---------------------------------------
> It is now possible to use the LOBPCG method in `scipy.sparse.linalg.svds`.
>
> `scipy.sparse.linalg.LinearOperator` now supports the operation ``rmatmat``
> for adjoint matrix-matrix multiplication, in addition to ``rmatvec``.
>
> Multiple stability updates enable float32 support in the LOBPCG eigenvalue
> solver for symmetric and Hermitian eigenvalues problems in
> ``scipy.sparse.linalg.lobpcg``.
>
> A solver for the maximum flow problem has been added as
> `scipy.sparse.csgraph.maximum_flow`.
>
> `scipy.sparse.csgraph.maximum_bipartite_matching` now allows non-square
> inputs,
> no longer requires a perfect matching to exist, and has improved
> performance.
>
> `scipy.sparse.lil_matrix` conversions now perform better in some scenarios
>
> Basic support is available for ``pydata/sparse`` arrays in
> `scipy.sparse.linalg`
>
> `scipy.sparse.linalg.spsolve_triangular` now supports the ``unit_diagonal``
> argument to improve call signature similarity with its dense counterpart,
> `scipy.linalg.solve_triangular`
>
> ``assertAlmostEqual`` may now be used with sparse matrices, which have
> added
> support for ``__round__``
>
> `scipy.spatial` improvements
> ---------------------------------------
> The bundled Qhull library was upgraded to version 2019.1, fixing several
> issues. Scipy-specific patches are no longer applied to it.
>
> `scipy.spatial.SphericalVoronoi` now has linear memory complexity, improved
> performance, and supports single-hemisphere generators. Support has also
> been
> added for handling generators that lie on a great circle arc (geodesic
> input)
> and for generators in n-dimensions.
>
> `scipy.spatial.transform.Rotation` now includes functions for calculation
> of a
> mean rotation, generation of the 3D rotation groups, and reduction of
> rotations
> with rotational symmetries.
>
> `scipy.spatial.transform.Slerp` is now callable with a scalar argument
>
> `scipy.spatial.voronoi_plot_2d` now supports furthest site Voronoi diagrams
>
> `scipy.spatial.Delaunay` and `scipy.spatial.Voronoi` now have attributes
> for tracking whether they are furthest site diagrams
>
> `scipy.special` improvements
> -----------------------------------------
> The Voigt profile has been added as `scipy.special.voigt_profile`.
>
> A real dispatch has been added for the Wright Omega function
> (`scipy.special.wrightomega`).
>
> The analytic continuation of the Riemann zeta function has been added. (The
> Riemann zeta function is the one-argument variant of `scipy.special.zeta`.)
>
> The complete elliptic integral of the first kind (`scipy.special.ellipk`)
> is
> now available in `scipy.special.cython_special`.
>
> The accuracy of `scipy.special.hyp1f1` for real arguments has been
> improved.
>
> The documentation of many functions has been improved.
>
> `scipy.stats` improvements
> -------------------------------------
> `scipy.stats.multiscale_graphcorr` added as an independence test that
> operates on high dimensional and nonlinear data sets. It has higher
> statistical
> power than other `scipy.stats` tests while being the only one that operates
> on
> multivariate data.
>
> The generalized inverse Gaussian distribution (`scipy.stats.geninvgauss`)
> has
> been added.
>
> It is now possible to efficiently reuse `scipy.stats.binned_statistic_dd`
> with new values by providing the result of a previous call to the function.
>
> `scipy.stats.hmean` now handles input with zeros more gracefully.
>
> The beta-binomial distribution is now available in `scipy.stats.betabinom`.
>
> `scipy.stats.zscore`, `scipy.stats.circmean`, `scipy.stats.circstd`, and
> `scipy.stats.circvar` now support the ``nan_policy`` argument for enhanced
> handling of ``NaN`` values
>
> `scipy.stats.entropy` now accepts an ``axis`` argument
>
> `scipy.stats.gaussian_kde.resample` now accepts a ``seed`` argument to
> empower
> reproducibility
>
> `scipy.stats.kendalltau` performance has improved, especially for large
> inputs,
> due to improved cache usage
>
> `scipy.stats.truncnorm` distribution has been rewritten to support much
> wider
> tails
>
>
> Deprecated features
> ===================
>
> `scipy` deprecations
> -----------------------------
> Support for NumPy functions exposed via the root SciPy namespace is
> deprecated
> and will be removed in 2.0.0. For example, if you use ``scipy.rand`` or
> ``scipy.diag``, you should change your code to directly use
> ``numpy.random.default_rng`` or ``numpy.diag``, respectively.
> They remain available in the currently continuing Scipy 1.x release series.
>
> The exception to this rule is using ``scipy.fft`` as a function --
> :mod:`scipy.fft` is now meant to be used only as a module, so the ability
> to
> call ``scipy.fft(...)`` will be removed in SciPy 1.5.0.
>
> In `scipy.spatial.Rotation` methods ``from_dcm``, ``as_dcm`` were renamed
> to
> ``from_matrix``, ``as_matrix`` respectively. The old names will be removed
> in
> SciPy 1.6.0.
>
> Method ``Rotation.match_vectors`` was deprecated in favor of
> ``Rotation.align_vectors``, which provides a more logical and
> general API to the same functionality. The old method
> will be removed in SciPy 1.6.0.
>
> Backwards incompatible changes
> ==========================
>
> `scipy.special` changes
> ---------------------------------
> The deprecated functions ``hyp2f0``, ``hyp1f2``, and ``hyp3f0`` have been
> removed.
>
> The deprecated function ``bessel_diff_formula`` has been removed.
>
> The function ``i0`` is no longer registered with ``numpy.dual``, so that
> ``numpy.dual.i0`` will unconditionally refer to the NumPy version
> regardless
> of whether `scipy.special` is imported.
>
> The function ``expn`` has been changed to return ``nan`` outside of its
> domain of definition (``x, n < 0``) instead of ``inf``.
>
> `scipy.sparse` changes
> --------------------------------
> Sparse matrix reshape now raises an error if shape is not two-dimensional,
> rather than guessing what was meant. The behavior is now the same as before
> SciPy 1.1.0.
>
> ``CSR`` and ``CSC`` sparse matrix classes should now return empty matrices
> of the same type when indexed out of bounds. Previously, for some versions
> of SciPy, this would raise an ``IndexError``. The change is largely
> motivated
> by greater consistency with ``ndarray`` and ``numpy.matrix`` semantics.
>
> `scipy.signal` changes
> -------------------------------
> `scipy.signal.resample` behavior for length-1 signal inputs has been
> fixed to output a constant (DC) value rather than an impulse, consistent
> with
> the assumption of signal periodicity in the FFT method.
>
> `scipy.signal.cwt` now performs complex conjugation and time-reversal of
> wavelet data, which is a backwards-incompatible bugfix for
> time-asymmetric wavelets.
>
> `scipy.stats` changes
> ------------------------------
> `scipy.stats.loguniform` added with better documentation as (an alias for
> ``scipy.stats.reciprocal``). ``loguniform`` generates random variables
> that are equally likely in the log space; e.g., ``1``, ``10`` and ``100``
> are all equally likely if ``loguniform(10 ** 0, 10 ** 2).rvs()`` is used.
>
>
> Other changes
> =============
> The ``LSODA`` method of `scipy.integrate.solve_ivp` now correctly detects
> stiff
> problems.
>
> `scipy.spatial.cKDTree` now accepts and correctly handles empty input data
>
> `scipy.stats.binned_statistic_dd` now calculates the standard deviation
> statistic in a numerically stable way.
>
> `scipy.stats.binned_statistic_dd` now throws an error if the input data
> contains either ``np.nan`` or ``np.inf``. Similarly, in `scipy.stats` now
> all
> continuous distributions' ``.fit()`` methods throw an error if the input
> data
> contain any instance of either ``np.nan`` or ``np.inf``.
>
>
> Authors
> =======
>
> * @endolith
> * @wenhui-prudencemed +
> * Abhinav +
> * Anne Archibald
> * ashwinpathak20nov1996 +
> * Danilo Augusto +
> * Nelson Auner +
> * aypiggott +
> * Christoph Baumgarten
> * Peter Bell
> * Sebastian Berg
> * Arman Bilge +
> * Benedikt Boecking +
> * Christoph Boeddeker +
> * Daniel Bunting
> * Evgeni Burovski
> * Angeline Burrell +
> * Angeline G. Burrell +
> * CJ Carey
> * Carlos Ramos Carre?o +
> * Mak Sze Chun +
> * Malayaja Chutani +
> * Christian Clauss +
> * Jonathan Conroy +
> * Stephen P Cook +
> * Dylan Cutler +
> * Anirudh Dagar +
> * Aidan Dang +
> * dankleeman +
> * Brandon David +
> * Tyler Dawson +
> * Dieter Werthm?ller
> * Joe Driscoll +
> * Jakub Dyczek +
> * D?vid Bodn?r
> * Fletcher Easton +
> * Stefan Endres
> * etienne +
> * Johann Faouzi
> * Yu Feng
> * Isuru Fernando +
> * Matthew H Flamm
> * Martin Gauch +
> * Gabriel Gerlero +
> * Ralf Gommers
> * Chris Gorgolewski +
> * Domen Gorjup +
> * Edouard Goudenhoofdt +
> * Jan Gwinner +
> * Maja Gwozdz +
> * Matt Haberland
> * hadshirt +
> * Pierre Haessig +
> * David Hagen
> * Charles Harris
> * Gina Helfrich +
> * Alex Henrie +
> * Francisco J. Hernandez Heras +
> * Andreas Hilboll
> * Lindsey Hiltner
> * Thomas Hisch
> * Min ho Kim +
> * Gert-Ludwig Ingold
> * jakobjakobson13 +
> * Todd Jennings
> * He Jia
> * Muhammad Firmansyah Kasim +
> * Andrew Knyazev +
> * Holger Kohr +
> * Mateusz Konieczny +
> * Krzysztof Pi?ro +
> * Philipp Lang +
> * Peter Mahler Larsen +
> * Eric Larson
> * Antony Lee
> * Gregory R. Lee
> * Chelsea Liu +
> * Jesse Livezey
> * Peter Lysakovski +
> * Jason Manley +
> * Michael Marien +
> * Nikolay Mayorov
> * G. D. McBain +
> * Sam McCormack +
> * Melissa Weber Mendon?a +
> * Kevin Michel +
> * mikeWShef +
> * Sturla Molden
> * Eric Moore
> * Peyton Murray +
> * Andrew Nelson
> * Clement Ng +
> * Juan Nunez-Iglesias
> * Renee Otten +
> * Kellie Ottoboni +
> * Ayappan P
> * Sambit Panda +
> * Tapasweni Pathak +
> * Oleksandr Pavlyk
> * Fabian Pedregosa
> * Petar Mlinari?
> * Matti Picus
> * Marcel Plch +
> * Christoph Pohl +
> * Ilhan Polat
> * Siddhesh Poyarekar +
> * Ioannis Prapas +
> * James Alan Preiss +
> * Yisheng Qiu +
> * Eric Quintero
> * Bharat Raghunathan +
> * Tyler Reddy
> * Joscha Reimer
> * Antonio Horta Ribeiro
> * Lucas Roberts
> * rtshort +
> * Josua Sassen
> * Kevin Sheppard
> * Scott Sievert
> * Leo Singer
> * Kai Striega
> * S?ren Fuglede J?rgensen
> * tborisow +
> * ?tienne Tremblay +
> * tuxcell +
> * Miguel de Val-Borro
> * Andrew Valentine +
> * Hugo van Kemenade
> * Paul van Mulbregt
> * Sebastiano Vigna
> * Pauli Virtanen
> * Dany Vohl +
> * Ben Walsh +
> * Huize Wang +
> * Warren Weckesser
> * Anreas Weh +
> * Joseph Weston +
> * Adrian Wijaya +
> * Timothy Willard +
> * Josh Wilson
> * Kentaro Yamamoto +
> * Dave Zbarsky +
>
> A total of 142 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 1.4.0
> --------------------------------
>
> * `#1255 <https://github.com/scipy/scipy/issues/1255>`__: maxiter broken
> for Scipy.sparse.linalg gmres, in addition to...
> * `#1301 <https://github.com/scipy/scipy/issues/1301>`__: consolidate
> multipack.h from interpolate and integrate packages...
> * `#1739 <https://github.com/scipy/scipy/issues/1739>`__: Single precision
> FFT insufficiently accurate. (Trac #1212)
> * `#1795 <https://github.com/scipy/scipy/issues/1795>`__: stats
> test_distributions.py: replace old fuzz tests (Trac #1269)
> * `#2233 <https://github.com/scipy/scipy/issues/2233>`__: fftpack segfault
> with big arrays (Trac #1714)
> * `#2434 <https://github.com/scipy/scipy/issues/2434>`__: rmatmat and the
> sophistication of linear operator objects
> * `#2477 <https://github.com/scipy/scipy/issues/2477>`__:
> stats.truncnorm.rvs() does not give symmetric results for negative...
> * `#2629 <https://github.com/scipy/scipy/issues/2629>`__: FFTpack is
> unacceptably slow on non power of 2
> * `#2883 <https://github.com/scipy/scipy/issues/2883>`__: UnboundLocalError
> in scipy.interpolate.splrep
> * `#2956 <https://github.com/scipy/scipy/issues/2956>`__: Feature Request:
> axis argument for stats.entropy function
> * `#3528 <https://github.com/scipy/scipy/issues/3528>`__: Segfault on
> test_djbfft (possibly MKL-related?)
> * `#3793 <https://github.com/scipy/scipy/issues/3793>`__: cwt should also
> return complex array
> * `#4464 <https://github.com/scipy/scipy/issues/4464>`__: TST:
> residue/residuez/invres/invresz don't have any tests
> * `#4561 <https://github.com/scipy/scipy/issues/4561>`__: BUG: tf filter
> trailing and leading zeros in residuez
> * `#4669 <https://github.com/scipy/scipy/issues/4669>`__: Rewrite sosfilt
> to make a single loop over the input?
> * `#5040 <https://github.com/scipy/scipy/issues/5040>`__: BUG: Empty data
> handling of (c)KDTrees
> * `#5112 <https://github.com/scipy/scipy/issues/5112>`__: boxcox transform
> edge cases could use more care
> * `#5441 <https://github.com/scipy/scipy/issues/5441>`__: scipy.stats.ncx2
> fails for nc=0
> * `#5502 <https://github.com/scipy/scipy/issues/5502>`__: args keyword not
> handled in optimize.curve_fit
> * `#6484 <https://github.com/scipy/scipy/issues/6484>`__: Qhull
> segmentation fault
> * `#6900 <https://github.com/scipy/scipy/issues/6900>`__:
> linear_sum_assignment with infinite weights
> * `#6966 <https://github.com/scipy/scipy/issues/6966>`__: Hypergeometric
> Functions documentation is lacking
> * `#6999 <https://github.com/scipy/scipy/issues/6999>`__: possible false
> positive corruption check in compressed loadmat()
> * `#7018 <https://github.com/scipy/scipy/issues/7018>`__: ydata that needs
> broadcasting renders curve_fit unable to compute...
> * `#7140 <https://github.com/scipy/scipy/issues/7140>`__: trouble with
> documentation for windows
> * `#7327 <https://github.com/scipy/scipy/issues/7327>`__:
> interpolate.ndgriddata.griddata causes Python to crash rather...
> * `#7396 <https://github.com/scipy/scipy/issues/7396>`__:
> MatrixLinearOperator implements _adjoint(), but not _transpose()
> * `#7400 <https://github.com/scipy/scipy/issues/7400>`__: BUG(?): special:
> factorial and factorial2 return a 0-dimensional...
> * `#7434 <https://github.com/scipy/scipy/issues/7434>`__: Testing of
> scipy.stats continuous distributions misses 25 distributions
> * `#7491 <https://github.com/scipy/scipy/issues/7491>`__: Several
> scipy.stats distributions (fisk, burr, burr12, f) return...
> * `#7759 <https://github.com/scipy/scipy/issues/7759>`__: Overflow in
> stats.kruskal for large samples
> * `#7906 <https://github.com/scipy/scipy/issues/7906>`__: Wrong result from
> scipy.interpolate.UnivariateSpline.integral...
> * `#8165 <https://github.com/scipy/scipy/issues/8165>`__: ENH: match
> functionality of R for hmean
> * `#8417 <https://github.com/scipy/scipy/issues/8417>`__:
> optimimze.minimize(method='L-BFGS-B', options={'disp': True})...
> * `#8535 <https://github.com/scipy/scipy/issues/8535>`__: Strictly
> increasing requirement in UnivariateSpline
> * `#8815 <https://github.com/scipy/scipy/issues/8815>`__: [BUG] GMRES:
> number of iteration is only increased if callback...
> * `#9207 <https://github.com/scipy/scipy/issues/9207>`__:
> scipy.linalg.solve_triangular speed after scipy.linalg.lu_factor
> * `#9275 <https://github.com/scipy/scipy/issues/9275>`__: new feature:
> adding LOBPCG solver in svds in addition to ARPACK
> * `#9403 <https://github.com/scipy/scipy/issues/9403>`__: range of
> truncnorm.logpdf could be extended
> * `#9429 <https://github.com/scipy/scipy/issues/9429>`__: gaussian_kde not
> working with numpy matrix
> * `#9515 <https://github.com/scipy/scipy/issues/9515>`__: ndimage
> implementation relies on undefined behavior
> * `#9643 <https://github.com/scipy/scipy/issues/9643>`__: arpack returns
> singular values in ascending order
> * `#9669 <https://github.com/scipy/scipy/issues/9669>`__: DOC:
> matthew-brett/build-openblas has been retired
> * `#9852 <https://github.com/scipy/scipy/issues/9852>`__:
> scipy.spatial.ConvexHull exit with code 134, free(): invalid...
> * `#9902 <https://github.com/scipy/scipy/issues/9902>`__:
> scipy.stats.truncnorm second moment may be wrong
> * `#9943 <https://github.com/scipy/scipy/issues/9943>`__: Custom sampling
> methods in shgo do not work
> * `#9947 <https://github.com/scipy/scipy/issues/9947>`__: DOC: Incorrect
> documentation for \`nan_policy='propagate\` in...
> * `#9994 <https://github.com/scipy/scipy/issues/9994>`__: BUG: sparse:
> reshape method allows a shape containing an arbitrary...
> * `#10036 <https://github.com/scipy/scipy/issues/10036>`__: Official Nelder
> mead tutorial uses xtol instead of xatol, which...
> * `#10078 <https://github.com/scipy/scipy/issues/10078>`__: possible to get
> a better error message when objective function...
> * `#10092 <https://github.com/scipy/scipy/issues/10092>`__: overflow in
> truncnorm.rvs
> * `#10121 <https://github.com/scipy/scipy/issues/10121>`__: A little
> spelling mistake
> * `#10126 <https://github.com/scipy/scipy/issues/10126>`__: inaccurate std
> implementation in binned_statistic
> * `#10161 <https://github.com/scipy/scipy/issues/10161>`__: Error in
> documentation scipy.special.modstruve
> * `#10195 <https://github.com/scipy/scipy/issues/10195>`__: Derivative of
> spline with 'const' extrapolation is also extrapolted...
> * `#10206 <https://github.com/scipy/scipy/issues/10206>`__: sparse matrices
> indexing with scipy 1.3
> * `#10236 <https://github.com/scipy/scipy/issues/10236>`__: Non-descriptive
> error on type mismatch for functions of scipy.optimize...
> * `#10258 <https://github.com/scipy/scipy/issues/10258>`__: LOBPCG
> convergence failure if guess provided
> * `#10262 <https://github.com/scipy/scipy/issues/10262>`__: distance matrix
> lacks dtype checks / warnings
> * `#10271 <https://github.com/scipy/scipy/issues/10271>`__: BUG: optimize
> failure on wheels
> * `#10277 <https://github.com/scipy/scipy/issues/10277>`__:
> scipy.special.zeta(0) = NAN
> * `#10292 <https://github.com/scipy/scipy/issues/10292>`__: DOC/REL: Some
> sections of the release notes are not nested correctly.
> * `#10300 <https://github.com/scipy/scipy/issues/10300>`__:
> scipy.stats.rv_continuous.fit throws empty RuntimeError when...
> * `#10319 <https://github.com/scipy/scipy/issues/10319>`__: events in
> scipy.integrate.solve_ivp: How do I setup an events...
> * `#10323 <https://github.com/scipy/scipy/issues/10323>`__: Adding more
> low-level LAPACK wrappers
> * `#10360 <https://github.com/scipy/scipy/issues/10360>`__: firwin2
> inadvertently modifies input and may result in undefined...
> * `#10388 <https://github.com/scipy/scipy/issues/10388>`__: BLD:
> TestHerd::test_hetrd core dumps with Python-dbg
> * `#10395 <https://github.com/scipy/scipy/issues/10395>`__: Remove warning
> about output shape of zoom
> * `#10403 <https://github.com/scipy/scipy/issues/10403>`__: DOC:
> scipy.signal.resample ignores t parameter
> * `#10421 <https://github.com/scipy/scipy/issues/10421>`__: Yeo-Johnson
> power transformation fails with integer input data
> * `#10422 <https://github.com/scipy/scipy/issues/10422>`__: BUG: scipy.fft
> does not support multiprocessing
> * `#10427 <https://github.com/scipy/scipy/issues/10427>`__: ENH: convolve
> numbers should be updated
> * `#10444 <https://github.com/scipy/scipy/issues/10444>`__: BUG:
> scipy.spatial.transform.Rotation.match_vectors returns improper...
> * `#10488 <https://github.com/scipy/scipy/issues/10488>`__: ENH: DCTs/DSTs
> for scipy.fft
> * `#10501 <https://github.com/scipy/scipy/issues/10501>`__: BUG:
> scipy.spatial.HalfspaceIntersection works incorrectly
> * `#10514 <https://github.com/scipy/scipy/issues/10514>`__: BUG: cKDTree
> GIL handling is incorrect
> * `#10535 <https://github.com/scipy/scipy/issues/10535>`__: TST: master
> branch CI failures
> * `#10588 <https://github.com/scipy/scipy/issues/10588>`__: scipy.fft and
> numpy.fft inconsistency when axes=None and shape...
> * `#10628 <https://github.com/scipy/scipy/issues/10628>`__: Scipy
> python>3.6 Windows wheels don't ship msvcp\*.dll
> * `#10733 <https://github.com/scipy/scipy/issues/10733>`__: DOC/BUG:
> min_only result does not match documentation
> * `#10774 <https://github.com/scipy/scipy/issues/10774>`__: min_only=true
> djisktra infinite loop with duplicate indices
> * `#10775 <https://github.com/scipy/scipy/issues/10775>`__:
> UnboundLocalError in Radau when given a NaN
> * `#10835 <https://github.com/scipy/scipy/issues/10835>`__: io.wavfile.read
> unnecessarily raises an error for a bad wav header
> * `#10838 <https://github.com/scipy/scipy/issues/10838>`__: Error in
> documentation for scipy.linalg.lu_factor
> * `#10875 <https://github.com/scipy/scipy/issues/10875>`__: DOC: Graphical
> guides (using TikZ)
> * `#10880 <https://github.com/scipy/scipy/issues/10880>`__: setting verbose
>> 2 in minimize with trust-constr method leads...
> * `#10887 <https://github.com/scipy/scipy/issues/10887>`__:
> scipy.signal.signaltools._fftconv_faster has incorrect estimates
> * `#10948 <https://github.com/scipy/scipy/issues/10948>`__: gammainc(0,x) =
> nan but should be 1, gammaincc(0,x) = nan but...
> * `#10952 <https://github.com/scipy/scipy/issues/10952>`__:
> TestQRdelete_F.test_delete_last_p_col test failure
> * `#10968 <https://github.com/scipy/scipy/issues/10968>`__: API: Change
> normalized=False to normalize=True in Rotation
> * `#10987 <https://github.com/scipy/scipy/issues/10987>`__: Memory leak in
> shgo triangulation
> * `#10991 <https://github.com/scipy/scipy/issues/10991>`__: Error running
> openBlas probably missing a step
> * `#11033 <https://github.com/scipy/scipy/issues/11033>`__: deadlock on osx
> for python 3.8
> * `#11041 <https://github.com/scipy/scipy/issues/11041>`__: Test failure in
> wheel builds for TestTf2zpk.test_simple
> * `#11089 <https://github.com/scipy/scipy/issues/11089>`__: Regression in
> scipy.stats where distribution will not accept loc and scale parameters
> * `#11100 <https://github.com/scipy/scipy/issues/11100>`__: BUG:
> multiscale_graphcorr random state seeding and parallel use
> * `#11121 <https://github.com/scipy/scipy/issues/11121>`__: Calls to
> `scipy.interpolate.splprep` increase RAM usage.
> * `#11125 <https://github.com/scipy/scipy/issues/11125>`__: BUG: segfault
> when slicing a CSR or CSC sparse matrix with slice start index > stop index
> * `#11198 <https://github.com/scipy/scipy/issues/11198>`__: BUG: sparse
> eigs (arpack) shift-invert drops the smallest eigenvalue for some k
>
> Pull requests for 1.4.0
> -------------------------------
>
> * `#4591 <https://github.com/scipy/scipy/pull/4591>`__: BUG, TST: Several
> issues with scipy.signal.residue
> * `#6629 <https://github.com/scipy/scipy/pull/6629>`__: ENH: sparse:
> canonicalize on initialization
> * `#7076 <https://github.com/scipy/scipy/pull/7076>`__: ENH: add complex
> wavelet support to scipy.signal.cwt.
> * `#8681 <https://github.com/scipy/scipy/pull/8681>`__: ENH add generalized
> inverse Gaussian distribution to scipy.stats
> * `#9064 <https://github.com/scipy/scipy/pull/9064>`__: BUG/ENH: Added
> default _transpose into LinearOperator. Fixes...
> * `#9215 <https://github.com/scipy/scipy/pull/9215>`__: ENH: Rbf
> interpolation of large multi-dimensional data
> * `#9311 <https://github.com/scipy/scipy/pull/9311>`__: ENH: Added voigt in
> scipy.special.
> * `#9642 <https://github.com/scipy/scipy/pull/9642>`__: ENH: integrate:
> quad() for vector-valued functions
> * `#9679 <https://github.com/scipy/scipy/pull/9679>`__: DOC: expand
> docstring of exponweib distribution
> * `#9684 <https://github.com/scipy/scipy/pull/9684>`__: TST: add ppc64le ci
> testing
> * `#9800 <https://github.com/scipy/scipy/pull/9800>`__: WIP : ENH:
> Refactored _hungarian.py for speed and added a minimize/maximize?
> * `#9847 <https://github.com/scipy/scipy/pull/9847>`__: DOC: Change
> integrate tutorial to use solve_ivp instead of odeint
> * `#9876 <https://github.com/scipy/scipy/pull/9876>`__: ENH: Use rfft when
> possible in resampling
> * `#9998 <https://github.com/scipy/scipy/pull/9998>`__: BUG: Do not remove
> 1s when calling sparse: reshape method #9994
> * `#10002 <https://github.com/scipy/scipy/pull/10002>`__: ENH: adds
> constraints for differential evolution
> * `#10098 <https://github.com/scipy/scipy/pull/10098>`__: ENH: integrate:
> add args argument to solve_ivp.
> * `#10099 <https://github.com/scipy/scipy/pull/10099>`__: DOC: Add missing
> docs for linprog unknown_options
> * `#10104 <https://github.com/scipy/scipy/pull/10104>`__: BUG: Rewrite of
> stats.truncnorm distribution.
> * `#10105 <https://github.com/scipy/scipy/pull/10105>`__: MAINT improve
> efficiency of rvs_ratio_uniforms in scipy.stats
> * `#10107 <https://github.com/scipy/scipy/pull/10107>`__: TST:
> dual_annealing set seed
> * `#10108 <https://github.com/scipy/scipy/pull/10108>`__: ENH: stats:
> improve kendall_tau cache usage
> * `#10110 <https://github.com/scipy/scipy/pull/10110>`__: MAINT: _lib: Fix
> a build warning.
> * `#10114 <https://github.com/scipy/scipy/pull/10114>`__: FIX: only print
> bounds when supported by minimizer (shgo)
> * `#10115 <https://github.com/scipy/scipy/pull/10115>`__: TST: Add a test
> with an almost singular design matrix for lsq_linear
> * `#10118 <https://github.com/scipy/scipy/pull/10118>`__: MAINT: fix rdist
> methods in scipy.stats
> * `#10119 <https://github.com/scipy/scipy/pull/10119>`__: MAINT: improve
> rvs of randint in scipy.stats
> * `#10127 <https://github.com/scipy/scipy/pull/10127>`__: Fix typo in
> record array field name (spatial-ckdtree-sparse_distance?
> * `#10130 <https://github.com/scipy/scipy/pull/10130>`__: MAINT: ndimage:
> Fix some compiler warnings.
> * `#10131 <https://github.com/scipy/scipy/pull/10131>`__: DOC: Note the
> solve_ivp args enhancement in the 1.4.0 release...
> * `#10133 <https://github.com/scipy/scipy/pull/10133>`__: MAINT: add rvs
> for semicircular in scipy.stats
> * `#10138 <https://github.com/scipy/scipy/pull/10138>`__: BUG: special:
> Invalid arguments to ellip_harm can crash Python.
> * `#10139 <https://github.com/scipy/scipy/pull/10139>`__: MAINT: spatial:
> Fix some compiler warnings in the file distance_wrap.c.
> * `#10140 <https://github.com/scipy/scipy/pull/10140>`__: ENH: add handling
> of NaN in RuntimeWarning except clause
> * `#10142 <https://github.com/scipy/scipy/pull/10142>`__: DOC: return value
> of scipy.special.comb
> * `#10143 <https://github.com/scipy/scipy/pull/10143>`__: MAINT: Loosen
> linprog tol
> * `#10152 <https://github.com/scipy/scipy/pull/10152>`__: BUG: Fix custom
> sampling input for shgo, add unittest
> * `#10154 <https://github.com/scipy/scipy/pull/10154>`__: MAINT: add
> moments and improve doc of mielke in scipy.stats
> * `#10158 <https://github.com/scipy/scipy/pull/10158>`__: Issue #6999: read
> zlib checksum before checking bytes read.
> * `#10166 <https://github.com/scipy/scipy/pull/10166>`__: BUG: Correctly
> handle broadcasted ydata in curve_fit pcov computation.
> * `#10167 <https://github.com/scipy/scipy/pull/10167>`__: DOC: special: Add
> missing factor of \`i\` to \`modstruve\` docstring
> * `#10168 <https://github.com/scipy/scipy/pull/10168>`__: MAINT: stats: Fix
> an incorrect comment.
> * `#10169 <https://github.com/scipy/scipy/pull/10169>`__: ENH: optimize:
> Clarify error when objective function returns...
> * `#10172 <https://github.com/scipy/scipy/pull/10172>`__: DEV: Run tests in
> parallel when --parallel flag is passed to...
> * `#10173 <https://github.com/scipy/scipy/pull/10173>`__: ENH: Implement
> DOP853 ODE integrator
> * `#10176 <https://github.com/scipy/scipy/pull/10176>`__: Fixed typo
> * `#10182 <https://github.com/scipy/scipy/pull/10182>`__: TST: fix test
> issue for stats.pearsonr
> * `#10184 <https://github.com/scipy/scipy/pull/10184>`__: MAINT: stats:
> Simplify zmap and zscore (we can use keepdims now).
> * `#10191 <https://github.com/scipy/scipy/pull/10191>`__: DOC: fix a
> formatting issue in the scipy.spatial module docstring.
> * `#10193 <https://github.com/scipy/scipy/pull/10193>`__: DOC: Updated
> docstring for optimize.nnls
> * `#10198 <https://github.com/scipy/scipy/pull/10198>`__: DOC, ENH:
> special: Make \`hyp2f1\` references more specific
> * `#10202 <https://github.com/scipy/scipy/pull/10202>`__: DOC: Format DST
> and DCT definitions as latex equations
> * `#10207 <https://github.com/scipy/scipy/pull/10207>`__: BUG: Compressed
> matrix indexing should return a scalar
> * `#10210 <https://github.com/scipy/scipy/pull/10210>`__: DOC: Update docs
> for connection='weak' in connected_components
> * `#10225 <https://github.com/scipy/scipy/pull/10225>`__: DOC: Clarify new
> interfaces for legacy functions in 'optimize'
> * `#10231 <https://github.com/scipy/scipy/pull/10231>`__: DOC, MAINT: gpg2
> updates to release docs / pavement
> * `#10235 <https://github.com/scipy/scipy/pull/10235>`__: LICENSE: split
> license file in standard BSD 3-clause and bundled.
> * `#10238 <https://github.com/scipy/scipy/pull/10238>`__: ENH: Add new
> scipy.fft module using pocketfft
> * `#10243 <https://github.com/scipy/scipy/pull/10243>`__: BUG: fix ARFF
> reader regression with quoted values.
> * `#10248 <https://github.com/scipy/scipy/pull/10248>`__: DOC: update
> README file
> * `#10255 <https://github.com/scipy/scipy/pull/10255>`__: CI: bump OpenBLAS
> to match wheels
> * `#10264 <https://github.com/scipy/scipy/pull/10264>`__: TST: add tests
> for stats.tvar with unflattened arrays
> * `#10280 <https://github.com/scipy/scipy/pull/10280>`__: MAINT: stats: Use
> a constant value for sqrt(2/PI).
> * `#10286 <https://github.com/scipy/scipy/pull/10286>`__: Development
> Documentation Overhaul
> * `#10290 <https://github.com/scipy/scipy/pull/10290>`__: MAINT: Deprecate
> NumPy functions in SciPy root
> * `#10291 <https://github.com/scipy/scipy/pull/10291>`__: FIX: Avoid
> importing xdist when checking for availability
> * `#10295 <https://github.com/scipy/scipy/pull/10295>`__: Disable
> deprecated Numpy API in __odrpack.c
> * `#10296 <https://github.com/scipy/scipy/pull/10296>`__: ENH: C++
> extension for linear assignment problem
> * `#10298 <https://github.com/scipy/scipy/pull/10298>`__: ENH: Made pade
> function work with complex inputs
> * `#10301 <https://github.com/scipy/scipy/pull/10301>`__: DOC: Fix critical
> value significance levels in stats.anderson_ksamp
> * `#10307 <https://github.com/scipy/scipy/pull/10307>`__: Minkowski
> Distance Type Fix (issue #10262)
> * `#10309 <https://github.com/scipy/scipy/pull/10309>`__: BUG: Pass
> jac=None directly to lsoda
> * `#10310 <https://github.com/scipy/scipy/pull/10310>`__: BUG: interpolate:
> UnivariateSpline.derivative.ext is 'zeros'...
> * `#10312 <https://github.com/scipy/scipy/pull/10312>`__: FIX: Fixing a
> typo in a comment
> * `#10314 <https://github.com/scipy/scipy/pull/10314>`__: scipy.spatial
> enhancement request
> * `#10315 <https://github.com/scipy/scipy/pull/10315>`__: DOC: Update
> integration tutorial to solve_ivp
> * `#10318 <https://github.com/scipy/scipy/pull/10318>`__: DOC: update the
> example for PPoly.solve
> * `#10333 <https://github.com/scipy/scipy/pull/10333>`__: TST: add tests
> for stats.tvar with unflattened arrays
> * `#10334 <https://github.com/scipy/scipy/pull/10334>`__: MAINT: special:
> Remove deprecated \`hyp2f0\`, \`hyp1f2\`, and...
> * `#10336 <https://github.com/scipy/scipy/pull/10336>`__: BUG:
> linalg/interpolative: fix interp_decomp modifying input
> * `#10341 <https://github.com/scipy/scipy/pull/10341>`__: BUG:
> sparse.linalg/gmres: deprecate effect of callback on semantics...
> * `#10344 <https://github.com/scipy/scipy/pull/10344>`__: DOC: improve
> wording of mathematical formulation
> * `#10345 <https://github.com/scipy/scipy/pull/10345>`__: ENH: Tiled QR
> wrappers for scipy.linalg.lapack
> * `#10350 <https://github.com/scipy/scipy/pull/10350>`__: MAINT: linalg:
> Use the new fft subpackage in linalg.dft test...
> * `#10351 <https://github.com/scipy/scipy/pull/10351>`__: BUG: Fix unstable
> standard deviation calculation in histogram
> * `#10353 <https://github.com/scipy/scipy/pull/10353>`__: Bug:
> interpolate.NearestNDInterpolator (issue #10352)
> * `#10357 <https://github.com/scipy/scipy/pull/10357>`__: DOC: linalg:
> Refer to scipy.fft.fft (not fftpack) in the dft...
> * `#10359 <https://github.com/scipy/scipy/pull/10359>`__: DOC: Update
> roadmap now scipy.fft has been merged
> * `#10361 <https://github.com/scipy/scipy/pull/10361>`__: ENH: Prefer
> scipy.fft to scipy.fftpack in scipy.signal
> * `#10371 <https://github.com/scipy/scipy/pull/10371>`__: DOC: Tweaks to
> fft documentation
> * `#10372 <https://github.com/scipy/scipy/pull/10372>`__: DOC: Fix typos
> * `#10377 <https://github.com/scipy/scipy/pull/10377>`__: TST, MAINT:
> adjustments for pytest 5.0
> * `#10378 <https://github.com/scipy/scipy/pull/10378>`__: ENH: _lib: allow
> new np.random.Generator in check_random_state
> * `#10379 <https://github.com/scipy/scipy/pull/10379>`__: BUG: sparse: set
> writeability to be forward-compatible with numpy>=1.17
> * `#10381 <https://github.com/scipy/scipy/pull/10381>`__: BUG: Fixes
> gh-7491, pdf at x=0 of fisk/burr/burr12/f distributions.
> * `#10387 <https://github.com/scipy/scipy/pull/10387>`__: ENH:
> optimize/bfgs: don't evaluate twice at initial point for...
> * `#10392 <https://github.com/scipy/scipy/pull/10392>`__: [DOC] Add an
> example for _binned_statistic_dd
> * `#10396 <https://github.com/scipy/scipy/pull/10396>`__: Remove warning
> about output shape of zoom
> * `#10397 <https://github.com/scipy/scipy/pull/10397>`__: ENH: Add
> check_finite to sp.linalg.norm
> * `#10399 <https://github.com/scipy/scipy/pull/10399>`__: ENH: Add
> __round__ method to sparse matrix
> * `#10407 <https://github.com/scipy/scipy/pull/10407>`__: MAINT: drop
> pybind11 from install_requires, it's only build-time...
> * `#10408 <https://github.com/scipy/scipy/pull/10408>`__: TST: use
> pytest.raises, not numpy assert_raises
> * `#10409 <https://github.com/scipy/scipy/pull/10409>`__: CI: uninstall
> nose on Travis
> * `#10410 <https://github.com/scipy/scipy/pull/10410>`__: [ENH] ncx2
> dispatch to chi2 when nc=0
> * `#10411 <https://github.com/scipy/scipy/pull/10411>`__: TST: optimize:
> test should use assert_allclose for fp comparisons
> * `#10414 <https://github.com/scipy/scipy/pull/10414>`__: DOC: add pybind11
> to the other part of quickstart guides
> * `#10417 <https://github.com/scipy/scipy/pull/10417>`__: DOC: special:
> don't mark non-ufuncs with a \`[+]\`
> * `#10423 <https://github.com/scipy/scipy/pull/10423>`__: FIX: Use
> pybind11::isinstace to check array dtypes
> * `#10424 <https://github.com/scipy/scipy/pull/10424>`__: DOC: add doctest
> example for binary data for ttest_ind_from_stats
> * `#10425 <https://github.com/scipy/scipy/pull/10425>`__: ENH: Add missing
> Hermitian transforms to scipy.fft
> * `#10426 <https://github.com/scipy/scipy/pull/10426>`__: MAINT: Fix doc
> build bugs
> * `#10431 <https://github.com/scipy/scipy/pull/10431>`__: Update numpy
> version for AIX
> * `#10433 <https://github.com/scipy/scipy/pull/10433>`__: MAINT: Minor
> fixes for the stats
> * `#10434 <https://github.com/scipy/scipy/pull/10434>`__: BUG: special:
> make \`ndtri\` return NaN outside domain of definition
> * `#10435 <https://github.com/scipy/scipy/pull/10435>`__: BUG: Allow
> integer input data in scipy.stats.yeojohnson
> * `#10438 <https://github.com/scipy/scipy/pull/10438>`__: [DOC] Add example
> for kurtosis
> * `#10440 <https://github.com/scipy/scipy/pull/10440>`__: ENH: special:
> make \`ellipk\` a ufunc
> * `#10443 <https://github.com/scipy/scipy/pull/10443>`__: MAINT: ndimage:
> malloc fail check
> * `#10447 <https://github.com/scipy/scipy/pull/10447>`__: BLD: Divert
> output from test compiles into a temporary directory
> * `#10451 <https://github.com/scipy/scipy/pull/10451>`__: MAINT: signal:
> malloc fail check
> * `#10455 <https://github.com/scipy/scipy/pull/10455>`__: BUG: special: fix
> values of \`hyperu\` for negative \`x\`
> * `#10456 <https://github.com/scipy/scipy/pull/10456>`__: DOC: Added
> comment clarifying the call for dcsrch.f in lbfgsb.f
> * `#10457 <https://github.com/scipy/scipy/pull/10457>`__: BUG: Allow
> ckdtree to accept empty data input
> * `#10459 <https://github.com/scipy/scipy/pull/10459>`__: BUG:TST: Compute
> lwork safely
> * `#10460 <https://github.com/scipy/scipy/pull/10460>`__: [DOC] Add example
> to entropy
> * `#10461 <https://github.com/scipy/scipy/pull/10461>`__: DOC: Quickstart
> Guide updates
> * `#10462 <https://github.com/scipy/scipy/pull/10462>`__: TST: special:
> only show max atol/rtol for test points that failed
> * `#10465 <https://github.com/scipy/scipy/pull/10465>`__: BUG: Correctly
> align fft inputs
> * `#10467 <https://github.com/scipy/scipy/pull/10467>`__: ENH: lower-memory
> duplicate generator checking in spatial.SphericalVoronoi
> * `#10470 <https://github.com/scipy/scipy/pull/10470>`__: ENH: Normalise
> the inverse DCT/DST in scipy.fft
> * `#10472 <https://github.com/scipy/scipy/pull/10472>`__: BENCH: adjust
> timeout for slow setup_cache
> * `#10475 <https://github.com/scipy/scipy/pull/10475>`__: CI: include
> python debug for Travis-ci
> * `#10476 <https://github.com/scipy/scipy/pull/10476>`__: TST: special: use
> \`__tracebackhide__\` to get better error messages
> * `#10477 <https://github.com/scipy/scipy/pull/10477>`__: ENH: faster
> region building in spatial.SphericalVoronoi
> * `#10479 <https://github.com/scipy/scipy/pull/10479>`__: BUG: stats: Fix a
> few issues with the distributions' fit method.
> * `#10480 <https://github.com/scipy/scipy/pull/10480>`__: Add RuntimeError
> in _distn_infrastructure.py in fit() method
> * `#10481 <https://github.com/scipy/scipy/pull/10481>`__: BENCH, MAINT:
> wheel_cache_size has been renamed build_cache_size
> * `#10494 <https://github.com/scipy/scipy/pull/10494>`__: ENH: faster
> circumcenter calculation in spatial.SphericalVoronoi
> * `#10500 <https://github.com/scipy/scipy/pull/10500>`__: Splrep
> _curfit_cache global variable bugfix
> * `#10503 <https://github.com/scipy/scipy/pull/10503>`__: BUG:
> spatial/qhull: get HalfspaceIntersection.dual_points from...
> * `#10506 <https://github.com/scipy/scipy/pull/10506>`__: DOC: interp2d,
> note nearest neighbor extrapolation
> * `#10507 <https://github.com/scipy/scipy/pull/10507>`__: MAINT: Remove
> fortran fftpack library in favour of pypocketfft
> * `#10508 <https://github.com/scipy/scipy/pull/10508>`__: TST: fix a bug in
> the circular import test.
> * `#10509 <https://github.com/scipy/scipy/pull/10509>`__: MAINT: Set up
> _build_utils as subpackage
> * `#10516 <https://github.com/scipy/scipy/pull/10516>`__: BUG: Use nogil
> contexts in cKDTree
> * `#10517 <https://github.com/scipy/scipy/pull/10517>`__: ENH: fftconvolve
> should not FFT broadcastable axes
> * `#10518 <https://github.com/scipy/scipy/pull/10518>`__: ENH: Speedup
> fftconvolve
> * `#10520 <https://github.com/scipy/scipy/pull/10520>`__: DOC: Proper .rst
> formatting for deprecated features and Backwards...
> * `#10523 <https://github.com/scipy/scipy/pull/10523>`__: DOC: Improve
> scipy.signal.resample documentation
> * `#10524 <https://github.com/scipy/scipy/pull/10524>`__: ENH: Add MGC to
> scipy.stats
> * `#10525 <https://github.com/scipy/scipy/pull/10525>`__: [ENH] ncx2.ppf
> dispatch to chi2 when nc=0
> * `#10526 <https://github.com/scipy/scipy/pull/10526>`__: DOC: clarify
> laplacian normalization
> * `#10528 <https://github.com/scipy/scipy/pull/10528>`__: API: Rename
> scipy.fft DCT/DST shape argument to s
> * `#10531 <https://github.com/scipy/scipy/pull/10531>`__: BUG: fixed
> improper rotations in spatial.transform.rotation.match_vectors
> * `#10533 <https://github.com/scipy/scipy/pull/10533>`__: [DOC] Add example
> for winsorize function
> * `#10539 <https://github.com/scipy/scipy/pull/10539>`__: MAINT: special:
> don't register \`i0\` with \`numpy.dual\`
> * `#10540 <https://github.com/scipy/scipy/pull/10540>`__: MAINT: Fix Travis
> and Circle
> * `#10542 <https://github.com/scipy/scipy/pull/10542>`__: MAINT:
> interpolate: use cython_lapack
> * `#10547 <https://github.com/scipy/scipy/pull/10547>`__: Feature request.
> Add furthest site Voronoi diagrams to scipy.spatial.plotutils.
> * `#10549 <https://github.com/scipy/scipy/pull/10549>`__: [BUG] Fix bug in
> trimr when inclusive=False
> * `#10552 <https://github.com/scipy/scipy/pull/10552>`__: add
> scipy.signal.upfirdn signal extension modes
> * `#10555 <https://github.com/scipy/scipy/pull/10555>`__: MAINT: special:
> move \`c_misc\` into Cephes
> * `#10556 <https://github.com/scipy/scipy/pull/10556>`__: [DOC] Add example
> for trima
> * `#10562 <https://github.com/scipy/scipy/pull/10562>`__: [DOC] Fix triple
> string fo trimmed so that __doc__ can show...
> * `#10563 <https://github.com/scipy/scipy/pull/10563>`__: improve
> least_squares error msg for mismatched shape
> * `#10564 <https://github.com/scipy/scipy/pull/10564>`__: ENH: linalg:
> memoize get_lapack/blas_funcs to speed it up
> * `#10566 <https://github.com/scipy/scipy/pull/10566>`__: ENH: add
> implementation of solver for the maximum flow problem
> * `#10567 <https://github.com/scipy/scipy/pull/10567>`__: BUG: spatial: use
> c++11 construct for getting start of vector...
> * `#10568 <https://github.com/scipy/scipy/pull/10568>`__: DOC: special:
> small tweaks to the \`zetac\` docstring
> * `#10571 <https://github.com/scipy/scipy/pull/10571>`__: [ENH]
> Gaussian_kde can accept matrix dataset
> * `#10574 <https://github.com/scipy/scipy/pull/10574>`__: ENH: linalg:
> speed up _compute_lwork by avoiding numpy constructs
> * `#10582 <https://github.com/scipy/scipy/pull/10582>`__: Fix typos with
> typos in bundled libraries reverted
> * `#10583 <https://github.com/scipy/scipy/pull/10583>`__: ENH: special: add
> the analytic continuation of Riemann zeta
> * `#10584 <https://github.com/scipy/scipy/pull/10584>`__: MAINT: special:
> clean up \`special.__all__\`
> * `#10586 <https://github.com/scipy/scipy/pull/10586>`__: BUG:
> multidimensional scipy.fft functions should accept 's' rather...
> * `#10587 <https://github.com/scipy/scipy/pull/10587>`__: BUG:
> integrate/lsoda: never abort run, set error istate instead
> * `#10594 <https://github.com/scipy/scipy/pull/10594>`__: API: Replicate
> numpy's fftn behaviour when s is given but not...
> * `#10599 <https://github.com/scipy/scipy/pull/10599>`__: DOC: dev: update
> documentation vs. github pull request workflow...
> * `#10603 <https://github.com/scipy/scipy/pull/10603>`__: MAINT: installer
> scripts removed
> * `#10604 <https://github.com/scipy/scipy/pull/10604>`__: MAINT: Change
> c\*np.ones(...) to np.full(..., c, ...) in many...
> * `#10608 <https://github.com/scipy/scipy/pull/10608>`__: Univariate
> splines should require x to be strictly increasing...
> * `#10613 <https://github.com/scipy/scipy/pull/10613>`__: ENH: Add seed
> option for gaussian_kde.resample
> * `#10614 <https://github.com/scipy/scipy/pull/10614>`__: ENH: Add parallel
> computation to scipy.fft
> * `#10615 <https://github.com/scipy/scipy/pull/10615>`__: MAINT:
> interpolate: remove unused header file
> * `#10616 <https://github.com/scipy/scipy/pull/10616>`__: MAINT: Clean up
> 32-bit platform xfail markers
> * `#10618 <https://github.com/scipy/scipy/pull/10618>`__: BENCH: Added
> 'trust-constr' to minimize benchmarks
> * `#10621 <https://github.com/scipy/scipy/pull/10621>`__: [MRG] multiple
> stability updates in lobpcg
> * `#10622 <https://github.com/scipy/scipy/pull/10622>`__: MAINT: forward
> port 1.3.1 release notes
> * `#10624 <https://github.com/scipy/scipy/pull/10624>`__: DOC: stats: Fix
> spelling of 'support'.
> * `#10627 <https://github.com/scipy/scipy/pull/10627>`__: DOC: stats: Add
> references for the alpha distribution.
> * `#10629 <https://github.com/scipy/scipy/pull/10629>`__: MAINT: special:
> avoid overflow longer in \`zeta\` for negative...
> * `#10630 <https://github.com/scipy/scipy/pull/10630>`__: TST: GH10271,
> relax test assertion, fixes #10271
> * `#10631 <https://github.com/scipy/scipy/pull/10631>`__: DOC: nelder-mean
> uses xatol fixes #10036
> * `#10633 <https://github.com/scipy/scipy/pull/10633>`__: BUG: interpolate:
> integral(a, b) should be zero when both limits...
> * `#10635 <https://github.com/scipy/scipy/pull/10635>`__: DOC: special:
> complete hypergeometric functions documentation
> * `#10636 <https://github.com/scipy/scipy/pull/10636>`__: BUG: special: use
> series for \`hyp1f1\` when it converges rapidly
> * `#10641 <https://github.com/scipy/scipy/pull/10641>`__: ENH: allow
> matching of general bipartite graphs
> * `#10643 <https://github.com/scipy/scipy/pull/10643>`__: ENH:
> scipy.sparse.linalg.spsolve triangular unit diagonal
> * `#10650 <https://github.com/scipy/scipy/pull/10650>`__: ENH: Cythonize
> sosfilt
> * `#10654 <https://github.com/scipy/scipy/pull/10654>`__: DOC: Vertical
> alignment of table entries
> * `#10655 <https://github.com/scipy/scipy/pull/10655>`__: ENH: Dockerfile
> for scipy development
> * `#10660 <https://github.com/scipy/scipy/pull/10660>`__: TST: clean up
> tests for rvs in scipy.stats
> * `#10664 <https://github.com/scipy/scipy/pull/10664>`__: Throw error on
> non-finite input for binned_statistic_dd()
> * `#10665 <https://github.com/scipy/scipy/pull/10665>`__: DOC: special:
> improve the docstrings for \`gamma\` and \`gammasgn\`
> * `#10669 <https://github.com/scipy/scipy/pull/10669>`__: TST: Update
> scipy.fft real transform tests
> * `#10670 <https://github.com/scipy/scipy/pull/10670>`__: DOC: Clarify docs
> and error messages for scipy.signal.butter
> * `#10672 <https://github.com/scipy/scipy/pull/10672>`__: ENH: return
> solution attribute when using events in solve_ivp
> * `#10675 <https://github.com/scipy/scipy/pull/10675>`__: MAINT: special:
> add an explicit NaN check for \`iv\` arguments
> * `#10679 <https://github.com/scipy/scipy/pull/10679>`__: DOC: special: Add
> documentation for \`beta\` function
> * `#10681 <https://github.com/scipy/scipy/pull/10681>`__: TST:
> sparse.linalg: fix arnoldi test seed
> * `#10682 <https://github.com/scipy/scipy/pull/10682>`__: DOC: special: Add
> documentation for \`betainc\` function
> * `#10684 <https://github.com/scipy/scipy/pull/10684>`__: TST: special:
> require Mpmath 1.1.0 for \`test_hyperu_around_0\`
> * `#10686 <https://github.com/scipy/scipy/pull/10686>`__: FIX: sphinx
> isattributedescriptor is not available in sphinx...
> * `#10687 <https://github.com/scipy/scipy/pull/10687>`__: DOC: added Docker
> quickstart guide by @andyfaff
> * `#10689 <https://github.com/scipy/scipy/pull/10689>`__: DOC: special:
> clarify format of parameters/returns sections for...
> * `#10690 <https://github.com/scipy/scipy/pull/10690>`__: DOC: special:
> improve docstrings of incomplete gamma functions
> * `#10692 <https://github.com/scipy/scipy/pull/10692>`__: ENH:
> higher-dimensional input in \`spatial.SphericalVoronoi\`
> * `#10694 <https://github.com/scipy/scipy/pull/10694>`__: ENH:
> ScalarFunction.fun_and_grad
> * `#10698 <https://github.com/scipy/scipy/pull/10698>`__: DOC: special: Add
> documentation for \`betaincinv\`
> * `#10699 <https://github.com/scipy/scipy/pull/10699>`__: MAINT: remove
> time print lbfgsb fixes #8417
> * `#10701 <https://github.com/scipy/scipy/pull/10701>`__: TST, MAINT: bump
> OpenBLAS to 0.3.7 stable
> * `#10702 <https://github.com/scipy/scipy/pull/10702>`__: DOC: clarify
> iterations consume multiple function calls
> * `#10703 <https://github.com/scipy/scipy/pull/10703>`__: DOC: iprint doc
> lbfgsb closes #5482
> * `#10708 <https://github.com/scipy/scipy/pull/10708>`__: TST: test
> suggested in gh1758
> * `#10710 <https://github.com/scipy/scipy/pull/10710>`__: ENH: Added
> nan_policy to circ functions in \`stats\`
> * `#10712 <https://github.com/scipy/scipy/pull/10712>`__: ENH: add axis
> parameter to stats.entropy
> * `#10714 <https://github.com/scipy/scipy/pull/10714>`__: DOC: Formatting
> fix rv_continuous.expect docs
> * `#10715 <https://github.com/scipy/scipy/pull/10715>`__: DOC: BLD: update
> doc Makefile for python version; add scipy version...
> * `#10717 <https://github.com/scipy/scipy/pull/10717>`__: MAINT: modernize
> doc/Makefile
> * `#10719 <https://github.com/scipy/scipy/pull/10719>`__: Enable setting
> minres initial vector
> * `#10720 <https://github.com/scipy/scipy/pull/10720>`__: DOC: silence
> random warning in doc build for \`stats.binned_statistic_dd\`
> * `#10724 <https://github.com/scipy/scipy/pull/10724>`__: DEV: Add doc
> option to runtests.py
> * `#10728 <https://github.com/scipy/scipy/pull/10728>`__: MAINT: get rid of
> gramA, gramB text files that lobpcg tests leave...
> * `#10732 <https://github.com/scipy/scipy/pull/10732>`__: DOC: add min_only
> to docstring for Dijkstra's algorithm
> * `#10734 <https://github.com/scipy/scipy/pull/10734>`__: DOC: spell out
> difference between source and target in shortest...
> * `#10735 <https://github.com/scipy/scipy/pull/10735>`__: Fix for Python 4
> * `#10739 <https://github.com/scipy/scipy/pull/10739>`__: BUG:
> optimize/slsqp: deal with singular BFGS update
> * `#10741 <https://github.com/scipy/scipy/pull/10741>`__: ENH: LAPACK
> wrappers for ?geequ, ?geequb, ?syequb, ?heequb
> * `#10742 <https://github.com/scipy/scipy/pull/10742>`__: DOC: special: add
> to the docstring of \`gammaln\`
> * `#10743 <https://github.com/scipy/scipy/pull/10743>`__: ENH: special: add
> a real dispatch for \`wrightomega\`
> * `#10746 <https://github.com/scipy/scipy/pull/10746>`__: MAINT: Fix typos
> in comments, docs and test name
> * `#10747 <https://github.com/scipy/scipy/pull/10747>`__: Remove spurious
> quotes
> * `#10750 <https://github.com/scipy/scipy/pull/10750>`__: MAINT: make
> cython code more precise
> * `#10751 <https://github.com/scipy/scipy/pull/10751>`__: MAINT: Check that
> scipy.linalg.lapack functions are documented
> * `#10752 <https://github.com/scipy/scipy/pull/10752>`__: MAINT: special:
> use \`sf_error\` in Cephes
> * `#10755 <https://github.com/scipy/scipy/pull/10755>`__: DOC: cluster: Add
> 'See Also' and 'Examples' for kmeans2.
> * `#10763 <https://github.com/scipy/scipy/pull/10763>`__: MAINT: list of
> minimize methods
> * `#10768 <https://github.com/scipy/scipy/pull/10768>`__: BUG: Fix corner
> case for sos2zpk
> * `#10773 <https://github.com/scipy/scipy/pull/10773>`__: Fix error type
> for complex input to scipy.fftpack.rfft and irfft
> * `#10776 <https://github.com/scipy/scipy/pull/10776>`__: ENH: handle
> geodesic input in \`spatial.SphericalVoronoi\`
> * `#10777 <https://github.com/scipy/scipy/pull/10777>`__: MAINT:
> minimizer-->custom should handle the kinds of bounds/constrain?...
> * `#10781 <https://github.com/scipy/scipy/pull/10781>`__: ENH:
> solve_triangular C order improvement
> * `#10787 <https://github.com/scipy/scipy/pull/10787>`__: Fix behavior of
> \`exp1\` on branch cut and add docstring
> * `#10789 <https://github.com/scipy/scipy/pull/10789>`__: DOC: special: add
> parameters/returns doc sections for erfc/erfcx/erfi
> * `#10790 <https://github.com/scipy/scipy/pull/10790>`__: Travis CI: sudo
> is deprecated and Xenial is default distro
> * `#10792 <https://github.com/scipy/scipy/pull/10792>`__: DOC: special: add
> full docstring for \`expi\`
> * `#10799 <https://github.com/scipy/scipy/pull/10799>`__: DOC: special: add
> a complete docstring for \`expn\`
> * `#10800 <https://github.com/scipy/scipy/pull/10800>`__: Docs edits (GSoD)
> * `#10802 <https://github.com/scipy/scipy/pull/10802>`__: BUG: fix
> UnboundLocalError in Radau (scipy#10775)
> * `#10804 <https://github.com/scipy/scipy/pull/10804>`__: ENH: Speed up
> next_fast_len with LRU cache
> * `#10805 <https://github.com/scipy/scipy/pull/10805>`__: DOC: Fix
> unbalanced quotes in signal.place_poles
> * `#10809 <https://github.com/scipy/scipy/pull/10809>`__: ENH: Speed up
> next_fast_len
> * `#10810 <https://github.com/scipy/scipy/pull/10810>`__: ENH: Raise
> catchable exceptions for bad Fortran files
> * `#10811 <https://github.com/scipy/scipy/pull/10811>`__: MAINT: optimize:
> Remove extra variable from _remove_redundancy_dense
> * `#10813 <https://github.com/scipy/scipy/pull/10813>`__: MAINT: special:
> Remove unused variables from _kolmogi and _smirnovi
> * `#10815 <https://github.com/scipy/scipy/pull/10815>`__: DOC, API:
> scipy.stats.reciprocal is "log-uniform"
> * `#10816 <https://github.com/scipy/scipy/pull/10816>`__: MAINT: special:
> remove deprecated \`bessel_diff_formula\`
> * `#10817 <https://github.com/scipy/scipy/pull/10817>`__: DOC: special:
> complete the docstring for \`fresnel\`
> * `#10820 <https://github.com/scipy/scipy/pull/10820>`__: Fixed
> compiler_helper.py to allow compilation with ICC on Linux
> * `#10823 <https://github.com/scipy/scipy/pull/10823>`__: DOC: updated
> reference guide text for consistency in writing...
> * `#10825 <https://github.com/scipy/scipy/pull/10825>`__: MAINT: special:
> change some features of the Voigt function
> * `#10828 <https://github.com/scipy/scipy/pull/10828>`__: MAINT: integrate:
> Remove unused variable from init_callback
> * `#10830 <https://github.com/scipy/scipy/pull/10830>`__: Adding LOBPCG
> solver in svds in addition to ARPACK
> * `#10837 <https://github.com/scipy/scipy/pull/10837>`__: WIP: ENH:
> reduction function for \`spatial.tranform.Rotation\`...
> * `#10843 <https://github.com/scipy/scipy/pull/10843>`__: ENH: Adding
> optional parameter to stats.zscores to allow for...
> * `#10845 <https://github.com/scipy/scipy/pull/10845>`__: Rebase kruskal
> fix
> * `#10847 <https://github.com/scipy/scipy/pull/10847>`__: remove redundant
> __getitem__ from scipy.sparse.lil
> * `#10848 <https://github.com/scipy/scipy/pull/10848>`__: Better handling
> of empty (not missing) docstrings
> * `#10849 <https://github.com/scipy/scipy/pull/10849>`__: ENH: implement
> rmatmat for LinearOperator
> * `#10850 <https://github.com/scipy/scipy/pull/10850>`__: MAINT :
> Refactoring lil List of Lists
> * `#10851 <https://github.com/scipy/scipy/pull/10851>`__: DOC: add a
> generative art example to the scipy.spatial tutorial.
> * `#10852 <https://github.com/scipy/scipy/pull/10852>`__: DOC: linalg:
> fixed gh-10838 unused imports in example deleted
> * `#10854 <https://github.com/scipy/scipy/pull/10854>`__: DOC: special: add
> a full docstring for \`pdtr\`
> * `#10861 <https://github.com/scipy/scipy/pull/10861>`__: ENH: option to
> reuse binnumbers in stats.binned_statistic_dd
> * `#10863 <https://github.com/scipy/scipy/pull/10863>`__: DOC: partial
> standardization and validation of scipy.stats reference...
> * `#10865 <https://github.com/scipy/scipy/pull/10865>`__: BUG: special: fix
> incomplete gamma functions for infinite \`a\`
> * `#10866 <https://github.com/scipy/scipy/pull/10866>`__: ENH: calculation
> of mean in spatial.transform.Rotation
> * `#10867 <https://github.com/scipy/scipy/pull/10867>`__: MAINT: Also store
> latex directory
> * `#10869 <https://github.com/scipy/scipy/pull/10869>`__: ENH: Implement
> overlap-add convolution
> * `#10870 <https://github.com/scipy/scipy/pull/10870>`__: ENH: Do not raise
> EOF error if wavfile data read
> * `#10876 <https://github.com/scipy/scipy/pull/10876>`__: ENH: Add
> beta-binomial distribution to scipy.stats
> * `#10878 <https://github.com/scipy/scipy/pull/10878>`__: MAINT: Update R
> project URL
> * `#10883 <https://github.com/scipy/scipy/pull/10883>`__: MAINT: (ndimage)
> More robust check for output being a numpy dtype
> * `#10884 <https://github.com/scipy/scipy/pull/10884>`__: DOC: Added
> instructions on adding a new distribution to scipy.stats.
> * `#10885 <https://github.com/scipy/scipy/pull/10885>`__: [BUG] fix lobpcg
> with maxiter=None results in Exception
> * `#10899 <https://github.com/scipy/scipy/pull/10899>`__: ENH: Match R
> functionality for hmean
> * `#10900 <https://github.com/scipy/scipy/pull/10900>`__: MAINT: stats: Use
> keepdims to simplify a few lines in power_divergence.
> * `#10901 <https://github.com/scipy/scipy/pull/10901>`__: ENH:
> sparse/linalg: support pydata/sparse matrices
> * `#10907 <https://github.com/scipy/scipy/pull/10907>`__: Check whether
> \`maxiter\` is integer
> * `#10912 <https://github.com/scipy/scipy/pull/10912>`__: ENH: warn user
> that quad() ignores \`points=...\` when \`weight=...\`...
> * `#10918 <https://github.com/scipy/scipy/pull/10918>`__: CI: fix Travis CI
> py3.8 build
> * `#10920 <https://github.com/scipy/scipy/pull/10920>`__: MAINT: Update
> constants to codata 2018 values (second try)
> * `#10921 <https://github.com/scipy/scipy/pull/10921>`__: ENH:
> scipy.sparse.lil: tocsr accelerated
> * `#10924 <https://github.com/scipy/scipy/pull/10924>`__: BUG: Forbid
> passing 'args' as kwarg in scipy.optimize.curve_fit
> * `#10928 <https://github.com/scipy/scipy/pull/10928>`__: DOC: Add examples
> to io.wavfile docstrings
> * `#10934 <https://github.com/scipy/scipy/pull/10934>`__: typo fix
> * `#10935 <https://github.com/scipy/scipy/pull/10935>`__: BUG: Avoid
> undefined behaviour on float to unsigned conversion
> * `#10936 <https://github.com/scipy/scipy/pull/10936>`__: DOC: Added
> missing example to stats.mstats.variation
> * `#10939 <https://github.com/scipy/scipy/pull/10939>`__: ENH:
> scipy.sparse.lil: tocsr accelerated depending on density
> * `#10946 <https://github.com/scipy/scipy/pull/10946>`__: BUG: setting
> verbose > 2 in minimize with trust-constr method...
> * `#10947 <https://github.com/scipy/scipy/pull/10947>`__: DOC: special:
> small improvements to the \`poch\` docstring
> * `#10949 <https://github.com/scipy/scipy/pull/10949>`__: BUG: fix return
> type of erlang_gen._argcheck
> * `#10951 <https://github.com/scipy/scipy/pull/10951>`__: DOC: fixed Ricker
> wavelet formula
> * `#10954 <https://github.com/scipy/scipy/pull/10954>`__: BUG: special: fix
> \`factorial\` return type for 0-d inputs
> * `#10955 <https://github.com/scipy/scipy/pull/10955>`__: MAINT: Relax the
> assert_unitary atol value
> * `#10956 <https://github.com/scipy/scipy/pull/10956>`__: WIP: make
> pdtr(int, double) be pdtr(double, double)
> * `#10957 <https://github.com/scipy/scipy/pull/10957>`__: BUG: Ensure full
> binary compatibility of long double test data
> * `#10964 <https://github.com/scipy/scipy/pull/10964>`__: ENH: Make Slerp
> callable with a scalar argument
> * `#10972 <https://github.com/scipy/scipy/pull/10972>`__: BUG: Handle
> complex gains in zpk2sos
> * `#10975 <https://github.com/scipy/scipy/pull/10975>`__: TST: skip
> test_kendalltau ppc64le
> * `#10978 <https://github.com/scipy/scipy/pull/10978>`__: BUG: boxcox data
> dimension and constancy check #5112
> * `#10979 <https://github.com/scipy/scipy/pull/10979>`__: API: Rename dcm
> to (rotation) matrix in Rotation class
> * `#10981 <https://github.com/scipy/scipy/pull/10981>`__: MAINT: add
> support for a==0 and x>0 edge case to igam and igamc
> * `#10986 <https://github.com/scipy/scipy/pull/10986>`__: MAINT: Remove
> direct imports from numpy in signaltools.py
> * `#10988 <https://github.com/scipy/scipy/pull/10988>`__: BUG: signal:
> fixed issue #10360
> * `#10989 <https://github.com/scipy/scipy/pull/10989>`__: FIX
> binned_statistic_dd Mac wheel test fails
> * `#10990 <https://github.com/scipy/scipy/pull/10990>`__: BUG: Fix memory
> leak in shgo triangulation
> * `#10992 <https://github.com/scipy/scipy/pull/10992>`__: TST: Relax
> tolerance in upfirdn test_modes
> * `#10993 <https://github.com/scipy/scipy/pull/10993>`__: TST: bump
> tolerance in optimize tests
> * `#10997 <https://github.com/scipy/scipy/pull/10997>`__: MAINT: Rework
> residue and residuez
> * `#11001 <https://github.com/scipy/scipy/pull/11001>`__: DOC: Updated
> Windows build tutorial
> * `#11004 <https://github.com/scipy/scipy/pull/11004>`__: BUG:
> integrate/quad_vec: fix several bugs in quad_vec
> * `#11005 <https://github.com/scipy/scipy/pull/11005>`__: TST: add Python
> 3.8 Win CI
> * `#11006 <https://github.com/scipy/scipy/pull/11006>`__: DOC: special: add
> a reference for \`kl_div\`
> * `#11012 <https://github.com/scipy/scipy/pull/11012>`__: MAINT: Rework
> invres and invresz
> * `#11015 <https://github.com/scipy/scipy/pull/11015>`__: DOC: special: add
> references for \`rel_entr\`
> * `#11017 <https://github.com/scipy/scipy/pull/11017>`__: DOC: numpydoc
> validation of morestats.py
> * `#11018 <https://github.com/scipy/scipy/pull/11018>`__: MAINT: Filter
> unrelated warning
> * `#11031 <https://github.com/scipy/scipy/pull/11031>`__: MAINT: update
> choose_conv_method for pocketfft implementation
> * `#11034 <https://github.com/scipy/scipy/pull/11034>`__: MAINT: TST: Skip
> tests with multiprocessing that use "spawn"...
> * `#11036 <https://github.com/scipy/scipy/pull/11036>`__: DOC: update
> doc/README with some more useful content.
> * `#11037 <https://github.com/scipy/scipy/pull/11037>`__: DOC: special: add
> a complete docstring for \`rgamma\`
> * `#11038 <https://github.com/scipy/scipy/pull/11038>`__: DOC: special: add
> a reference for the polygamma function
> * `#11042 <https://github.com/scipy/scipy/pull/11042>`__: TST: fix tf2zpk
> test failure due to incorrect complex sorting.
> * `#11044 <https://github.com/scipy/scipy/pull/11044>`__: MAINT:
> choose_conv_method can choose fftconvolution for longcomplex
> * `#11046 <https://github.com/scipy/scipy/pull/11046>`__: TST: Reduce
> tolerance for ppc64le with reference lapack
> * `#11048 <https://github.com/scipy/scipy/pull/11048>`__: DOC: special: add
> reference for orthogonal polynomial functions
> * `#11049 <https://github.com/scipy/scipy/pull/11049>`__: MAINT: proper
> random number initialization and readability fix
> * `#11051 <https://github.com/scipy/scipy/pull/11051>`__: MAINT: pep8
> cleanup
> * `#11054 <https://github.com/scipy/scipy/pull/11054>`__: TST: bump test
> precision for dual_annealing SLSQP test
> * `#11055 <https://github.com/scipy/scipy/pull/11055>`__: DOC: special: add
> a reference for \`zeta\`
> * `#11056 <https://github.com/scipy/scipy/pull/11056>`__: API: Deprecated
> normalized keyword in Rotation
> * `#11065 <https://github.com/scipy/scipy/pull/11065>`__: DOC: Ubuntu
> Development Environment Quickstart should not modify...
> * `#11066 <https://github.com/scipy/scipy/pull/11066>`__: BUG: skip
> deprecation for numpy top-level types
> * `#11067 <https://github.com/scipy/scipy/pull/11067>`__: DOC: updated
> documentation for consistency in writing style
> * `#11070 <https://github.com/scipy/scipy/pull/11070>`__: DOC: Amendment to
> Ubuntu Development Environment Quickstart should...
> * `#11073 <https://github.com/scipy/scipy/pull/11073>`__: DOC: fix 1.4.0
> release notes
> * `#11081 <https://github.com/scipy/scipy/pull/11081>`__: API: Replace
> Rotation.match_vectors with align_vectors
> * `#11083 <https://github.com/scipy/scipy/pull/11083>`__: DOC: more 1.4.0
> release note fixes
> * `#11092 <https://github.com/scipy/scipy/pull/11092>`__: BUG: stats: fix
> freezing of some distributions
> * `#11096 <https://github.com/scipy/scipy/pull/11096>`__: BUG:
> scipy.sparse.csgraph: fixed issue #10774
> * `#11124 <https://github.com/scipy/scipy/pull/11124>`__: fix Cython
> warnings related to _stats.pyx
> * `#11126 <https://github.com/scipy/scipy/pull/11126>`__: BUG:
> interpolate/fitpack: fix memory leak in splprep
> * `#11127 <https://github.com/scipy/scipy/pull/11127>`__: Avoid potential
> segfault in CSR and CSC matrix indexing
> * `#11152 <https://github.com/scipy/scipy/pull/11152>`__: BUG: Fix random
> state bug multiscale_graphcorr
> * `#11166 <https://github.com/scipy/scipy/pull/11166>`__: BUG: empty sparse
> slice shapes
> * `#11167 <https://github.com/scipy/scipy/pull/11167>`__: BUG: redundant
> fft in signal.resample
> * `#11181 <https://github.com/scipy/scipy/pull/11181>`__: TST: Fix
> tolerance of tests for aarch64
> * `#11182 <https://github.com/scipy/scipy/pull/11182>`__: TST: Bump up
> tolerance for test_maxiter_worsening
> * `#11199 <https://github.com/scipy/scipy/pull/11199>`__: BUG:
> sparse.linalg: mistake in unsymm. real shift-invert ARPACK eigenvalue
> selection
>
> Checksums
> =========
>
> MD5
> ~~~
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From ilhanpolat at gmail.com  Tue Dec 17 09:26:14 2019
From: ilhanpolat at gmail.com (Ilhan Polat)
Date: Tue, 17 Dec 2019 15:26:14 +0100
Subject: [SciPy-Dev] ANN: SciPy 1.4.0
In-Reply-To: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
References: <CAHPuU_b1F9uohp6jnGXXXFfrv3Gk1JiMeErYAOrhv51PxZ2haA@mail.gmail.com>
Message-ID: <CAEBuzr_CJiuSdtdFNrQC8_8w58gG_cx-jOia3+qMqaVD5aQpXg@mail.gmail.com>

Thanks Tyler.

This was particularly difficult to pull off. Well done!

On Tue, Dec 17, 2019, 01:38 Tyler Reddy <tyler.je.reddy at gmail.com> wrote:

> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA256
>
> Hi all,
>
> On behalf of the SciPy development team I'm pleased to announce
> the release of SciPy 1.4.0.
>
> Sources and binary wheels can be found at:
> https://pypi.org/project/scipy/
> and at:
> https://github.com/scipy/scipy/releases/tag/v1.4.0
>
> One of a few ways to install this release with pip:
>
> pip install scipy==1.4.0
>
> ==========================
> SciPy 1.4.0 Release Notes
> ==========================
>
> SciPy 1.4.0 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
> 1.4.x branch, and on adding new features on the master branch.
>
> This release requires Python 3.5+ and NumPy >=1.13.3 (for Python 3.5, 3.6),
> >=1.14.5 (for Python 3.7), >= 1.17.3 (for Python 3.8)
>
> For running on PyPy, PyPy3 6.0+ and NumPy 1.15.0 are required.
>
> Highlights of this release
> ----------------------------------
>
> - a new submodule, `scipy.fft`, now supersedes `scipy.fftpack`; this
>   means support for ``long double`` transforms, faster multi-dimensional
>   transforms, improved algorithm time complexity, release of the global
>   intepreter lock, and control over threading behavior
> - support for ``pydata/sparse`` arrays in `scipy.sparse.linalg`
> - substantial improvement to the documentation and functionality of
>   several `scipy.special` functions, and some new additions
> - the generalized inverse Gaussian distribution has been added to
>   `scipy.stats`
> - an implementation of the Edmonds-Karp algorithm in
>   `scipy.sparse.csgraph.maximum_flow`
> - `scipy.spatial.SphericalVoronoi` now supports n-dimensional input,
>    has linear memory complexity, improved performance, and
>    supports single-hemisphere generators
>
>
> New features
> ============
>
> Infrastructure
> --------------------
> Documentation can now be built with ``runtests.py --doc``
>
> A ``Dockerfile`` is now available in the ``scipy/scipy-dev`` repository to
> facilitate getting started with SciPy development.
>
> `scipy.constants` improvements
> ---------------------------------------------
> `scipy.constants` has been updated with the CODATA 2018 constants.
>
>
> `scipy.fft` added
> ------------------------
> `scipy.fft` is a new submodule that supersedes the `scipy.fftpack`
> submodule.
> For the most part, this is a drop-in replacement for ``numpy.fft`` and
> `scipy.fftpack` alike. With some important differences, `scipy.fft`:
> - uses NumPy's conventions for real transforms (``rfft``). This means the
> return value is a complex array, half the size of the full ``fft`` output.
> This is different from the output of ``fftpack`` which returned a real
> array
> representing complex components packed together.
> - the inverse real to real transforms (``idct`` and ``idst``) are
> normalized
> for ``norm=None`` in thesame way as ``ifft``. This means the identity
> ``idct(dct(x)) == x`` is now ``True`` for all norm modes.
> - does not include the convolutions or pseudo-differential operators
> from ``fftpack``.
>
> This submodule is based on the ``pypocketfft`` library, developed by the
> author of ``pocketfft`` which was recently adopted by NumPy as well.
> ``pypocketfft`` offers a number of advantages over fortran ``FFTPACK``:
> - support for long double (``np.longfloat``) precision transforms.
> - faster multi-dimensional transforms using vectorisation
> - Bluestein?s algorithm removes the worst-case ``O(n^2)`` complexity of
> ``FFTPACK``
> - the global interpreter lock (``GIL``) is released during transforms
> - optional multithreading of multi-dimensional transforms via the
> ``workers``
> argument
>
> Note that `scipy.fftpack` has not been deprecated and will continue to be
> maintained but is now considered legacy. New code is recommended to use
> `scipy.fft` instead, where possible.
>
> `scipy.fftpack` improvements
> ----------------------------------------
> `scipy.fftpack` now uses pypocketfft to perform its FFTs, offering the same
> speed and accuracy benefits listed for scipy.fft above but without the
> improved API.
>
> `scipy.integrate` improvements
> -------------------------------------------
>
> The function `scipy.integrate.solve_ivp` now has an ``args`` argument.
> This allows the user-defined functions passed to the function to have
> additional parameters without having to create wrapper functions or
> lambda expressions for them.
>
> `scipy.integrate.solve_ivp` can now return a ``y_events`` attribute
> representing the solution of the ODE at event times
>
> New ``OdeSolver`` is implemented --- ``DOP853``. This is a high-order
> explicit
> Runge-Kutta method originally implemented in Fortran. Now we provide a
> pure
> Python implementation usable through ``solve_ivp`` with all its features.
>
> `scipy.integrate.quad` provides better user feedback when break points are
> specified with a weighted integrand.
>
> `scipy.integrate.quad_vec` is now available for general purpose integration
> of vector-valued functions
>
>
> `scipy.interpolate` improvements
> ---------------------------------------------
> `scipy.interpolate.pade` now handles complex input data gracefully
>
> `scipy.interpolate.Rbf` can now interpolate multi-dimensional functions
>
> `scipy.io` improvements
> ---------------------------------
>
> `scipy.io.wavfile.read` can now read data from a `WAV` file that has a
> malformed header, similar to other modern `WAV` file parsers
>
> `scipy.io.FortranFile` now has an expanded set of available ``Exception``
> classes for handling poorly-formatted files
>
>
> `scipy.linalg` improvements
> -------------------------------------
> The function ``scipy.linalg.subspace_angles(A, B)`` now gives correct
> results for complex-valued matrices. Before this, the function only
> returned
> correct values for real-valued matrices.
>
> New boolean keyword argument ``check_finite`` for `scipy.linalg.norm`;
> whether
> to check that the input matrix contains only finite numbers. Disabling may
> give a performance gain, but may result in problems (crashes,
> non-termination)
> if the inputs do contain infinities or NaNs.
>
> `scipy.linalg.solve_triangular` has improved performance for a C-ordered
> triangular matrix
>
> ``LAPACK`` wrappers have been added for ``?geequ``, ``?geequb``,
> ``?syequb``,
> and ``?heequb``
>
> Some performance improvements may be observed due to an internal
> optimization
> in operations involving LAPACK routines via ``_compute_lwork``. This is
> particularly true for operations on small arrays.
>
> Block ``QR`` wrappers are now available in `scipy.linalg.lapack`
>
>
> `scipy.ndimage` improvements
> ------------------------------------------
>
>
> `scipy.optimize` improvements
> ------------------------------------------
> It is now possible to use linear and non-linear constraints with
> `scipy.optimize.differential_evolution`.
>
> `scipy.optimize.linear_sum_assignment` has been re-written in C++ to
> improve
> performance, and now allows input costs to be infinite.
>
> A ``ScalarFunction.fun_and_grad`` method was added for convenient
> simultaneous
> retrieval of a function and gradient evaluation
>
> `scipy.optimize.minimize` ``BFGS`` method has improved performance by
> avoiding
> duplicate evaluations in some cases
>
> Better user feedback is provided when an objective function returns an
> array
> instead of a scalar.
>
>
> `scipy.signal` improvements
> --------------------------------------
>
> Added a new function to calculate convolution using the overlap-add method,
> named `scipy.signal.oaconvolve`. Like `scipy.signal.fftconvolve`, this
> function supports specifying dimensions along which to do the convolution.
>
> `scipy.signal.cwt` now supports complex wavelets.
>
> The implementation of ``choose_conv_method`` has been updated to reflect
> the
> new FFT implementation. In addition, the performance has been
> significantly
> improved (with rather drastic improvements in edge cases).
>
> The function ``upfirdn`` now has a ``mode`` keyword argument that can be
> used
> to select the signal extension mode used at the signal boundaries. These
> modes
> are also available for use in ``resample_poly`` via a newly added
> ``padtype``
> argument.
>
> `scipy.signal.sosfilt` now benefits from Cython code for improved
> performance
>
> `scipy.signal.resample` should be more efficient by leveraging ``rfft``
> when
> possible
>
> `scipy.sparse` improvements
> ---------------------------------------
> It is now possible to use the LOBPCG method in `scipy.sparse.linalg.svds`.
>
> `scipy.sparse.linalg.LinearOperator` now supports the operation
> ``rmatmat``
> for adjoint matrix-matrix multiplication, in addition to ``rmatvec``.
>
> Multiple stability updates enable float32 support in the LOBPCG eigenvalue
> solver for symmetric and Hermitian eigenvalues problems in
> ``scipy.sparse.linalg.lobpcg``.
>
> A solver for the maximum flow problem has been added as
> `scipy.sparse.csgraph.maximum_flow`.
>
> `scipy.sparse.csgraph.maximum_bipartite_matching` now allows non-square
> inputs,
> no longer requires a perfect matching to exist, and has improved
> performance.
>
> `scipy.sparse.lil_matrix` conversions now perform better in some scenarios
>
> Basic support is available for ``pydata/sparse`` arrays in
> `scipy.sparse.linalg`
>
> `scipy.sparse.linalg.spsolve_triangular` now supports the ``unit_diagonal``
> argument to improve call signature similarity with its dense counterpart,
> `scipy.linalg.solve_triangular`
>
> ``assertAlmostEqual`` may now be used with sparse matrices, which have
> added
> support for ``__round__``
>
> `scipy.spatial` improvements
> ---------------------------------------
> The bundled Qhull library was upgraded to version 2019.1, fixing several
> issues. Scipy-specific patches are no longer applied to it.
>
> `scipy.spatial.SphericalVoronoi` now has linear memory complexity, improved
> performance, and supports single-hemisphere generators. Support has also
> been
> added for handling generators that lie on a great circle arc (geodesic
> input)
> and for generators in n-dimensions.
>
> `scipy.spatial.transform.Rotation` now includes functions for calculation
> of a
> mean rotation, generation of the 3D rotation groups, and reduction of
> rotations
> with rotational symmetries.
>
> `scipy.spatial.transform.Slerp` is now callable with a scalar argument
>
> `scipy.spatial.voronoi_plot_2d` now supports furthest site Voronoi diagrams
>
> `scipy.spatial.Delaunay` and `scipy.spatial.Voronoi` now have attributes
> for tracking whether they are furthest site diagrams
>
> `scipy.special` improvements
> -----------------------------------------
> The Voigt profile has been added as `scipy.special.voigt_profile`.
>
> A real dispatch has been added for the Wright Omega function
> (`scipy.special.wrightomega`).
>
> The analytic continuation of the Riemann zeta function has been added.
> (The
> Riemann zeta function is the one-argument variant of `scipy.special.zeta`.)
>
> The complete elliptic integral of the first kind (`scipy.special.ellipk`)
> is
> now available in `scipy.special.cython_special`.
>
> The accuracy of `scipy.special.hyp1f1` for real arguments has been
> improved.
>
> The documentation of many functions has been improved.
>
> `scipy.stats` improvements
> -------------------------------------
> `scipy.stats.multiscale_graphcorr` added as an independence test that
> operates on high dimensional and nonlinear data sets. It has higher
> statistical
> power than other `scipy.stats` tests while being the only one that
> operates on
> multivariate data.
>
> The generalized inverse Gaussian distribution (`scipy.stats.geninvgauss`)
> has
> been added.
>
> It is now possible to efficiently reuse `scipy.stats.binned_statistic_dd`
> with new values by providing the result of a previous call to the function.
>
> `scipy.stats.hmean` now handles input with zeros more gracefully.
>
> The beta-binomial distribution is now available in `scipy.stats.betabinom`.
>
> `scipy.stats.zscore`, `scipy.stats.circmean`, `scipy.stats.circstd`, and
> `scipy.stats.circvar` now support the ``nan_policy`` argument for enhanced
> handling of ``NaN`` values
>
> `scipy.stats.entropy` now accepts an ``axis`` argument
>
> `scipy.stats.gaussian_kde.resample` now accepts a ``seed`` argument to
> empower
> reproducibility
>
> `scipy.stats.kendalltau` performance has improved, especially for large
> inputs,
> due to improved cache usage
>
> `scipy.stats.truncnorm` distribution has been rewritten to support much
> wider
> tails
>
>
> Deprecated features
> ===================
>
> `scipy` deprecations
> -----------------------------
> Support for NumPy functions exposed via the root SciPy namespace is
> deprecated
> and will be removed in 2.0.0. For example, if you use ``scipy.rand`` or
> ``scipy.diag``, you should change your code to directly use
> ``numpy.random.default_rng`` or ``numpy.diag``, respectively.
> They remain available in the currently continuing Scipy 1.x release series.
>
> The exception to this rule is using ``scipy.fft`` as a function --
> :mod:`scipy.fft` is now meant to be used only as a module, so the ability
> to
> call ``scipy.fft(...)`` will be removed in SciPy 1.5.0.
>
> In `scipy.spatial.Rotation` methods ``from_dcm``, ``as_dcm`` were renamed
> to
> ``from_matrix``, ``as_matrix`` respectively. The old names will be removed
> in
> SciPy 1.6.0.
>
> Method ``Rotation.match_vectors`` was deprecated in favor of
> ``Rotation.align_vectors``, which provides a more logical and
> general API to the same functionality. The old method
> will be removed in SciPy 1.6.0.
>
> Backwards incompatible changes
> ==========================
>
> `scipy.special` changes
> ---------------------------------
> The deprecated functions ``hyp2f0``, ``hyp1f2``, and ``hyp3f0`` have been
> removed.
>
> The deprecated function ``bessel_diff_formula`` has been removed.
>
> The function ``i0`` is no longer registered with ``numpy.dual``, so that
> ``numpy.dual.i0`` will unconditionally refer to the NumPy version
> regardless
> of whether `scipy.special` is imported.
>
> The function ``expn`` has been changed to return ``nan`` outside of its
> domain of definition (``x, n < 0``) instead of ``inf``.
>
> `scipy.sparse` changes
> --------------------------------
> Sparse matrix reshape now raises an error if shape is not two-dimensional,
> rather than guessing what was meant. The behavior is now the same as
> before
> SciPy 1.1.0.
>
> ``CSR`` and ``CSC`` sparse matrix classes should now return empty matrices
> of the same type when indexed out of bounds. Previously, for some versions
> of SciPy, this would raise an ``IndexError``. The change is largely
> motivated
> by greater consistency with ``ndarray`` and ``numpy.matrix`` semantics.
>
> `scipy.signal` changes
> -------------------------------
> `scipy.signal.resample` behavior for length-1 signal inputs has been
> fixed to output a constant (DC) value rather than an impulse, consistent
> with
> the assumption of signal periodicity in the FFT method.
>
> `scipy.signal.cwt` now performs complex conjugation and time-reversal of
> wavelet data, which is a backwards-incompatible bugfix for
> time-asymmetric wavelets.
>
> `scipy.stats` changes
> ------------------------------
> `scipy.stats.loguniform` added with better documentation as (an alias for
> ``scipy.stats.reciprocal``). ``loguniform`` generates random variables
> that are equally likely in the log space; e.g., ``1``, ``10`` and ``100``
> are all equally likely if ``loguniform(10 ** 0, 10 ** 2).rvs()`` is used.
>
>
> Other changes
> =============
> The ``LSODA`` method of `scipy.integrate.solve_ivp` now correctly detects
> stiff
> problems.
>
> `scipy.spatial.cKDTree` now accepts and correctly handles empty input data
>
> `scipy.stats.binned_statistic_dd` now calculates the standard deviation
> statistic in a numerically stable way.
>
> `scipy.stats.binned_statistic_dd` now throws an error if the input data
> contains either ``np.nan`` or ``np.inf``. Similarly, in `scipy.stats` now
> all
> continuous distributions' ``.fit()`` methods throw an error if the input
> data
> contain any instance of either ``np.nan`` or ``np.inf``.
>
>
> Authors
> =======
>
> * @endolith
> * @wenhui-prudencemed +
> * Abhinav +
> * Anne Archibald
> * ashwinpathak20nov1996 +
> * Danilo Augusto +
> * Nelson Auner +
> * aypiggott +
> * Christoph Baumgarten
> * Peter Bell
> * Sebastian Berg
> * Arman Bilge +
> * Benedikt Boecking +
> * Christoph Boeddeker +
> * Daniel Bunting
> * Evgeni Burovski
> * Angeline Burrell +
> * Angeline G. Burrell +
> * CJ Carey
> * Carlos Ramos Carre?o +
> * Mak Sze Chun +
> * Malayaja Chutani +
> * Christian Clauss +
> * Jonathan Conroy +
> * Stephen P Cook +
> * Dylan Cutler +
> * Anirudh Dagar +
> * Aidan Dang +
> * dankleeman +
> * Brandon David +
> * Tyler Dawson +
> * Dieter Werthm?ller
> * Joe Driscoll +
> * Jakub Dyczek +
> * D?vid Bodn?r
> * Fletcher Easton +
> * Stefan Endres
> * etienne +
> * Johann Faouzi
> * Yu Feng
> * Isuru Fernando +
> * Matthew H Flamm
> * Martin Gauch +
> * Gabriel Gerlero +
> * Ralf Gommers
> * Chris Gorgolewski +
> * Domen Gorjup +
> * Edouard Goudenhoofdt +
> * Jan Gwinner +
> * Maja Gwozdz +
> * Matt Haberland
> * hadshirt +
> * Pierre Haessig +
> * David Hagen
> * Charles Harris
> * Gina Helfrich +
> * Alex Henrie +
> * Francisco J. Hernandez Heras +
> * Andreas Hilboll
> * Lindsey Hiltner
> * Thomas Hisch
> * Min ho Kim +
> * Gert-Ludwig Ingold
> * jakobjakobson13 +
> * Todd Jennings
> * He Jia
> * Muhammad Firmansyah Kasim +
> * Andrew Knyazev +
> * Holger Kohr +
> * Mateusz Konieczny +
> * Krzysztof Pi?ro +
> * Philipp Lang +
> * Peter Mahler Larsen +
> * Eric Larson
> * Antony Lee
> * Gregory R. Lee
> * Chelsea Liu +
> * Jesse Livezey
> * Peter Lysakovski +
> * Jason Manley +
> * Michael Marien +
> * Nikolay Mayorov
> * G. D. McBain +
> * Sam McCormack +
> * Melissa Weber Mendon?a +
> * Kevin Michel +
> * mikeWShef +
> * Sturla Molden
> * Eric Moore
> * Peyton Murray +
> * Andrew Nelson
> * Clement Ng +
> * Juan Nunez-Iglesias
> * Renee Otten +
> * Kellie Ottoboni +
> * Ayappan P
> * Sambit Panda +
> * Tapasweni Pathak +
> * Oleksandr Pavlyk
> * Fabian Pedregosa
> * Petar Mlinari?
> * Matti Picus
> * Marcel Plch +
> * Christoph Pohl +
> * Ilhan Polat
> * Siddhesh Poyarekar +
> * Ioannis Prapas +
> * James Alan Preiss +
> * Yisheng Qiu +
> * Eric Quintero
> * Bharat Raghunathan +
> * Tyler Reddy
> * Joscha Reimer
> * Antonio Horta Ribeiro
> * Lucas Roberts
> * rtshort +
> * Josua Sassen
> * Kevin Sheppard
> * Scott Sievert
> * Leo Singer
> * Kai Striega
> * S?ren Fuglede J?rgensen
> * tborisow +
> * ?tienne Tremblay +
> * tuxcell +
> * Miguel de Val-Borro
> * Andrew Valentine +
> * Hugo van Kemenade
> * Paul van Mulbregt
> * Sebastiano Vigna
> * Pauli Virtanen
> * Dany Vohl +
> * Ben Walsh +
> * Huize Wang +
> * Warren Weckesser
> * Anreas Weh +
> * Joseph Weston +
> * Adrian Wijaya +
> * Timothy Willard +
> * Josh Wilson
> * Kentaro Yamamoto +
> * Dave Zbarsky +
>
> A total of 142 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 1.4.0
> --------------------------------
>
> * `#1255 <https://github.com/scipy/scipy/issues/1255>`__: maxiter broken
> for Scipy.sparse.linalg gmres, in addition to...
> * `#1301 <https://github.com/scipy/scipy/issues/1301>`__: consolidate
> multipack.h from interpolate and integrate packages...
> * `#1739 <https://github.com/scipy/scipy/issues/1739>`__: Single
> precision FFT insufficiently accurate. (Trac #1212)
> * `#1795 <https://github.com/scipy/scipy/issues/1795>`__: stats
> test_distributions.py: replace old fuzz tests (Trac #1269)
> * `#2233 <https://github.com/scipy/scipy/issues/2233>`__: fftpack
> segfault with big arrays (Trac #1714)
> * `#2434 <https://github.com/scipy/scipy/issues/2434>`__: rmatmat and the
> sophistication of linear operator objects
> * `#2477 <https://github.com/scipy/scipy/issues/2477>`__:
> stats.truncnorm.rvs() does not give symmetric results for negative...
> * `#2629 <https://github.com/scipy/scipy/issues/2629>`__: FFTpack is
> unacceptably slow on non power of 2
> * `#2883 <https://github.com/scipy/scipy/issues/2883>`__:
> UnboundLocalError in scipy.interpolate.splrep
> * `#2956 <https://github.com/scipy/scipy/issues/2956>`__: Feature
> Request: axis argument for stats.entropy function
> * `#3528 <https://github.com/scipy/scipy/issues/3528>`__: Segfault on
> test_djbfft (possibly MKL-related?)
> * `#3793 <https://github.com/scipy/scipy/issues/3793>`__: cwt should also
> return complex array
> * `#4464 <https://github.com/scipy/scipy/issues/4464>`__: TST:
> residue/residuez/invres/invresz don't have any tests
> * `#4561 <https://github.com/scipy/scipy/issues/4561>`__: BUG: tf filter
> trailing and leading zeros in residuez
> * `#4669 <https://github.com/scipy/scipy/issues/4669>`__: Rewrite sosfilt
> to make a single loop over the input?
> * `#5040 <https://github.com/scipy/scipy/issues/5040>`__: BUG: Empty data
> handling of (c)KDTrees
> * `#5112 <https://github.com/scipy/scipy/issues/5112>`__: boxcox
> transform edge cases could use more care
> * `#5441 <https://github.com/scipy/scipy/issues/5441>`__:
> scipy.stats.ncx2 fails for nc=0
> * `#5502 <https://github.com/scipy/scipy/issues/5502>`__: args keyword
> not handled in optimize.curve_fit
> * `#6484 <https://github.com/scipy/scipy/issues/6484>`__: Qhull
> segmentation fault
> * `#6900 <https://github.com/scipy/scipy/issues/6900>`__:
> linear_sum_assignment with infinite weights
> * `#6966 <https://github.com/scipy/scipy/issues/6966>`__: Hypergeometric
> Functions documentation is lacking
> * `#6999 <https://github.com/scipy/scipy/issues/6999>`__: possible false
> positive corruption check in compressed loadmat()
> * `#7018 <https://github.com/scipy/scipy/issues/7018>`__: ydata that
> needs broadcasting renders curve_fit unable to compute...
> * `#7140 <https://github.com/scipy/scipy/issues/7140>`__: trouble with
> documentation for windows
> * `#7327 <https://github.com/scipy/scipy/issues/7327>`__:
> interpolate.ndgriddata.griddata causes Python to crash rather...
> * `#7396 <https://github.com/scipy/scipy/issues/7396>`__:
> MatrixLinearOperator implements _adjoint(), but not _transpose()
> * `#7400 <https://github.com/scipy/scipy/issues/7400>`__: BUG(?):
> special: factorial and factorial2 return a 0-dimensional...
> * `#7434 <https://github.com/scipy/scipy/issues/7434>`__: Testing of
> scipy.stats continuous distributions misses 25 distributions
> * `#7491 <https://github.com/scipy/scipy/issues/7491>`__: Several
> scipy.stats distributions (fisk, burr, burr12, f) return...
> * `#7759 <https://github.com/scipy/scipy/issues/7759>`__: Overflow in
> stats.kruskal for large samples
> * `#7906 <https://github.com/scipy/scipy/issues/7906>`__: Wrong result
> from scipy.interpolate.UnivariateSpline.integral...
> * `#8165 <https://github.com/scipy/scipy/issues/8165>`__: ENH: match
> functionality of R for hmean
> * `#8417 <https://github.com/scipy/scipy/issues/8417>`__:
> optimimze.minimize(method='L-BFGS-B', options={'disp': True})...
> * `#8535 <https://github.com/scipy/scipy/issues/8535>`__: Strictly
> increasing requirement in UnivariateSpline
> * `#8815 <https://github.com/scipy/scipy/issues/8815>`__: [BUG] GMRES:
> number of iteration is only increased if callback...
> * `#9207 <https://github.com/scipy/scipy/issues/9207>`__:
> scipy.linalg.solve_triangular speed after scipy.linalg.lu_factor
> * `#9275 <https://github.com/scipy/scipy/issues/9275>`__: new feature:
> adding LOBPCG solver in svds in addition to ARPACK
> * `#9403 <https://github.com/scipy/scipy/issues/9403>`__: range of
> truncnorm.logpdf could be extended
> * `#9429 <https://github.com/scipy/scipy/issues/9429>`__: gaussian_kde
> not working with numpy matrix
> * `#9515 <https://github.com/scipy/scipy/issues/9515>`__: ndimage
> implementation relies on undefined behavior
> * `#9643 <https://github.com/scipy/scipy/issues/9643>`__: arpack returns
> singular values in ascending order
> * `#9669 <https://github.com/scipy/scipy/issues/9669>`__: DOC:
> matthew-brett/build-openblas has been retired
> * `#9852 <https://github.com/scipy/scipy/issues/9852>`__:
> scipy.spatial.ConvexHull exit with code 134, free(): invalid...
> * `#9902 <https://github.com/scipy/scipy/issues/9902>`__:
> scipy.stats.truncnorm second moment may be wrong
> * `#9943 <https://github.com/scipy/scipy/issues/9943>`__: Custom sampling
> methods in shgo do not work
> * `#9947 <https://github.com/scipy/scipy/issues/9947>`__: DOC: Incorrect
> documentation for \`nan_policy='propagate\` in...
> * `#9994 <https://github.com/scipy/scipy/issues/9994>`__: BUG: sparse:
> reshape method allows a shape containing an arbitrary...
> * `#10036 <https://github.com/scipy/scipy/issues/10036>`__: Official
> Nelder mead tutorial uses xtol instead of xatol, which...
> * `#10078 <https://github.com/scipy/scipy/issues/10078>`__: possible to
> get a better error message when objective function...
> * `#10092 <https://github.com/scipy/scipy/issues/10092>`__: overflow in
> truncnorm.rvs
> * `#10121 <https://github.com/scipy/scipy/issues/10121>`__: A little
> spelling mistake
> * `#10126 <https://github.com/scipy/scipy/issues/10126>`__: inaccurate
> std implementation in binned_statistic
> * `#10161 <https://github.com/scipy/scipy/issues/10161>`__: Error in
> documentation scipy.special.modstruve
> * `#10195 <https://github.com/scipy/scipy/issues/10195>`__: Derivative of
> spline with 'const' extrapolation is also extrapolted...
> * `#10206 <https://github.com/scipy/scipy/issues/10206>`__: sparse
> matrices indexing with scipy 1.3
> * `#10236 <https://github.com/scipy/scipy/issues/10236>`__:
> Non-descriptive error on type mismatch for functions of scipy.optimize...
> * `#10258 <https://github.com/scipy/scipy/issues/10258>`__: LOBPCG
> convergence failure if guess provided
> * `#10262 <https://github.com/scipy/scipy/issues/10262>`__: distance
> matrix lacks dtype checks / warnings
> * `#10271 <https://github.com/scipy/scipy/issues/10271>`__: BUG: optimize
> failure on wheels
> * `#10277 <https://github.com/scipy/scipy/issues/10277>`__:
> scipy.special.zeta(0) = NAN
> * `#10292 <https://github.com/scipy/scipy/issues/10292>`__: DOC/REL: Some
> sections of the release notes are not nested correctly.
> * `#10300 <https://github.com/scipy/scipy/issues/10300>`__:
> scipy.stats.rv_continuous.fit throws empty RuntimeError when...
> * `#10319 <https://github.com/scipy/scipy/issues/10319>`__: events in
> scipy.integrate.solve_ivp: How do I setup an events...
> * `#10323 <https://github.com/scipy/scipy/issues/10323>`__: Adding more
> low-level LAPACK wrappers
> * `#10360 <https://github.com/scipy/scipy/issues/10360>`__: firwin2
> inadvertently modifies input and may result in undefined...
> * `#10388 <https://github.com/scipy/scipy/issues/10388>`__: BLD:
> TestHerd::test_hetrd core dumps with Python-dbg
> * `#10395 <https://github.com/scipy/scipy/issues/10395>`__: Remove
> warning about output shape of zoom
> * `#10403 <https://github.com/scipy/scipy/issues/10403>`__: DOC:
> scipy.signal.resample ignores t parameter
> * `#10421 <https://github.com/scipy/scipy/issues/10421>`__: Yeo-Johnson
> power transformation fails with integer input data
> * `#10422 <https://github.com/scipy/scipy/issues/10422>`__: BUG:
> scipy.fft does not support multiprocessing
> * `#10427 <https://github.com/scipy/scipy/issues/10427>`__: ENH: convolve
> numbers should be updated
> * `#10444 <https://github.com/scipy/scipy/issues/10444>`__: BUG:
> scipy.spatial.transform.Rotation.match_vectors returns improper...
> * `#10488 <https://github.com/scipy/scipy/issues/10488>`__: ENH:
> DCTs/DSTs for scipy.fft
> * `#10501 <https://github.com/scipy/scipy/issues/10501>`__: BUG:
> scipy.spatial.HalfspaceIntersection works incorrectly
> * `#10514 <https://github.com/scipy/scipy/issues/10514>`__: BUG: cKDTree
> GIL handling is incorrect
> * `#10535 <https://github.com/scipy/scipy/issues/10535>`__: TST: master
> branch CI failures
> * `#10588 <https://github.com/scipy/scipy/issues/10588>`__: scipy.fft and
> numpy.fft inconsistency when axes=None and shape...
> * `#10628 <https://github.com/scipy/scipy/issues/10628>`__: Scipy
> python>3.6 Windows wheels don't ship msvcp\*.dll
> * `#10733 <https://github.com/scipy/scipy/issues/10733>`__: DOC/BUG:
> min_only result does not match documentation
> * `#10774 <https://github.com/scipy/scipy/issues/10774>`__: min_only=true
> djisktra infinite loop with duplicate indices
> * `#10775 <https://github.com/scipy/scipy/issues/10775>`__:
> UnboundLocalError in Radau when given a NaN
> * `#10835 <https://github.com/scipy/scipy/issues/10835>`__:
> io.wavfile.read unnecessarily raises an error for a bad wav header
> * `#10838 <https://github.com/scipy/scipy/issues/10838>`__: Error in
> documentation for scipy.linalg.lu_factor
> * `#10875 <https://github.com/scipy/scipy/issues/10875>`__: DOC:
> Graphical guides (using TikZ)
> * `#10880 <https://github.com/scipy/scipy/issues/10880>`__: setting
> verbose > 2 in minimize with trust-constr method leads...
> * `#10887 <https://github.com/scipy/scipy/issues/10887>`__:
> scipy.signal.signaltools._fftconv_faster has incorrect estimates
> * `#10948 <https://github.com/scipy/scipy/issues/10948>`__: gammainc(0,x)
> = nan but should be 1, gammaincc(0,x) = nan but...
> * `#10952 <https://github.com/scipy/scipy/issues/10952>`__:
> TestQRdelete_F.test_delete_last_p_col test failure
> * `#10968 <https://github.com/scipy/scipy/issues/10968>`__: API: Change
> normalized=False to normalize=True in Rotation
> * `#10987 <https://github.com/scipy/scipy/issues/10987>`__: Memory leak
> in shgo triangulation
> * `#10991 <https://github.com/scipy/scipy/issues/10991>`__: Error running
> openBlas probably missing a step
> * `#11033 <https://github.com/scipy/scipy/issues/11033>`__: deadlock on
> osx for python 3.8
> * `#11041 <https://github.com/scipy/scipy/issues/11041>`__: Test failure
> in wheel builds for TestTf2zpk.test_simple
> * `#11089 <https://github.com/scipy/scipy/issues/11089>`__: Regression in
> scipy.stats where distribution will not accept loc and scale parameters
> * `#11100 <https://github.com/scipy/scipy/issues/11100>`__: BUG:
> multiscale_graphcorr random state seeding and parallel use
> * `#11121 <https://github.com/scipy/scipy/issues/11121>`__: Calls to
> `scipy.interpolate.splprep` increase RAM usage.
> * `#11125 <https://github.com/scipy/scipy/issues/11125>`__: BUG: segfault
> when slicing a CSR or CSC sparse matrix with slice start index > stop index
> * `#11198 <https://github.com/scipy/scipy/issues/11198>`__: BUG: sparse
> eigs (arpack) shift-invert drops the smallest eigenvalue for some k
>
> Pull requests for 1.4.0
> -------------------------------
>
> * `#4591 <https://github.com/scipy/scipy/pull/4591>`__: BUG, TST: Several
> issues with scipy.signal.residue
> * `#6629 <https://github.com/scipy/scipy/pull/6629>`__: ENH: sparse:
> canonicalize on initialization
> * `#7076 <https://github.com/scipy/scipy/pull/7076>`__: ENH: add complex
> wavelet support to scipy.signal.cwt.
> * `#8681 <https://github.com/scipy/scipy/pull/8681>`__: ENH add
> generalized inverse Gaussian distribution to scipy.stats
> * `#9064 <https://github.com/scipy/scipy/pull/9064>`__: BUG/ENH: Added
> default _transpose into LinearOperator. Fixes...
> * `#9215 <https://github.com/scipy/scipy/pull/9215>`__: ENH: Rbf
> interpolation of large multi-dimensional data
> * `#9311 <https://github.com/scipy/scipy/pull/9311>`__: ENH: Added voigt
> in scipy.special.
> * `#9642 <https://github.com/scipy/scipy/pull/9642>`__: ENH: integrate:
> quad() for vector-valued functions
> * `#9679 <https://github.com/scipy/scipy/pull/9679>`__: DOC: expand
> docstring of exponweib distribution
> * `#9684 <https://github.com/scipy/scipy/pull/9684>`__: TST: add ppc64le
> ci testing
> * `#9800 <https://github.com/scipy/scipy/pull/9800>`__: WIP : ENH:
> Refactored _hungarian.py for speed and added a minimize/maximize?
> * `#9847 <https://github.com/scipy/scipy/pull/9847>`__: DOC: Change
> integrate tutorial to use solve_ivp instead of odeint
> * `#9876 <https://github.com/scipy/scipy/pull/9876>`__: ENH: Use rfft
> when possible in resampling
> * `#9998 <https://github.com/scipy/scipy/pull/9998>`__: BUG: Do not
> remove 1s when calling sparse: reshape method #9994
> * `#10002 <https://github.com/scipy/scipy/pull/10002>`__: ENH: adds
> constraints for differential evolution
> * `#10098 <https://github.com/scipy/scipy/pull/10098>`__: ENH: integrate:
> add args argument to solve_ivp.
> * `#10099 <https://github.com/scipy/scipy/pull/10099>`__: DOC: Add
> missing docs for linprog unknown_options
> * `#10104 <https://github.com/scipy/scipy/pull/10104>`__: BUG: Rewrite of
> stats.truncnorm distribution.
> * `#10105 <https://github.com/scipy/scipy/pull/10105>`__: MAINT improve
> efficiency of rvs_ratio_uniforms in scipy.stats
> * `#10107 <https://github.com/scipy/scipy/pull/10107>`__: TST:
> dual_annealing set seed
> * `#10108 <https://github.com/scipy/scipy/pull/10108>`__: ENH: stats:
> improve kendall_tau cache usage
> * `#10110 <https://github.com/scipy/scipy/pull/10110>`__: MAINT: _lib:
> Fix a build warning.
> * `#10114 <https://github.com/scipy/scipy/pull/10114>`__: FIX: only print
> bounds when supported by minimizer (shgo)
> * `#10115 <https://github.com/scipy/scipy/pull/10115>`__: TST: Add a test
> with an almost singular design matrix for lsq_linear
> * `#10118 <https://github.com/scipy/scipy/pull/10118>`__: MAINT: fix
> rdist methods in scipy.stats
> * `#10119 <https://github.com/scipy/scipy/pull/10119>`__: MAINT: improve
> rvs of randint in scipy.stats
> * `#10127 <https://github.com/scipy/scipy/pull/10127>`__: Fix typo in
> record array field name (spatial-ckdtree-sparse_distance?
> * `#10130 <https://github.com/scipy/scipy/pull/10130>`__: MAINT: ndimage:
> Fix some compiler warnings.
> * `#10131 <https://github.com/scipy/scipy/pull/10131>`__: DOC: Note the
> solve_ivp args enhancement in the 1.4.0 release...
> * `#10133 <https://github.com/scipy/scipy/pull/10133>`__: MAINT: add rvs
> for semicircular in scipy.stats
> * `#10138 <https://github.com/scipy/scipy/pull/10138>`__: BUG: special:
> Invalid arguments to ellip_harm can crash Python.
> * `#10139 <https://github.com/scipy/scipy/pull/10139>`__: MAINT: spatial:
> Fix some compiler warnings in the file distance_wrap.c.
> * `#10140 <https://github.com/scipy/scipy/pull/10140>`__: ENH: add
> handling of NaN in RuntimeWarning except clause
> * `#10142 <https://github.com/scipy/scipy/pull/10142>`__: DOC: return
> value of scipy.special.comb
> * `#10143 <https://github.com/scipy/scipy/pull/10143>`__: MAINT: Loosen
> linprog tol
> * `#10152 <https://github.com/scipy/scipy/pull/10152>`__: BUG: Fix custom
> sampling input for shgo, add unittest
> * `#10154 <https://github.com/scipy/scipy/pull/10154>`__: MAINT: add
> moments and improve doc of mielke in scipy.stats
> * `#10158 <https://github.com/scipy/scipy/pull/10158>`__: Issue #6999:
> read zlib checksum before checking bytes read.
> * `#10166 <https://github.com/scipy/scipy/pull/10166>`__: BUG: Correctly
> handle broadcasted ydata in curve_fit pcov computation.
> * `#10167 <https://github.com/scipy/scipy/pull/10167>`__: DOC: special:
> Add missing factor of \`i\` to \`modstruve\` docstring
> * `#10168 <https://github.com/scipy/scipy/pull/10168>`__: MAINT: stats:
> Fix an incorrect comment.
> * `#10169 <https://github.com/scipy/scipy/pull/10169>`__: ENH: optimize:
> Clarify error when objective function returns...
> * `#10172 <https://github.com/scipy/scipy/pull/10172>`__: DEV: Run tests
> in parallel when --parallel flag is passed to...
> * `#10173 <https://github.com/scipy/scipy/pull/10173>`__: ENH: Implement
> DOP853 ODE integrator
> * `#10176 <https://github.com/scipy/scipy/pull/10176>`__: Fixed typo
> * `#10182 <https://github.com/scipy/scipy/pull/10182>`__: TST: fix test
> issue for stats.pearsonr
> * `#10184 <https://github.com/scipy/scipy/pull/10184>`__: MAINT: stats:
> Simplify zmap and zscore (we can use keepdims now).
> * `#10191 <https://github.com/scipy/scipy/pull/10191>`__: DOC: fix a
> formatting issue in the scipy.spatial module docstring.
> * `#10193 <https://github.com/scipy/scipy/pull/10193>`__: DOC: Updated
> docstring for optimize.nnls
> * `#10198 <https://github.com/scipy/scipy/pull/10198>`__: DOC, ENH:
> special: Make \`hyp2f1\` references more specific
> * `#10202 <https://github.com/scipy/scipy/pull/10202>`__: DOC: Format DST
> and DCT definitions as latex equations
> * `#10207 <https://github.com/scipy/scipy/pull/10207>`__: BUG: Compressed
> matrix indexing should return a scalar
> * `#10210 <https://github.com/scipy/scipy/pull/10210>`__: DOC: Update
> docs for connection='weak' in connected_components
> * `#10225 <https://github.com/scipy/scipy/pull/10225>`__: DOC: Clarify
> new interfaces for legacy functions in 'optimize'
> * `#10231 <https://github.com/scipy/scipy/pull/10231>`__: DOC, MAINT:
> gpg2 updates to release docs / pavement
> * `#10235 <https://github.com/scipy/scipy/pull/10235>`__: LICENSE: split
> license file in standard BSD 3-clause and bundled.
> * `#10238 <https://github.com/scipy/scipy/pull/10238>`__: ENH: Add new
> scipy.fft module using pocketfft
> * `#10243 <https://github.com/scipy/scipy/pull/10243>`__: BUG: fix ARFF
> reader regression with quoted values.
> * `#10248 <https://github.com/scipy/scipy/pull/10248>`__: DOC: update
> README file
> * `#10255 <https://github.com/scipy/scipy/pull/10255>`__: CI: bump
> OpenBLAS to match wheels
> * `#10264 <https://github.com/scipy/scipy/pull/10264>`__: TST: add tests
> for stats.tvar with unflattened arrays
> * `#10280 <https://github.com/scipy/scipy/pull/10280>`__: MAINT: stats:
> Use a constant value for sqrt(2/PI).
> * `#10286 <https://github.com/scipy/scipy/pull/10286>`__: Development
> Documentation Overhaul
> * `#10290 <https://github.com/scipy/scipy/pull/10290>`__: MAINT:
> Deprecate NumPy functions in SciPy root
> * `#10291 <https://github.com/scipy/scipy/pull/10291>`__: FIX: Avoid
> importing xdist when checking for availability
> * `#10295 <https://github.com/scipy/scipy/pull/10295>`__: Disable
> deprecated Numpy API in __odrpack.c
> * `#10296 <https://github.com/scipy/scipy/pull/10296>`__: ENH: C++
> extension for linear assignment problem
> * `#10298 <https://github.com/scipy/scipy/pull/10298>`__: ENH: Made pade
> function work with complex inputs
> * `#10301 <https://github.com/scipy/scipy/pull/10301>`__: DOC: Fix
> critical value significance levels in stats.anderson_ksamp
> * `#10307 <https://github.com/scipy/scipy/pull/10307>`__: Minkowski
> Distance Type Fix (issue #10262)
> * `#10309 <https://github.com/scipy/scipy/pull/10309>`__: BUG: Pass
> jac=None directly to lsoda
> * `#10310 <https://github.com/scipy/scipy/pull/10310>`__: BUG:
> interpolate: UnivariateSpline.derivative.ext is 'zeros'...
> * `#10312 <https://github.com/scipy/scipy/pull/10312>`__: FIX: Fixing a
> typo in a comment
> * `#10314 <https://github.com/scipy/scipy/pull/10314>`__: scipy.spatial
> enhancement request
> * `#10315 <https://github.com/scipy/scipy/pull/10315>`__: DOC: Update
> integration tutorial to solve_ivp
> * `#10318 <https://github.com/scipy/scipy/pull/10318>`__: DOC: update the
> example for PPoly.solve
> * `#10333 <https://github.com/scipy/scipy/pull/10333>`__: TST: add tests
> for stats.tvar with unflattened arrays
> * `#10334 <https://github.com/scipy/scipy/pull/10334>`__: MAINT: special:
> Remove deprecated \`hyp2f0\`, \`hyp1f2\`, and...
> * `#10336 <https://github.com/scipy/scipy/pull/10336>`__: BUG:
> linalg/interpolative: fix interp_decomp modifying input
> * `#10341 <https://github.com/scipy/scipy/pull/10341>`__: BUG:
> sparse.linalg/gmres: deprecate effect of callback on semantics...
> * `#10344 <https://github.com/scipy/scipy/pull/10344>`__: DOC: improve
> wording of mathematical formulation
> * `#10345 <https://github.com/scipy/scipy/pull/10345>`__: ENH: Tiled QR
> wrappers for scipy.linalg.lapack
> * `#10350 <https://github.com/scipy/scipy/pull/10350>`__: MAINT: linalg:
> Use the new fft subpackage in linalg.dft test...
> * `#10351 <https://github.com/scipy/scipy/pull/10351>`__: BUG: Fix
> unstable standard deviation calculation in histogram
> * `#10353 <https://github.com/scipy/scipy/pull/10353>`__: Bug:
> interpolate.NearestNDInterpolator (issue #10352)
> * `#10357 <https://github.com/scipy/scipy/pull/10357>`__: DOC: linalg:
> Refer to scipy.fft.fft (not fftpack) in the dft...
> * `#10359 <https://github.com/scipy/scipy/pull/10359>`__: DOC: Update
> roadmap now scipy.fft has been merged
> * `#10361 <https://github.com/scipy/scipy/pull/10361>`__: ENH: Prefer
> scipy.fft to scipy.fftpack in scipy.signal
> * `#10371 <https://github.com/scipy/scipy/pull/10371>`__: DOC: Tweaks to
> fft documentation
> * `#10372 <https://github.com/scipy/scipy/pull/10372>`__: DOC: Fix typos
> * `#10377 <https://github.com/scipy/scipy/pull/10377>`__: TST, MAINT:
> adjustments for pytest 5.0
> * `#10378 <https://github.com/scipy/scipy/pull/10378>`__: ENH: _lib:
> allow new np.random.Generator in check_random_state
> * `#10379 <https://github.com/scipy/scipy/pull/10379>`__: BUG: sparse:
> set writeability to be forward-compatible with numpy>=1.17
> * `#10381 <https://github.com/scipy/scipy/pull/10381>`__: BUG: Fixes
> gh-7491, pdf at x=0 of fisk/burr/burr12/f distributions.
> * `#10387 <https://github.com/scipy/scipy/pull/10387>`__: ENH:
> optimize/bfgs: don't evaluate twice at initial point for...
> * `#10392 <https://github.com/scipy/scipy/pull/10392>`__: [DOC] Add an
> example for _binned_statistic_dd
> * `#10396 <https://github.com/scipy/scipy/pull/10396>`__: Remove warning
> about output shape of zoom
> * `#10397 <https://github.com/scipy/scipy/pull/10397>`__: ENH: Add
> check_finite to sp.linalg.norm
> * `#10399 <https://github.com/scipy/scipy/pull/10399>`__: ENH: Add
> __round__ method to sparse matrix
> * `#10407 <https://github.com/scipy/scipy/pull/10407>`__: MAINT: drop
> pybind11 from install_requires, it's only build-time...
> * `#10408 <https://github.com/scipy/scipy/pull/10408>`__: TST: use
> pytest.raises, not numpy assert_raises
> * `#10409 <https://github.com/scipy/scipy/pull/10409>`__: CI: uninstall
> nose on Travis
> * `#10410 <https://github.com/scipy/scipy/pull/10410>`__: [ENH] ncx2
> dispatch to chi2 when nc=0
> * `#10411 <https://github.com/scipy/scipy/pull/10411>`__: TST: optimize:
> test should use assert_allclose for fp comparisons
> * `#10414 <https://github.com/scipy/scipy/pull/10414>`__: DOC: add
> pybind11 to the other part of quickstart guides
> * `#10417 <https://github.com/scipy/scipy/pull/10417>`__: DOC: special:
> don't mark non-ufuncs with a \`[+]\`
> * `#10423 <https://github.com/scipy/scipy/pull/10423>`__: FIX: Use
> pybind11::isinstace to check array dtypes
> * `#10424 <https://github.com/scipy/scipy/pull/10424>`__: DOC: add
> doctest example for binary data for ttest_ind_from_stats
> * `#10425 <https://github.com/scipy/scipy/pull/10425>`__: ENH: Add
> missing Hermitian transforms to scipy.fft
> * `#10426 <https://github.com/scipy/scipy/pull/10426>`__: MAINT: Fix doc
> build bugs
> * `#10431 <https://github.com/scipy/scipy/pull/10431>`__: Update numpy
> version for AIX
> * `#10433 <https://github.com/scipy/scipy/pull/10433>`__: MAINT: Minor
> fixes for the stats
> * `#10434 <https://github.com/scipy/scipy/pull/10434>`__: BUG: special:
> make \`ndtri\` return NaN outside domain of definition
> * `#10435 <https://github.com/scipy/scipy/pull/10435>`__: BUG: Allow
> integer input data in scipy.stats.yeojohnson
> * `#10438 <https://github.com/scipy/scipy/pull/10438>`__: [DOC] Add
> example for kurtosis
> * `#10440 <https://github.com/scipy/scipy/pull/10440>`__: ENH: special:
> make \`ellipk\` a ufunc
> * `#10443 <https://github.com/scipy/scipy/pull/10443>`__: MAINT: ndimage:
> malloc fail check
> * `#10447 <https://github.com/scipy/scipy/pull/10447>`__: BLD: Divert
> output from test compiles into a temporary directory
> * `#10451 <https://github.com/scipy/scipy/pull/10451>`__: MAINT: signal:
> malloc fail check
> * `#10455 <https://github.com/scipy/scipy/pull/10455>`__: BUG: special:
> fix values of \`hyperu\` for negative \`x\`
> * `#10456 <https://github.com/scipy/scipy/pull/10456>`__: DOC: Added
> comment clarifying the call for dcsrch.f in lbfgsb.f
> * `#10457 <https://github.com/scipy/scipy/pull/10457>`__: BUG: Allow
> ckdtree to accept empty data input
> * `#10459 <https://github.com/scipy/scipy/pull/10459>`__: BUG:TST:
> Compute lwork safely
> * `#10460 <https://github.com/scipy/scipy/pull/10460>`__: [DOC] Add
> example to entropy
> * `#10461 <https://github.com/scipy/scipy/pull/10461>`__: DOC: Quickstart
> Guide updates
> * `#10462 <https://github.com/scipy/scipy/pull/10462>`__: TST: special:
> only show max atol/rtol for test points that failed
> * `#10465 <https://github.com/scipy/scipy/pull/10465>`__: BUG: Correctly
> align fft inputs
> * `#10467 <https://github.com/scipy/scipy/pull/10467>`__: ENH:
> lower-memory duplicate generator checking in spatial.SphericalVoronoi
> * `#10470 <https://github.com/scipy/scipy/pull/10470>`__: ENH: Normalise
> the inverse DCT/DST in scipy.fft
> * `#10472 <https://github.com/scipy/scipy/pull/10472>`__: BENCH: adjust
> timeout for slow setup_cache
> * `#10475 <https://github.com/scipy/scipy/pull/10475>`__: CI: include
> python debug for Travis-ci
> * `#10476 <https://github.com/scipy/scipy/pull/10476>`__: TST: special:
> use \`__tracebackhide__\` to get better error messages
> * `#10477 <https://github.com/scipy/scipy/pull/10477>`__: ENH: faster
> region building in spatial.SphericalVoronoi
> * `#10479 <https://github.com/scipy/scipy/pull/10479>`__: BUG: stats: Fix
> a few issues with the distributions' fit method.
> * `#10480 <https://github.com/scipy/scipy/pull/10480>`__: Add
> RuntimeError in _distn_infrastructure.py in fit() method
> * `#10481 <https://github.com/scipy/scipy/pull/10481>`__: BENCH, MAINT:
> wheel_cache_size has been renamed build_cache_size
> * `#10494 <https://github.com/scipy/scipy/pull/10494>`__: ENH: faster
> circumcenter calculation in spatial.SphericalVoronoi
> * `#10500 <https://github.com/scipy/scipy/pull/10500>`__: Splrep
> _curfit_cache global variable bugfix
> * `#10503 <https://github.com/scipy/scipy/pull/10503>`__: BUG:
> spatial/qhull: get HalfspaceIntersection.dual_points from...
> * `#10506 <https://github.com/scipy/scipy/pull/10506>`__: DOC: interp2d,
> note nearest neighbor extrapolation
> * `#10507 <https://github.com/scipy/scipy/pull/10507>`__: MAINT: Remove
> fortran fftpack library in favour of pypocketfft
> * `#10508 <https://github.com/scipy/scipy/pull/10508>`__: TST: fix a bug
> in the circular import test.
> * `#10509 <https://github.com/scipy/scipy/pull/10509>`__: MAINT: Set up
> _build_utils as subpackage
> * `#10516 <https://github.com/scipy/scipy/pull/10516>`__: BUG: Use nogil
> contexts in cKDTree
> * `#10517 <https://github.com/scipy/scipy/pull/10517>`__: ENH:
> fftconvolve should not FFT broadcastable axes
> * `#10518 <https://github.com/scipy/scipy/pull/10518>`__: ENH: Speedup
> fftconvolve
> * `#10520 <https://github.com/scipy/scipy/pull/10520>`__: DOC: Proper
> .rst formatting for deprecated features and Backwards...
> * `#10523 <https://github.com/scipy/scipy/pull/10523>`__: DOC: Improve
> scipy.signal.resample documentation
> * `#10524 <https://github.com/scipy/scipy/pull/10524>`__: ENH: Add MGC to
> scipy.stats
> * `#10525 <https://github.com/scipy/scipy/pull/10525>`__: [ENH] ncx2.ppf
> dispatch to chi2 when nc=0
> * `#10526 <https://github.com/scipy/scipy/pull/10526>`__: DOC: clarify
> laplacian normalization
> * `#10528 <https://github.com/scipy/scipy/pull/10528>`__: API: Rename
> scipy.fft DCT/DST shape argument to s
> * `#10531 <https://github.com/scipy/scipy/pull/10531>`__: BUG: fixed
> improper rotations in spatial.transform.rotation.match_vectors
> * `#10533 <https://github.com/scipy/scipy/pull/10533>`__: [DOC] Add
> example for winsorize function
> * `#10539 <https://github.com/scipy/scipy/pull/10539>`__: MAINT: special:
> don't register \`i0\` with \`numpy.dual\`
> * `#10540 <https://github.com/scipy/scipy/pull/10540>`__: MAINT: Fix
> Travis and Circle
> * `#10542 <https://github.com/scipy/scipy/pull/10542>`__: MAINT:
> interpolate: use cython_lapack
> * `#10547 <https://github.com/scipy/scipy/pull/10547>`__: Feature
> request. Add furthest site Voronoi diagrams to scipy.spatial.plotutils.
> * `#10549 <https://github.com/scipy/scipy/pull/10549>`__: [BUG] Fix bug
> in trimr when inclusive=False
> * `#10552 <https://github.com/scipy/scipy/pull/10552>`__: add
> scipy.signal.upfirdn signal extension modes
> * `#10555 <https://github.com/scipy/scipy/pull/10555>`__: MAINT: special:
> move \`c_misc\` into Cephes
> * `#10556 <https://github.com/scipy/scipy/pull/10556>`__: [DOC] Add
> example for trima
> * `#10562 <https://github.com/scipy/scipy/pull/10562>`__: [DOC] Fix
> triple string fo trimmed so that __doc__ can show...
> * `#10563 <https://github.com/scipy/scipy/pull/10563>`__: improve
> least_squares error msg for mismatched shape
> * `#10564 <https://github.com/scipy/scipy/pull/10564>`__: ENH: linalg:
> memoize get_lapack/blas_funcs to speed it up
> * `#10566 <https://github.com/scipy/scipy/pull/10566>`__: ENH: add
> implementation of solver for the maximum flow problem
> * `#10567 <https://github.com/scipy/scipy/pull/10567>`__: BUG: spatial:
> use c++11 construct for getting start of vector...
> * `#10568 <https://github.com/scipy/scipy/pull/10568>`__: DOC: special:
> small tweaks to the \`zetac\` docstring
> * `#10571 <https://github.com/scipy/scipy/pull/10571>`__: [ENH]
> Gaussian_kde can accept matrix dataset
> * `#10574 <https://github.com/scipy/scipy/pull/10574>`__: ENH: linalg:
> speed up _compute_lwork by avoiding numpy constructs
> * `#10582 <https://github.com/scipy/scipy/pull/10582>`__: Fix typos with
> typos in bundled libraries reverted
> * `#10583 <https://github.com/scipy/scipy/pull/10583>`__: ENH: special:
> add the analytic continuation of Riemann zeta
> * `#10584 <https://github.com/scipy/scipy/pull/10584>`__: MAINT: special:
> clean up \`special.__all__\`
> * `#10586 <https://github.com/scipy/scipy/pull/10586>`__: BUG:
> multidimensional scipy.fft functions should accept 's' rather...
> * `#10587 <https://github.com/scipy/scipy/pull/10587>`__: BUG:
> integrate/lsoda: never abort run, set error istate instead
> * `#10594 <https://github.com/scipy/scipy/pull/10594>`__: API: Replicate
> numpy's fftn behaviour when s is given but not...
> * `#10599 <https://github.com/scipy/scipy/pull/10599>`__: DOC: dev:
> update documentation vs. github pull request workflow...
> * `#10603 <https://github.com/scipy/scipy/pull/10603>`__: MAINT:
> installer scripts removed
> * `#10604 <https://github.com/scipy/scipy/pull/10604>`__: MAINT: Change
> c\*np.ones(...) to np.full(..., c, ...) in many...
> * `#10608 <https://github.com/scipy/scipy/pull/10608>`__: Univariate
> splines should require x to be strictly increasing...
> * `#10613 <https://github.com/scipy/scipy/pull/10613>`__: ENH: Add seed
> option for gaussian_kde.resample
> * `#10614 <https://github.com/scipy/scipy/pull/10614>`__: ENH: Add
> parallel computation to scipy.fft
> * `#10615 <https://github.com/scipy/scipy/pull/10615>`__: MAINT:
> interpolate: remove unused header file
> * `#10616 <https://github.com/scipy/scipy/pull/10616>`__: MAINT: Clean up
> 32-bit platform xfail markers
> * `#10618 <https://github.com/scipy/scipy/pull/10618>`__: BENCH: Added
> 'trust-constr' to minimize benchmarks
> * `#10621 <https://github.com/scipy/scipy/pull/10621>`__: [MRG] multiple
> stability updates in lobpcg
> * `#10622 <https://github.com/scipy/scipy/pull/10622>`__: MAINT: forward
> port 1.3.1 release notes
> * `#10624 <https://github.com/scipy/scipy/pull/10624>`__: DOC: stats: Fix
> spelling of 'support'.
> * `#10627 <https://github.com/scipy/scipy/pull/10627>`__: DOC: stats: Add
> references for the alpha distribution.
> * `#10629 <https://github.com/scipy/scipy/pull/10629>`__: MAINT: special:
> avoid overflow longer in \`zeta\` for negative...
> * `#10630 <https://github.com/scipy/scipy/pull/10630>`__: TST: GH10271,
> relax test assertion, fixes #10271
> * `#10631 <https://github.com/scipy/scipy/pull/10631>`__: DOC:
> nelder-mean uses xatol fixes #10036
> * `#10633 <https://github.com/scipy/scipy/pull/10633>`__: BUG:
> interpolate: integral(a, b) should be zero when both limits...
> * `#10635 <https://github.com/scipy/scipy/pull/10635>`__: DOC: special:
> complete hypergeometric functions documentation
> * `#10636 <https://github.com/scipy/scipy/pull/10636>`__: BUG: special:
> use series for \`hyp1f1\` when it converges rapidly
> * `#10641 <https://github.com/scipy/scipy/pull/10641>`__: ENH: allow
> matching of general bipartite graphs
> * `#10643 <https://github.com/scipy/scipy/pull/10643>`__: ENH:
> scipy.sparse.linalg.spsolve triangular unit diagonal
> * `#10650 <https://github.com/scipy/scipy/pull/10650>`__: ENH: Cythonize
> sosfilt
> * `#10654 <https://github.com/scipy/scipy/pull/10654>`__: DOC: Vertical
> alignment of table entries
> * `#10655 <https://github.com/scipy/scipy/pull/10655>`__: ENH: Dockerfile
> for scipy development
> * `#10660 <https://github.com/scipy/scipy/pull/10660>`__: TST: clean up
> tests for rvs in scipy.stats
> * `#10664 <https://github.com/scipy/scipy/pull/10664>`__: Throw error on
> non-finite input for binned_statistic_dd()
> * `#10665 <https://github.com/scipy/scipy/pull/10665>`__: DOC: special:
> improve the docstrings for \`gamma\` and \`gammasgn\`
> * `#10669 <https://github.com/scipy/scipy/pull/10669>`__: TST: Update
> scipy.fft real transform tests
> * `#10670 <https://github.com/scipy/scipy/pull/10670>`__: DOC: Clarify
> docs and error messages for scipy.signal.butter
> * `#10672 <https://github.com/scipy/scipy/pull/10672>`__: ENH: return
> solution attribute when using events in solve_ivp
> * `#10675 <https://github.com/scipy/scipy/pull/10675>`__: MAINT: special:
> add an explicit NaN check for \`iv\` arguments
> * `#10679 <https://github.com/scipy/scipy/pull/10679>`__: DOC: special:
> Add documentation for \`beta\` function
> * `#10681 <https://github.com/scipy/scipy/pull/10681>`__: TST:
> sparse.linalg: fix arnoldi test seed
> * `#10682 <https://github.com/scipy/scipy/pull/10682>`__: DOC: special:
> Add documentation for \`betainc\` function
> * `#10684 <https://github.com/scipy/scipy/pull/10684>`__: TST: special:
> require Mpmath 1.1.0 for \`test_hyperu_around_0\`
> * `#10686 <https://github.com/scipy/scipy/pull/10686>`__: FIX: sphinx
> isattributedescriptor is not available in sphinx...
> * `#10687 <https://github.com/scipy/scipy/pull/10687>`__: DOC: added
> Docker quickstart guide by @andyfaff
> * `#10689 <https://github.com/scipy/scipy/pull/10689>`__: DOC: special:
> clarify format of parameters/returns sections for...
> * `#10690 <https://github.com/scipy/scipy/pull/10690>`__: DOC: special:
> improve docstrings of incomplete gamma functions
> * `#10692 <https://github.com/scipy/scipy/pull/10692>`__: ENH:
> higher-dimensional input in \`spatial.SphericalVoronoi\`
> * `#10694 <https://github.com/scipy/scipy/pull/10694>`__: ENH:
> ScalarFunction.fun_and_grad
> * `#10698 <https://github.com/scipy/scipy/pull/10698>`__: DOC: special:
> Add documentation for \`betaincinv\`
> * `#10699 <https://github.com/scipy/scipy/pull/10699>`__: MAINT: remove
> time print lbfgsb fixes #8417
> * `#10701 <https://github.com/scipy/scipy/pull/10701>`__: TST, MAINT:
> bump OpenBLAS to 0.3.7 stable
> * `#10702 <https://github.com/scipy/scipy/pull/10702>`__: DOC: clarify
> iterations consume multiple function calls
> * `#10703 <https://github.com/scipy/scipy/pull/10703>`__: DOC: iprint doc
> lbfgsb closes #5482
> * `#10708 <https://github.com/scipy/scipy/pull/10708>`__: TST: test
> suggested in gh1758
> * `#10710 <https://github.com/scipy/scipy/pull/10710>`__: ENH: Added
> nan_policy to circ functions in \`stats\`
> * `#10712 <https://github.com/scipy/scipy/pull/10712>`__: ENH: add axis
> parameter to stats.entropy
> * `#10714 <https://github.com/scipy/scipy/pull/10714>`__: DOC: Formatting
> fix rv_continuous.expect docs
> * `#10715 <https://github.com/scipy/scipy/pull/10715>`__: DOC: BLD:
> update doc Makefile for python version; add scipy version...
> * `#10717 <https://github.com/scipy/scipy/pull/10717>`__: MAINT:
> modernize doc/Makefile
> * `#10719 <https://github.com/scipy/scipy/pull/10719>`__: Enable setting
> minres initial vector
> * `#10720 <https://github.com/scipy/scipy/pull/10720>`__: DOC: silence
> random warning in doc build for \`stats.binned_statistic_dd\`
> * `#10724 <https://github.com/scipy/scipy/pull/10724>`__: DEV: Add doc
> option to runtests.py
> * `#10728 <https://github.com/scipy/scipy/pull/10728>`__: MAINT: get rid
> of gramA, gramB text files that lobpcg tests leave...
> * `#10732 <https://github.com/scipy/scipy/pull/10732>`__: DOC: add
> min_only to docstring for Dijkstra's algorithm
> * `#10734 <https://github.com/scipy/scipy/pull/10734>`__: DOC: spell out
> difference between source and target in shortest...
> * `#10735 <https://github.com/scipy/scipy/pull/10735>`__: Fix for Python 4
> * `#10739 <https://github.com/scipy/scipy/pull/10739>`__: BUG:
> optimize/slsqp: deal with singular BFGS update
> * `#10741 <https://github.com/scipy/scipy/pull/10741>`__: ENH: LAPACK
> wrappers for ?geequ, ?geequb, ?syequb, ?heequb
> * `#10742 <https://github.com/scipy/scipy/pull/10742>`__: DOC: special:
> add to the docstring of \`gammaln\`
> * `#10743 <https://github.com/scipy/scipy/pull/10743>`__: ENH: special:
> add a real dispatch for \`wrightomega\`
> * `#10746 <https://github.com/scipy/scipy/pull/10746>`__: MAINT: Fix
> typos in comments, docs and test name
> * `#10747 <https://github.com/scipy/scipy/pull/10747>`__: Remove spurious
> quotes
> * `#10750 <https://github.com/scipy/scipy/pull/10750>`__: MAINT: make
> cython code more precise
> * `#10751 <https://github.com/scipy/scipy/pull/10751>`__: MAINT: Check
> that scipy.linalg.lapack functions are documented
> * `#10752 <https://github.com/scipy/scipy/pull/10752>`__: MAINT: special:
> use \`sf_error\` in Cephes
> * `#10755 <https://github.com/scipy/scipy/pull/10755>`__: DOC: cluster:
> Add 'See Also' and 'Examples' for kmeans2.
> * `#10763 <https://github.com/scipy/scipy/pull/10763>`__: MAINT: list of
> minimize methods
> * `#10768 <https://github.com/scipy/scipy/pull/10768>`__: BUG: Fix corner
> case for sos2zpk
> * `#10773 <https://github.com/scipy/scipy/pull/10773>`__: Fix error type
> for complex input to scipy.fftpack.rfft and irfft
> * `#10776 <https://github.com/scipy/scipy/pull/10776>`__: ENH: handle
> geodesic input in \`spatial.SphericalVoronoi\`
> * `#10777 <https://github.com/scipy/scipy/pull/10777>`__: MAINT:
> minimizer-->custom should handle the kinds of bounds/constrain?...
> * `#10781 <https://github.com/scipy/scipy/pull/10781>`__: ENH:
> solve_triangular C order improvement
> * `#10787 <https://github.com/scipy/scipy/pull/10787>`__: Fix behavior of
> \`exp1\` on branch cut and add docstring
> * `#10789 <https://github.com/scipy/scipy/pull/10789>`__: DOC: special:
> add parameters/returns doc sections for erfc/erfcx/erfi
> * `#10790 <https://github.com/scipy/scipy/pull/10790>`__: Travis CI: sudo
> is deprecated and Xenial is default distro
> * `#10792 <https://github.com/scipy/scipy/pull/10792>`__: DOC: special:
> add full docstring for \`expi\`
> * `#10799 <https://github.com/scipy/scipy/pull/10799>`__: DOC: special:
> add a complete docstring for \`expn\`
> * `#10800 <https://github.com/scipy/scipy/pull/10800>`__: Docs edits
> (GSoD)
> * `#10802 <https://github.com/scipy/scipy/pull/10802>`__: BUG: fix
> UnboundLocalError in Radau (scipy#10775)
> * `#10804 <https://github.com/scipy/scipy/pull/10804>`__: ENH: Speed up
> next_fast_len with LRU cache
> * `#10805 <https://github.com/scipy/scipy/pull/10805>`__: DOC: Fix
> unbalanced quotes in signal.place_poles
> * `#10809 <https://github.com/scipy/scipy/pull/10809>`__: ENH: Speed up
> next_fast_len
> * `#10810 <https://github.com/scipy/scipy/pull/10810>`__: ENH: Raise
> catchable exceptions for bad Fortran files
> * `#10811 <https://github.com/scipy/scipy/pull/10811>`__: MAINT:
> optimize: Remove extra variable from _remove_redundancy_dense
> * `#10813 <https://github.com/scipy/scipy/pull/10813>`__: MAINT: special:
> Remove unused variables from _kolmogi and _smirnovi
> * `#10815 <https://github.com/scipy/scipy/pull/10815>`__: DOC, API:
> scipy.stats.reciprocal is "log-uniform"
> * `#10816 <https://github.com/scipy/scipy/pull/10816>`__: MAINT: special:
> remove deprecated \`bessel_diff_formula\`
> * `#10817 <https://github.com/scipy/scipy/pull/10817>`__: DOC: special:
> complete the docstring for \`fresnel\`
> * `#10820 <https://github.com/scipy/scipy/pull/10820>`__: Fixed
> compiler_helper.py to allow compilation with ICC on Linux
> * `#10823 <https://github.com/scipy/scipy/pull/10823>`__: DOC: updated
> reference guide text for consistency in writing...
> * `#10825 <https://github.com/scipy/scipy/pull/10825>`__: MAINT: special:
> change some features of the Voigt function
> * `#10828 <https://github.com/scipy/scipy/pull/10828>`__: MAINT:
> integrate: Remove unused variable from init_callback
> * `#10830 <https://github.com/scipy/scipy/pull/10830>`__: Adding LOBPCG
> solver in svds in addition to ARPACK
> * `#10837 <https://github.com/scipy/scipy/pull/10837>`__: WIP: ENH:
> reduction function for \`spatial.tranform.Rotation\`...
> * `#10843 <https://github.com/scipy/scipy/pull/10843>`__: ENH: Adding
> optional parameter to stats.zscores to allow for...
> * `#10845 <https://github.com/scipy/scipy/pull/10845>`__: Rebase kruskal
> fix
> * `#10847 <https://github.com/scipy/scipy/pull/10847>`__: remove
> redundant __getitem__ from scipy.sparse.lil
> * `#10848 <https://github.com/scipy/scipy/pull/10848>`__: Better handling
> of empty (not missing) docstrings
> * `#10849 <https://github.com/scipy/scipy/pull/10849>`__: ENH: implement
> rmatmat for LinearOperator
> * `#10850 <https://github.com/scipy/scipy/pull/10850>`__: MAINT :
> Refactoring lil List of Lists
> * `#10851 <https://github.com/scipy/scipy/pull/10851>`__: DOC: add a
> generative art example to the scipy.spatial tutorial.
> * `#10852 <https://github.com/scipy/scipy/pull/10852>`__: DOC: linalg:
> fixed gh-10838 unused imports in example deleted
> * `#10854 <https://github.com/scipy/scipy/pull/10854>`__: DOC: special:
> add a full docstring for \`pdtr\`
> * `#10861 <https://github.com/scipy/scipy/pull/10861>`__: ENH: option to
> reuse binnumbers in stats.binned_statistic_dd
> * `#10863 <https://github.com/scipy/scipy/pull/10863>`__: DOC: partial
> standardization and validation of scipy.stats reference...
> * `#10865 <https://github.com/scipy/scipy/pull/10865>`__: BUG: special:
> fix incomplete gamma functions for infinite \`a\`
> * `#10866 <https://github.com/scipy/scipy/pull/10866>`__: ENH:
> calculation of mean in spatial.transform.Rotation
> * `#10867 <https://github.com/scipy/scipy/pull/10867>`__: MAINT: Also
> store latex directory
> * `#10869 <https://github.com/scipy/scipy/pull/10869>`__: ENH: Implement
> overlap-add convolution
> * `#10870 <https://github.com/scipy/scipy/pull/10870>`__: ENH: Do not
> raise EOF error if wavfile data read
> * `#10876 <https://github.com/scipy/scipy/pull/10876>`__: ENH: Add
> beta-binomial distribution to scipy.stats
> * `#10878 <https://github.com/scipy/scipy/pull/10878>`__: MAINT: Update R
> project URL
> * `#10883 <https://github.com/scipy/scipy/pull/10883>`__: MAINT:
> (ndimage) More robust check for output being a numpy dtype
> * `#10884 <https://github.com/scipy/scipy/pull/10884>`__: DOC: Added
> instructions on adding a new distribution to scipy.stats.
> * `#10885 <https://github.com/scipy/scipy/pull/10885>`__: [BUG] fix
> lobpcg with maxiter=None results in Exception
> * `#10899 <https://github.com/scipy/scipy/pull/10899>`__: ENH: Match R
> functionality for hmean
> * `#10900 <https://github.com/scipy/scipy/pull/10900>`__: MAINT: stats:
> Use keepdims to simplify a few lines in power_divergence.
> * `#10901 <https://github.com/scipy/scipy/pull/10901>`__: ENH:
> sparse/linalg: support pydata/sparse matrices
> * `#10907 <https://github.com/scipy/scipy/pull/10907>`__: Check whether
> \`maxiter\` is integer
> * `#10912 <https://github.com/scipy/scipy/pull/10912>`__: ENH: warn user
> that quad() ignores \`points=...\` when \`weight=...\`...
> * `#10918 <https://github.com/scipy/scipy/pull/10918>`__: CI: fix Travis
> CI py3.8 build
> * `#10920 <https://github.com/scipy/scipy/pull/10920>`__: MAINT: Update
> constants to codata 2018 values (second try)
> * `#10921 <https://github.com/scipy/scipy/pull/10921>`__: ENH:
> scipy.sparse.lil: tocsr accelerated
> * `#10924 <https://github.com/scipy/scipy/pull/10924>`__: BUG: Forbid
> passing 'args' as kwarg in scipy.optimize.curve_fit
> * `#10928 <https://github.com/scipy/scipy/pull/10928>`__: DOC: Add
> examples to io.wavfile docstrings
> * `#10934 <https://github.com/scipy/scipy/pull/10934>`__: typo fix
> * `#10935 <https://github.com/scipy/scipy/pull/10935>`__: BUG: Avoid
> undefined behaviour on float to unsigned conversion
> * `#10936 <https://github.com/scipy/scipy/pull/10936>`__: DOC: Added
> missing example to stats.mstats.variation
> * `#10939 <https://github.com/scipy/scipy/pull/10939>`__: ENH:
> scipy.sparse.lil: tocsr accelerated depending on density
> * `#10946 <https://github.com/scipy/scipy/pull/10946>`__: BUG: setting
> verbose > 2 in minimize with trust-constr method...
> * `#10947 <https://github.com/scipy/scipy/pull/10947>`__: DOC: special:
> small improvements to the \`poch\` docstring
> * `#10949 <https://github.com/scipy/scipy/pull/10949>`__: BUG: fix return
> type of erlang_gen._argcheck
> * `#10951 <https://github.com/scipy/scipy/pull/10951>`__: DOC: fixed
> Ricker wavelet formula
> * `#10954 <https://github.com/scipy/scipy/pull/10954>`__: BUG: special:
> fix \`factorial\` return type for 0-d inputs
> * `#10955 <https://github.com/scipy/scipy/pull/10955>`__: MAINT: Relax
> the assert_unitary atol value
> * `#10956 <https://github.com/scipy/scipy/pull/10956>`__: WIP: make
> pdtr(int, double) be pdtr(double, double)
> * `#10957 <https://github.com/scipy/scipy/pull/10957>`__: BUG: Ensure
> full binary compatibility of long double test data
> * `#10964 <https://github.com/scipy/scipy/pull/10964>`__: ENH: Make Slerp
> callable with a scalar argument
> * `#10972 <https://github.com/scipy/scipy/pull/10972>`__: BUG: Handle
> complex gains in zpk2sos
> * `#10975 <https://github.com/scipy/scipy/pull/10975>`__: TST: skip
> test_kendalltau ppc64le
> * `#10978 <https://github.com/scipy/scipy/pull/10978>`__: BUG: boxcox
> data dimension and constancy check #5112
> * `#10979 <https://github.com/scipy/scipy/pull/10979>`__: API: Rename dcm
> to (rotation) matrix in Rotation class
> * `#10981 <https://github.com/scipy/scipy/pull/10981>`__: MAINT: add
> support for a==0 and x>0 edge case to igam and igamc
> * `#10986 <https://github.com/scipy/scipy/pull/10986>`__: MAINT: Remove
> direct imports from numpy in signaltools.py
> * `#10988 <https://github.com/scipy/scipy/pull/10988>`__: BUG: signal:
> fixed issue #10360
> * `#10989 <https://github.com/scipy/scipy/pull/10989>`__: FIX
> binned_statistic_dd Mac wheel test fails
> * `#10990 <https://github.com/scipy/scipy/pull/10990>`__: BUG: Fix memory
> leak in shgo triangulation
> * `#10992 <https://github.com/scipy/scipy/pull/10992>`__: TST: Relax
> tolerance in upfirdn test_modes
> * `#10993 <https://github.com/scipy/scipy/pull/10993>`__: TST: bump
> tolerance in optimize tests
> * `#10997 <https://github.com/scipy/scipy/pull/10997>`__: MAINT: Rework
> residue and residuez
> * `#11001 <https://github.com/scipy/scipy/pull/11001>`__: DOC: Updated
> Windows build tutorial
> * `#11004 <https://github.com/scipy/scipy/pull/11004>`__: BUG:
> integrate/quad_vec: fix several bugs in quad_vec
> * `#11005 <https://github.com/scipy/scipy/pull/11005>`__: TST: add Python
> 3.8 Win CI
> * `#11006 <https://github.com/scipy/scipy/pull/11006>`__: DOC: special:
> add a reference for \`kl_div\`
> * `#11012 <https://github.com/scipy/scipy/pull/11012>`__: MAINT: Rework
> invres and invresz
> * `#11015 <https://github.com/scipy/scipy/pull/11015>`__: DOC: special:
> add references for \`rel_entr\`
> * `#11017 <https://github.com/scipy/scipy/pull/11017>`__: DOC: numpydoc
> validation of morestats.py
> * `#11018 <https://github.com/scipy/scipy/pull/11018>`__: MAINT: Filter
> unrelated warning
> * `#11031 <https://github.com/scipy/scipy/pull/11031>`__: MAINT: update
> choose_conv_method for pocketfft implementation
> * `#11034 <https://github.com/scipy/scipy/pull/11034>`__: MAINT: TST:
> Skip tests with multiprocessing that use "spawn"...
> * `#11036 <https://github.com/scipy/scipy/pull/11036>`__: DOC: update
> doc/README with some more useful content.
> * `#11037 <https://github.com/scipy/scipy/pull/11037>`__: DOC: special:
> add a complete docstring for \`rgamma\`
> * `#11038 <https://github.com/scipy/scipy/pull/11038>`__: DOC: special:
> add a reference for the polygamma function
> * `#11042 <https://github.com/scipy/scipy/pull/11042>`__: TST: fix tf2zpk
> test failure due to incorrect complex sorting.
> * `#11044 <https://github.com/scipy/scipy/pull/11044>`__: MAINT:
> choose_conv_method can choose fftconvolution for longcomplex
> * `#11046 <https://github.com/scipy/scipy/pull/11046>`__: TST: Reduce
> tolerance for ppc64le with reference lapack
> * `#11048 <https://github.com/scipy/scipy/pull/11048>`__: DOC: special:
> add reference for orthogonal polynomial functions
> * `#11049 <https://github.com/scipy/scipy/pull/11049>`__: MAINT: proper
> random number initialization and readability fix
> * `#11051 <https://github.com/scipy/scipy/pull/11051>`__: MAINT: pep8
> cleanup
> * `#11054 <https://github.com/scipy/scipy/pull/11054>`__: TST: bump test
> precision for dual_annealing SLSQP test
> * `#11055 <https://github.com/scipy/scipy/pull/11055>`__: DOC: special:
> add a reference for \`zeta\`
> * `#11056 <https://github.com/scipy/scipy/pull/11056>`__: API: Deprecated
> normalized keyword in Rotation
> * `#11065 <https://github.com/scipy/scipy/pull/11065>`__: DOC: Ubuntu
> Development Environment Quickstart should not modify...
> * `#11066 <https://github.com/scipy/scipy/pull/11066>`__: BUG: skip
> deprecation for numpy top-level types
> * `#11067 <https://github.com/scipy/scipy/pull/11067>`__: DOC: updated
> documentation for consistency in writing style
> * `#11070 <https://github.com/scipy/scipy/pull/11070>`__: DOC: Amendment
> to Ubuntu Development Environment Quickstart should...
> * `#11073 <https://github.com/scipy/scipy/pull/11073>`__: DOC: fix 1.4.0
> release notes
> * `#11081 <https://github.com/scipy/scipy/pull/11081>`__: API: Replace
> Rotation.match_vectors with align_vectors
> * `#11083 <https://github.com/scipy/scipy/pull/11083>`__: DOC: more 1.4.0
> release note fixes
> * `#11092 <https://github.com/scipy/scipy/pull/11092>`__: BUG: stats: fix
> freezing of some distributions
> * `#11096 <https://github.com/scipy/scipy/pull/11096>`__: BUG:
> scipy.sparse.csgraph: fixed issue #10774
> * `#11124 <https://github.com/scipy/scipy/pull/11124>`__: fix Cython
> warnings related to _stats.pyx
> * `#11126 <https://github.com/scipy/scipy/pull/11126>`__: BUG:
> interpolate/fitpack: fix memory leak in splprep
> * `#11127 <https://github.com/scipy/scipy/pull/11127>`__: Avoid potential
> segfault in CSR and CSC matrix indexing
> * `#11152 <https://github.com/scipy/scipy/pull/11152>`__: BUG: Fix random
> state bug multiscale_graphcorr
> * `#11166 <https://github.com/scipy/scipy/pull/11166>`__: BUG: empty
> sparse slice shapes
> * `#11167 <https://github.com/scipy/scipy/pull/11167>`__: BUG: redundant
> fft in signal.resample
> * `#11181 <https://github.com/scipy/scipy/pull/11181>`__: TST: Fix
> tolerance of tests for aarch64
> * `#11182 <https://github.com/scipy/scipy/pull/11182>`__: TST: Bump up
> tolerance for test_maxiter_worsening
> * `#11199 <https://github.com/scipy/scipy/pull/11199>`__: BUG:
> sparse.linalg: mistake in unsymm. real shift-invert ARPACK eigenvalue
> selection
>
> Checksums
> =========
>
> MD5
> ~~~
>
> aa98f881f11681a35e18eadbf2c403fd
>  scipy-1.4.0-cp35-cp35m-macosx_10_6_intel.whl
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> 3fccff6188a8ca127f61dd200aef367a
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> 9f20a8fdb63c53757455deeab05ae75a  scipy-1.4.0-cp38-cp38-win32.whl
> 34b5f5adf9145c6db408357e278
>
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From tyler.je.reddy at gmail.com  Thu Dec 19 11:05:43 2019
From: tyler.je.reddy at gmail.com (Tyler Reddy)
Date: Thu, 19 Dec 2019 09:05:43 -0700
Subject: [SciPy-Dev] ANN: SciPy 1.4.1
Message-ID: <CAHPuU_b110oMRMupuRSXKY9Saqpfr_-H=ZbmvM2oHkVKZ7YY4w@mail.gmail.com>

-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256

Hi all,

On behalf of the SciPy development team I'm pleased to announce
the release of SciPy 1.4.1, which is a bug fix release.

Sources and binary wheels can be found at:
https://pypi.org/project/scipy/
and at: https://github.com/scipy/scipy/releases/tag/v1.4.1

One of a few ways to install this release with pip:

pip install scipy==1.4.1

==========================
SciPy 1.4.1 Release Notes
==========================

SciPy 1.4.1 is a bug-fix release with no new features
compared to 1.4.0. Importantly, it aims to fix a problem
where an older version of pybind11 may cause a segmentation
fault when imported alongside incompatible libraries.

Authors
======

* Ralf Gommers
* Tyler Reddy

Issues closed for 1.4.1
---------------------------------

* `#11237 <https://github.com/scipy/scipy/issues/11237>`__: Seg fault when
importing torch

Pull requests for 1.4.1
--------------------------------

* `#11238 <https://github.com/scipy/scipy/pull/11238>`__: BLD: update
minimum pybind11 version to 2.4.0.

Checksums
=========

MD5
~~~

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~~~~~~

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From warren.weckesser at gmail.com  Thu Dec 19 13:52:06 2019
From: warren.weckesser at gmail.com (Warren Weckesser)
Date: Thu, 19 Dec 2019 13:52:06 -0500
Subject: [SciPy-Dev] ANN: SciPy 1.4.1
In-Reply-To: <CAHPuU_b110oMRMupuRSXKY9Saqpfr_-H=ZbmvM2oHkVKZ7YY4w@mail.gmail.com>
References: <CAHPuU_b110oMRMupuRSXKY9Saqpfr_-H=ZbmvM2oHkVKZ7YY4w@mail.gmail.com>
Message-ID: <CAGzF1ucUwN7OA3QSmJM5_6_npPAL0qHzAH_d68Enq0jguiAncA@mail.gmail.com>

On 12/19/19, Tyler Reddy <tyler.je.reddy at gmail.com> wrote:
> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA256
>
> Hi all,
>
> On behalf of the SciPy development team I'm pleased to announce
> the release of SciPy 1.4.1, which is a bug fix release.


Thanks for the quick fix, Tyler!

Warren


>
> Sources and binary wheels can be found at:
> https://pypi.org/project/scipy/
> and at: https://github.com/scipy/scipy/releases/tag/v1.4.1
>
> One of a few ways to install this release with pip:
>
> pip install scipy==1.4.1
>
> ==========================
> SciPy 1.4.1 Release Notes
> ==========================
>
> SciPy 1.4.1 is a bug-fix release with no new features
> compared to 1.4.0. Importantly, it aims to fix a problem
> where an older version of pybind11 may cause a segmentation
> fault when imported alongside incompatible libraries.
>
> Authors
> ======
>
> * Ralf Gommers
> * Tyler Reddy
>
> Issues closed for 1.4.1
> ---------------------------------
>
> * `#11237 <https://github.com/scipy/scipy/issues/11237>`__: Seg fault when
> importing torch
>
> Pull requests for 1.4.1
> --------------------------------
>
> * `#11238 <https://github.com/scipy/scipy/pull/11238>`__: BLD: update
> minimum pybind11 version to 2.4.0.
>
> Checksums
> =========
>
> MD5
> ~~~
>
> 82a6df2d23315b9e7f7ab334ae4ed98d
>  scipy-1.4.1-cp35-cp35m-macosx_10_6_intel.whl
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> scipy-1.4.1-cp36-cp36m-manylinux1_i686.whl
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From charlesr.harris at gmail.com  Sun Dec 22 11:57:04 2019
From: charlesr.harris at gmail.com (Charles R Harris)
Date: Sun, 22 Dec 2019 09:57:04 -0700
Subject: [SciPy-Dev] NumPy 1.18.0 release
Message-ID: <CAB6mnxLcHARXKL3jaEqA1sPRD6DimcNbtC3D6LfSgOwCJwBwBQ@mail.gmail.com>

Hi All,

On behalf of the NumPy team I am pleased to announce that NumPy 1.18.0 has
been released. In addition to the usual bug fixes, this NumPy release
cleans up and documents the new random C-API, expires a large number of old
deprecations, and improves the appearance and organization of the
documentation. The Python versions supported are 3.5-3.8. This is the last
NumPy release series that will support Python 3.5.

The highlights of this release are:

   - the C-API for ``numpy.random`` has been defined and documented,
   - basic infrastructure for linking with 64 bit BLAS and LAPACK libraries,
   - many documentation improvements.

Downstream developers should use Cython >= 0.29.14 for Python 3.8 support
and OpenBLAS >= 3.7 to avoid wrong results on the Skylake architecture. The
NumPy Wheels for this release can be downloaded from PyPI
<https://pypi.org/project/numpy/1.18.0/>, source archives and release notes
are available from Github
<https://github.com/numpy/numpy/releases/tag/v1.18.0>.

*Highlights*

   - The C-API for ``numpy.random`` has been defined and documented.
   - Basic infrastructure for linking with 64 bit BLAS and LAPACK libraries.
   - Many documentation improvements.


*Contributors*

A total of 114 people contributed to this release.  People with a "+" by
their
names contributed a patch for the first time.

   - Abhinav Sagar
   - Alex Henrie +
   - Alexander Jung +
   - Allan Haldane
   - Andrea Pattori
   - Andrew Liu +
   - Anis Ladram +
   - Anne Bonner +
   - Antoine Dechaume +
   - Aryan Naraghi +
   - Bastian Eichenberger +
   - Brian Wignall +
   - Brigitta Sipocz
   - CakeWithSteak +
   - Charles Harris
   - Chris Barker
   - Chris Burr +
   - Chris Markiewicz +
   - Christoph Gohlke
   - Christopher Whelan
   - Colin Snyder
   - Dan Allan
   - Daniel Ching
   - David Stansby +
   - David Zwicker +
   - Dieter Werthm?ller
   - Disconnect3d +
   - Dmytro +
   - Doug Davis +
   - Eric Larson
   - Eric Wieser
   - Esben Haabendal +
   - Eugene Prilepin +
   - Felix Divo +
   - Gary Gurlaskie
   - Gina +
   - Giuseppe Cuccu +
   - Grzegorz Bokota +
   - Guanqun Lu +
   - Guilherme Leobas +
   - Guillaume Horel
   - G?raud Le Falher +
   - Hameer Abbasi
   - Harmon
   - Hiroyuki V. Yamazaki
   - Huang, Guangtai +
   - Hugo +
   - Hyeonguk Ryu +
   - Ilhan Polat +
   - Isaac Virshup
   - Jack J. Woehr +
   - Jack Woehr +
   - Jackie Leng
   - Jaime Fernandez
   - Jeff Hale +
   - Johann Faouzi +
   - Jon Dufresne +
   - Joseph Fox-Rabinovitz
   - Joseph R. Fox-Rabinovitz +
   - Jo?o Marcos Gris +
   - Justus Magin +
   - J?r?mie du Boisberranger
   - Kai Striega
   - Kevin Sheppard
   - Kexuan Sun
   - Kmol Yuan +
   - Kriti Singh
   - Larry Bradley +
   - Lars Grueter
   - Luis Pedro Coelho
   - MSeifert04
   - Magdalena Proszewska +
   - Manny +
   - Mark Harfouche
   - Martin Reinecke
   - Martin Thoma
   - Matt Haberland +
   - Matt McCormick +
   - Matthias Bussonnier
   - Matti Picus
   - Max Bolingbroke +
   - Maxwell Aladago +
   - Michael Hudson-Doyle +
   - Oleksandr Pavlyk
   - Omar Merghany +
   - Pauli Virtanen
   - Peter Andreas Entschev
   - Peter Bell
   - Peter Cock +
   - Pradeep Reddy Raamana +
   - Qiming Sun +
   - Raghuveer Devulapalli
   - Ralf Gommers
   - Samesh +
   - Samesh Lakhotia +
   - Sebastian Berg
   - Sergei Lebedev
   - Seth Troisi +
   - Siddhesh Poyarekar +
   - Simon +
   - Simon Notley +
   - Stefan van der Walt
   - Stephan Hoyer
   - Steve Stagg
   - Thomas A Caswell
   - Thomas Kluyver
   - Tim Hoffmann +
   - Tirth Patel +
   - Tyler Reddy
   - Vladimir Pershin +
   - Warren Weckesser
   - Yadong Zhang +
   - Zieji Pohz +
   - Zolisa Bleki +

Cheers,

Charles Harris
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From ilhanpolat at gmail.com  Sun Dec 22 18:00:46 2019
From: ilhanpolat at gmail.com (Ilhan Polat)
Date: Mon, 23 Dec 2019 00:00:46 +0100
Subject: [SciPy-Dev] Symmetric/Hermitian Eigenvalue Problem API and LAPACK
 wrappers change proposal
Message-ID: <CAEBuzr_KXdZNinEfKyOprxcpEMdtzMJU385wjxh9j8UQL6RfLA@mail.gmail.com>

Dear all,

I've finally managed to create some time to put together the current status
of the eigh, eigvalsh functions and possible ways to improve and maintain
them.

The issue is here

https://github.com/scipy/scipy/issues/6502#issuecomment-241437506

I would really appreciate any feedback for this. It's in WIP format and
I'll add more information as I go along.

Happy holidays to all!

Best,
ilhan
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From andyfaff at gmail.com  Sun Dec 22 20:32:56 2019
From: andyfaff at gmail.com (Andrew Nelson)
Date: Mon, 23 Dec 2019 12:32:56 +1100
Subject: [SciPy-Dev] doc git submodule causing issues
Message-ID: <CAAbtOZf3JQPtSj3FhFKejiBsA6jqO=vap=niFzFtxR6U3+AKGw@mail.gmail.com>

 I'm currently experiencing an issue where doc/scipy-sphinx-theme is always
looking like changes have been made to it, even if I've not touched it.
Several times now I've committed it by accident so have had to roll back
changes. Is there a recommended way of preventing this?
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From ralf.gommers at gmail.com  Mon Dec 23 00:01:15 2019
From: ralf.gommers at gmail.com (Ralf Gommers)
Date: Mon, 23 Dec 2019 06:01:15 +0100
Subject: [SciPy-Dev] doc git submodule causing issues
In-Reply-To: <CAAbtOZf3JQPtSj3FhFKejiBsA6jqO=vap=niFzFtxR6U3+AKGw@mail.gmail.com>
References: <CAAbtOZf3JQPtSj3FhFKejiBsA6jqO=vap=niFzFtxR6U3+AKGw@mail.gmail.com>
Message-ID: <CABL7CQiG1kFPHqD2GCOxW5=YNwHbeTDJg9xSOradG-rX+xF_eg@mail.gmail.com>

On Mon, Dec 23, 2019 at 2:33 AM Andrew Nelson <andyfaff at gmail.com> wrote:

> I'm currently experiencing an issue where doc/scipy-sphinx-theme is always
> looking like changes have been made to it, even if I've not touched it.
> Several times now I've committed it by accident so have had to roll back
> changes. Is there a recommended way of preventing this?
>

Just `git submodule update` should get rid of that I think. Note that `git
pull` et al. don't automatically update submodules, hence the need to
update explicitly.

There's unfortunately no convenient way to say `git commit -a` excluding
submodules afaik.

Cheers,
Ralf



> _______________________________________________
> SciPy-Dev mailing list
> SciPy-Dev at python.org
> https://mail.python.org/mailman/listinfo/scipy-dev
>
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From cimrman3 at ntc.zcu.cz  Mon Dec 23 16:34:32 2019
From: cimrman3 at ntc.zcu.cz (Robert Cimrman)
Date: Mon, 23 Dec 2019 22:34:32 +0100
Subject: [SciPy-Dev] ANN: SfePy 2019.4
Message-ID: <b2927ed5-9077-c85a-9716-503af775c262@ntc.zcu.cz>

I am pleased to announce release 2019.4 of SfePy.

Description
-----------

SfePy (simple finite elements in Python) is a software for solving systems of
coupled partial differential equations by the finite element method or by the
isogeometric analysis (limited support). It is distributed under the new BSD
license.

Home page: http://sfepy.org
Mailing list: https://mail.python.org/mm3/mailman3/lists/sfepy.python.org/
Git (source) repository, issue tracker: https://github.com/sfepy/sfepy

Highlights of this release
--------------------------

- support surface terms in 1D problems
- improved Gmsh mesh format support (write .msh files)
- new updating procedure in nonlinear homogenization
- improved/faster log plotter

For full release notes see [1].

Cheers,
Robert Cimrman

[1] http://docs.sfepy.org/doc/release_notes.html#id1

---

Contributors to this release in alphabetical order:

Robert Cimrman
Vladimir Lukes
Matyas Novak
Tom?? Z?tka

From charlesr.harris at gmail.com  Sun Dec 29 19:27:25 2019
From: charlesr.harris at gmail.com (Charles R Harris)
Date: Sun, 29 Dec 2019 17:27:25 -0700
Subject: [SciPy-Dev] NumPy 1.16.6 release.
Message-ID: <CAB6mnx+d=0CZ-XaXY7E3hbUOcKdc7V4AvsBUZ6YDnGX4bdMdBQ@mail.gmail.com>

Hi All,

On behalf of the NumPy team I am pleased to announce that NumPy 1.16.6 has
been released. This release fixes bugs reported against the 1.16.5 release
and backports several enhancements from master that seem appropriate for an
LTS series. The supported Python versions are 2.7, 3.5-3.7. This is the
last release planned that supports Python 2.7.  Wheels for this release can
be downloaded from PyPI <https://pypi.org/project/numpy/1.16.6>, source
archives and release notes are available from Github
<https://github.com/numpy/numpy/releases/tag/v1.16.6>. Downstream
developers building this release should use Cython >= 0.29.2 and, if using
OpenBLAS, OpenBLAS >= v0.3.7.

*Highlights*

   - The ``np.testing.utils`` functions have been updated from 1.19.0-dev0.
   This improves the function documentation and error messages as well
   extending the ``assert_array_compare`` function to additional types.

*Contributors*

A total of 10 people contributed to this release.


   - CakeWithSteak
   - Charles Harris
   - Chris Burr
   - Eric Wieser
   - Fernando Saravia
   - Lars Grueter
   - Matti Picus
   - Maxwell Aladago
   - Qiming Sun
   - Warren Weckesser


*Pull requests merged*

A total of 14 pull requests were merged for this release.


   - `#14211 <https://github.com/numpy/numpy/pull/14211>`__: BUG: Fix
   uint-overflow if padding with linear_ramp and negative...
   - `#14275 <https://github.com/numpy/numpy/pull/14275>`__: BUG: fixing to
   allow unpickling of PY3 pickles from PY2
   - `#14340 <https://github.com/numpy/numpy/pull/14340>`__: BUG: Fix
   misuse of .names and .fields in various places (backport...
   - `#14423 <https://github.com/numpy/numpy/pull/14423>`__: BUG: test, fix
   regression in converting to ctypes.
   - `#14434 <https://github.com/numpy/numpy/pull/14434>`__: BUG: Fixed
   maximum relative error reporting in assert_allclose
   - `#14509 <https://github.com/numpy/numpy/pull/14509>`__: BUG: Fix
   regression in boolean matmul.
   - `#14686 <https://github.com/numpy/numpy/pull/14686>`__: BUG: properly
   define PyArray_DescrCheck
   - `#14853 <https://github.com/numpy/numpy/pull/14853>`__: BLD: add 'apt
   update' to shippable
   - `#14854 <https://github.com/numpy/numpy/pull/14854>`__: BUG: Fix
   _ctypes class circular reference. (#13808)
   - `#14856 <https://github.com/numpy/numpy/pull/14856>`__: BUG: Fix
   `np.einsum` errors on Power9 Linux and z/Linux
   - `#14863 <https://github.com/numpy/numpy/pull/14863>`__: BLD: Prevent
   -flto from optimising long double representation...
   - `#14864 <https://github.com/numpy/numpy/pull/14864>`__: BUG: lib: Fix
   histogram problem with signed integer arrays.
   - `#15172 <https://github.com/numpy/numpy/pull/15172>`__: ENH: Backport
   improvements to testing functions.
   - `#15191 <https://github.com/numpy/numpy/pull/15191>`__: REL: Prepare
   for 1.16.6 release.

Cheers,

Charles Harris
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From warren.weckesser at gmail.com  Mon Dec 30 06:10:35 2019
From: warren.weckesser at gmail.com (Warren Weckesser)
Date: Mon, 30 Dec 2019 06:10:35 -0500
Subject: [SciPy-Dev] NumPy 1.16.6 release.
In-Reply-To: <CAB6mnx+d=0CZ-XaXY7E3hbUOcKdc7V4AvsBUZ6YDnGX4bdMdBQ@mail.gmail.com>
References: <CAB6mnx+d=0CZ-XaXY7E3hbUOcKdc7V4AvsBUZ6YDnGX4bdMdBQ@mail.gmail.com>
Message-ID: <CAGzF1ueYbrNPjkXJwz7g=g2iHUnkCgM6JkOztS6NQbQNpjoErQ@mail.gmail.com>

Thanks Chuck!

Warren

On 12/29/19, Charles R Harris <charlesr.harris at gmail.com> wrote:
> Hi All,
>
> On behalf of the NumPy team I am pleased to announce that NumPy 1.16.6 has
> been released. This release fixes bugs reported against the 1.16.5 release
> and backports several enhancements from master that seem appropriate for an
> LTS series. The supported Python versions are 2.7, 3.5-3.7. This is the
> last release planned that supports Python 2.7.  Wheels for this release can
> be downloaded from PyPI <https://pypi.org/project/numpy/1.16.6>, source
> archives and release notes are available from Github
> <https://github.com/numpy/numpy/releases/tag/v1.16.6>. Downstream
> developers building this release should use Cython >= 0.29.2 and, if using
> OpenBLAS, OpenBLAS >= v0.3.7.
>
> *Highlights*
>
>    - The ``np.testing.utils`` functions have been updated from 1.19.0-dev0.
>    This improves the function documentation and error messages as well
>    extending the ``assert_array_compare`` function to additional types.
>
> *Contributors*
>
> A total of 10 people contributed to this release.
>
>
>    - CakeWithSteak
>    - Charles Harris
>    - Chris Burr
>    - Eric Wieser
>    - Fernando Saravia
>    - Lars Grueter
>    - Matti Picus
>    - Maxwell Aladago
>    - Qiming Sun
>    - Warren Weckesser
>
>
> *Pull requests merged*
>
> A total of 14 pull requests were merged for this release.
>
>
>    - `#14211 <https://github.com/numpy/numpy/pull/14211>`__: BUG: Fix
>    uint-overflow if padding with linear_ramp and negative...
>    - `#14275 <https://github.com/numpy/numpy/pull/14275>`__: BUG: fixing to
>    allow unpickling of PY3 pickles from PY2
>    - `#14340 <https://github.com/numpy/numpy/pull/14340>`__: BUG: Fix
>    misuse of .names and .fields in various places (backport...
>    - `#14423 <https://github.com/numpy/numpy/pull/14423>`__: BUG: test, fix
>    regression in converting to ctypes.
>    - `#14434 <https://github.com/numpy/numpy/pull/14434>`__: BUG: Fixed
>    maximum relative error reporting in assert_allclose
>    - `#14509 <https://github.com/numpy/numpy/pull/14509>`__: BUG: Fix
>    regression in boolean matmul.
>    - `#14686 <https://github.com/numpy/numpy/pull/14686>`__: BUG: properly
>    define PyArray_DescrCheck
>    - `#14853 <https://github.com/numpy/numpy/pull/14853>`__: BLD: add 'apt
>    update' to shippable
>    - `#14854 <https://github.com/numpy/numpy/pull/14854>`__: BUG: Fix
>    _ctypes class circular reference. (#13808)
>    - `#14856 <https://github.com/numpy/numpy/pull/14856>`__: BUG: Fix
>    `np.einsum` errors on Power9 Linux and z/Linux
>    - `#14863 <https://github.com/numpy/numpy/pull/14863>`__: BLD: Prevent
>    -flto from optimising long double representation...
>    - `#14864 <https://github.com/numpy/numpy/pull/14864>`__: BUG: lib: Fix
>    histogram problem with signed integer arrays.
>    - `#15172 <https://github.com/numpy/numpy/pull/15172>`__: ENH: Backport
>    improvements to testing functions.
>    - `#15191 <https://github.com/numpy/numpy/pull/15191>`__: REL: Prepare
>    for 1.16.6 release.
>
> Cheers,
>
> Charles Harris
>