DOC: SciPy 1.15.0 relnotes #21982

tylerjereddy · 2024-12-01T03:12:46Z

Early draft of SciPy 1.15.0 release notes. Skipping CI completely for now, though local render of the draft notes looks nice so far. Folks may continue to update the wiki or make suggestions here--either is fine--I simply start this because the initial transcription takes longer than you might think so getting it rolling helps avoid last minute pain.

TODO:

transcribe wiki version to RST, wrap at 80 char line lengths, fix links/errors, check render (last done: Nov 30th at 8:09 pm US mountain time)
check the wiki for updates again before branching and update this PR accordingly
manually scan through ENH PRs and add entries not already present in current notes (last done on Dec. 3/2024)
author list update (repeat just before branching)
issue/PR list update (repeat just before branching)
.mailmap update from DOC, REL: 1.15.0 author mappings #21940
gradually reactivate the CI here, when ready
finalize release notes highlights
Remove unused/empty (sub)sections in the release notes

doc/source/release/1.15.0-notes.rst

tylerjereddy · 2024-12-01T16:54:01Z

doc/source/release/1.15.0-notes.rst

+  implementation of univariate, continuous distributions:
+
+  - Speed, accuracy, and memory advantages of the new infastructure are
+    detailed in


mostly note to self--this is the only "incomplete" sentence I noticed last night, probably because I transcribed the wiki release notes a bit early

I think I left a blank to add a link to a tutorial when it merges.

rgommers

Thanks Tyler! Looks good overall.

For the first paragraph, I suggest changing Python 3.10+ to Python 3.10-3.13, since that's more accurate and useful info.

Here is suggested content to describe free-threading support: https://github.com/rgommers/scipy/tree/relnotes-115-freethreading. Could you please pull that in @tylerjereddy?

I added a few other high-level comments; no detailed line by line review yet since this is draft.

doc/source/release/1.15.0-notes.rst

tylerjereddy · 2024-12-04T04:04:11Z

Ok, I did the manual read through of all 123 ENH-labelled PRs that were merged under the 1.15.0 milestone and filled in some things that were missing. I cast a fairly wide net, adding a few things I thought were borderline, since I figured it would be easier to remove them than to have others also scanning through the pages of PRs.

I also added the array API support section--somehow I forgot that in the first pass at transcribing from the wiki page a few days ago.

Caution: I caught some deprecations that were not mentioned--particularly messy was stuff surrounding special like assoc_legendre_p_all -- I was about to add a release note saying that lpn et al. had a new keyword/improvement, and then when I looked at them, they were deprecated in the same release as the improvement!

doc/source/release/1.15.0-notes.rst

jorenham · 2024-12-04T20:22:00Z

I'm also compiling a similar 1.15.0 checklist at jorenham/scipy-stubs#250. So in case anyone is willing to see if I missed something, that would be certainly appreciated!

tylerjereddy · 2024-12-04T21:43:48Z

I've attempted to catch up with all the reviewer comments now a well--I'll leave them "unresolved" for a bit in case folks prefer to check that I've genuinely resolved their concern.

I'm also lifting the draft status and allowing the docs-only CI to flush through now since it looks pretty nice locally. Of course, this will remain informally WIP until branching proper.

tylerjereddy · 2024-12-04T21:50:19Z

I'd also be "ok" with mentioning scipy-stubs in the "Other" section perhaps? Looks like Joren is pretty organized there and that's at least of peripheral interest to consumers.

jorenham · 2024-12-04T22:28:36Z

I'd also be "ok" with mentioning scipy-stubs in the "Other" section perhaps?

That'd be awesome 😄.

I'll try my best to release scipy-stubs 1.15.0.0 before the final scipy 1.15.0. Assuming that there won't be any API changes after the RC has been released, then those 3-4 weeks should be more than enough time for me to achieve that 👌🏻.

jorenham · 2024-12-04T22:44:06Z

I'd also be "ok" with mentioning scipy-stubs in the "Other" section perhaps?

That'd be awesome 😄.

I'll try my best to release scipy-stubs 1.15.0.0 before the final scipy 1.15.0. Assuming that there won't be any API changes after the RC has been released, then those 3-4 weeks should be more than enough time for me to achieve that 👌🏻.

So in case it wasn't clear yet; I don't plan on releasing a scipy-stubs 1.15.0rc0.0, and jump right to 1.15.0.0. And even if it turns out that I messed up something, then scipy-stubs isn't bound to any release schedule, so I'll be able to fix it right away.

doc/source/release/1.15.0-notes.rst

jorenham · 2024-12-05T19:15:45Z

doc/source/release/1.15.0-notes.rst

@@ -17,96 +17,1431 @@ run your code with ``python -Wd`` and check for ``DeprecationWarning`` s).
 Our development attention will now shift to bug-fix releases on the
 1.15.x branch, and on adding new features on the main branch.

-This release requires Python 3.10+ and NumPy 1.23.5 or greater.
+This release requires Python 3.10-3.13 and NumPy 1.23.5 or greater.


Given SPEC 0, I expected this to be numpy>=1.24(.4) 🤔

Oh and I see that SPEC 0 also recommends dropping support for Python 3.10 in Q4 2024.

Re: Python version, it sounds fine to stay in sync with NumPy as long as they don't get too far behind.

Re: #21982 (comment), note that we will actually be past the SPEC 0 recommended support window for NumPy 1.24 when SciPy 1.15 is released, but we tend to lag behind by a version or so, perhaps to avoid ending up on the borderline. However, I would like to get to 2.1+ earlier rather than later.

If we do NumPy 1.24 for 1.15 (Jan 2025), NumPy 1.25 for SciPy 1.16 (June 2025), and NumPy 1.26 for SciPy 1.17 (Jan 2026), we could probably skip to NumPy 2.1 for SciPy 1.18 (Jun 2026).

tylerjereddy · 2024-12-05T23:30:21Z

I pushed in a commit that aims to address the latest round of reviewer comments. Python 3.10 will be supported by the upcoming NumPy release, so I suspect we may want to drop 3.10 in sync with them (for the release after that). It may cause a bit of last-minute chaos to bump the lowest NumPy version, maybe do it just after branching?

Edit: there was no need to flush the full CI, forgot [docs only].

doc/source/release/1.15.0-notes.rst

tylerjereddy · 2024-12-06T18:28:34Z

I included Matt's addition of ttest_ind-related argument deprecations and a hyperlink to Joren's install instructions section for scipy-stubs (I figure even if the instructions change a bit per above, Joren could always just update that section in the stubs repo a bit).

jorenham · 2024-12-06T18:33:24Z

I included Matt's addition of ttest_ind-related argument deprecations and a hyperlink to Joren's install instructions section for scipy-stubs (I figure even if the instructions change a bit per above, Joren could always just update that section in the stubs repo a bit).

I'll make sure that the URL will remain valid for the foreseeable future 👌🏻.

tylerjereddy · 2024-12-07T00:03:09Z

@mdhaber stats has been moving pretty fast last few days--are we "green light" from your side to branch around tomorrow?

@h-vetinari how about you? any concerns on your end/conda-forge side?

[skip ci] [ci skip] [skip cirrus] [skip circle]

* Add a release note entry for `lombscargle` changes based on reviewer feedback. [skip ci] [ci skip] [skip cirrus] [skip circle]

* Update the release notes for SciPy `1.15.0` following manual inspection of all 123 merged enhancement-labeled PRs with this milestone. * Add forgotten array API support section from the release notes wiki to the RST release notes. [skip ci] [ci skip] [skip cirrus] [skip circle]

* Update the `.mailmap` file according to scipygh-21940, then update the authors list in the release notes for SciPy `1.15.0` accordingly. [skip ci] [ci skip] [skip cirrus] [skip circle]

* Add issue/PR lists to SciPy `1.15.0` release notes. [skip ci] [ci skip] [skip cirrus] [skip circle]

* Remove unused subsections in the SciPy `1.15.0` release notes. [skip ci] [ci skip] [skip cirrus] [skip circle]

* Address the first batch of reviewer comments related to the draft SciPy `1.15.0` release notes. [docs only]

* Mention the `scipy-stubs` package in the release notes. * Mention `ndonnx` in the array API support section. * Mention the removal of the functions in `scipy.misc` and the renaming of `sosfreqz` to `freqz_sos`. * Remove an undesirable escape character from the release notes formatting for issue 21044. * Mention the deprecations of `distance.kulczynski1` and `distance.sokalmichener`. * Clarified the current status of batching support for `scipy.linalg.toeplitz`.

* Mention argument deprecations in `ttest_ind` in the SciPy `1.15.0` release notes. * A link to the `scipy-stubs` installation instructions has been added to the SciPy `1.15.0` release notes. [docs only]

jorenham · 2024-12-07T21:46:29Z

doc/source/release/1.15.0-notes.rst

+    distribution (e.g. `scipy.stats.norm`) with the new infrastructure.
+    This can improve the speed and accuracy of existing distributions,
+    especially for methods not overridden with custom formulas in the
+    implementation.


#21746 added scipy.stats.{exp,log}

#21752 added scipy.stats.{abs,truncate}

Suggested below https://github.com/scipy/scipy/pull/21982/files#r1874575198

tylerjereddy · 2024-12-07T21:48:40Z

Ok, I'm doing some fairly fast updating of the relnotes from recently-merged PRs locally for now..

* Deal with scipygh-22020. * Update the author list one more time in the SciPy `1.15.0` release notes, before branching. * Update the issue/PR lists before branching, and update the release notes again for ENH PRs that were recently merged. * Remove the tentative mention of docs relating to new stats distn infra for now. [docs only]

tylerjereddy · 2024-12-07T22:11:37Z

I've pushed in the latest revisions/relnotes additions--we'll see if the docs build in CI agrees with the fix for gh-22020.

jorenham · 2024-12-07T22:21:58Z

doc/source/release/1.15.0-notes.rst

+- Added ``OrderStatisticDistribution``, a class representing the distribution
+  of order statistics of samples drawn from another distribution.


OrderStatisticDistribution isn't public, and the scipy.stats.order_statistic factory function is what should be used for this:
https://github.com/scipy/scipy/pull/21790/files

Suggested change

- Added ``OrderStatisticDistribution``, a class representing the distribution

of order statistics of samples drawn from another distribution.

I'll add this (order_statistic) up above.

jorenham · 2024-12-07T22:23:12Z

doc/source/release/1.15.0-notes.rst

+  other than ``(2, 2)``.
+- `scipy.stats.truncate` adds the ability to truncate the distribution
+  underlying a random variable and `scipy.stats.abs` provides the ability to
+  take the absolute value of a random variable. The new ``FoldedDistribution``


I don't think the FoldedDistribution is exposed in scipy.stats, or am I wrong here, @mdhaber ?

You're right, thanks! I will read through this again now.

mdhaber · 2024-12-07T22:29:36Z

doc/source/release/1.15.0-notes.rst

+- Added ``OrderStatisticDistribution``, a class representing the distribution
+  of order statistics of samples drawn from another distribution.


Suggested change

- Added ``OrderStatisticDistribution``, a class representing the distribution

of order statistics of samples drawn from another distribution.

mdhaber · 2024-12-07T22:30:11Z

doc/source/release/1.15.0-notes.rst

+- It is now possible to generate quasi-random samples from statistical
+  distributions by providing a ``QMCEngine`` object to the ``rng`` argument.


Suggested change

- It is now possible to generate quasi-random samples from statistical

distributions by providing a ``QMCEngine`` object to the ``rng`` argument.

This is only part of the sample method of the new RV objects, so it's not really an enhancement that needs to be covered separately.

mdhaber · 2024-12-07T22:30:44Z

doc/source/release/1.15.0-notes.rst

+- Added ``OrderStatisticDistribution``, a class representing the distribution
+  of order statistics of samples drawn from another distribution.


Suggested change

- Added ``OrderStatisticDistribution``, a class representing the distribution

of order statistics of samples drawn from another distribution.

I'll add this (order_statistic) up above.

mdhaber · 2024-12-07T22:31:21Z

doc/source/release/1.15.0-notes.rst

+- `scipy.stats.truncate` adds the ability to truncate the distribution
+  underlying a random variable and `scipy.stats.abs` provides the ability to
+  take the absolute value of a random variable. The new ``FoldedDistribution``
+  represents the distribution underlying the absolute value of a random
+  variable.


Suggested change

- `scipy.stats.truncate` adds the ability to truncate the distribution

underlying a random variable and `scipy.stats.abs` provides the ability to

take the absolute value of a random variable. The new ``FoldedDistribution``

represents the distribution underlying the absolute value of a random

variable.

mdhaber · 2024-12-07T22:41:54Z

doc/source/release/1.15.0-notes.rst


+- `scipy.stats.Mixture` has been added to represent mixture distributions.


Suggested change

- `scipy.stats.Mixture` has been added to represent mixture distributions.

- `scipy.stats.Mixture` has been added to represent mixture distributions.

- Instances of `scipy.stats.Normal` and the classes returned by

`scipy.stats.make_distribution` are supported by several new

mathematical transformations.

- `scipy.stats.truncate` for truncation of the support.

- `scipy.stats.order_statistic` for the order statistics of a specified number of

IID random variables.

- `scipy.stats.abs`, `scipy.stats.exp`, and `scipy.stats.log`. For example,

``scipy.stats.abs(Normal())`` is distributed according to the folded normal

and ``scipy.stats.exp(Normal())`` is lognormally distributed.

mdhaber

I think this will LGTM after these last few suggestions.

mdhaber · 2024-12-07T22:50:12Z

doc/source/release/1.15.0-notes.rst

+  that all new code use sparse arrays and that developers start to migrate
+  their existing code from sparse matrix to sparse array:


Suggested change

that all new code use sparse arrays and that developers start to migrate

their existing code from sparse matrix to sparse array:

that all new code use sparse arrays instead of sparse matrices and that developers

start to migrate their existing code from sparse matrix to sparse array:

mdhaber · 2024-12-07T22:54:54Z

doc/source/release/1.15.0-notes.rst

+- A new distribution infrastructure in `scipy.stats` that includes speed
+  and accuracy improvements to existing distributions.


Suggested change

- A new distribution infrastructure in `scipy.stats` that includes speed

and accuracy improvements to existing distributions.

- New probability distribution features in `scipy.stats` can be used to improve the

speed and accuracy of existing continuous distributions and perform new

probability calculations.

"can be used to" because they don't automatically change the existing instances of rv_continous; rather, they transform them into subclasses of the new ContinuousDistribution.
"perform new probability calculations" refers to the new methods of ContinuousDistribution (e.g. several new log-methods, separate raw, central, and standardized moments, etc.)

mdhaber · 2024-12-07T22:59:43Z

doc/source/release/1.15.0-notes.rst

+  logarithms. To facilitate batch computation, the function is vectorized and
+  supports several Array API compatible array libraries in addition to
+  NumPy (see "Array API Standard Support" below).


Suggested change

logarithms. To facilitate batch computation, the function is vectorized and

supports several Array API compatible array libraries in addition to

NumPy (see "Array API Standard Support" below).

logarithms.

This is true, but it's mentioned above. Rather than including this sort of phrasing everywhere (e.g. the next two bullets, too), it's fine with me for it to just appear in select places.

mdhaber · 2024-12-07T23:05:09Z

doc/source/release/1.15.0-notes.rst


+  - `scipy.stats.Normal` represents the normal distribution with the new
+    interface. In most cases, its methods are faster and more accurate than


Suggested change

interface. In most cases, its methods are faster and more accurate than

interface. In typical cases, its methods are faster and more accurate than

h-vetinari · 2024-12-08T02:33:24Z

@h-vetinari how about you? any concerns on your end/conda-forge side?

I started a testrun based on current main in conda-forge/scipy-feedstock#284, and it looks like everything is passing (emulated tests are still running, but not expecting any issues there)

* Apply final round of suggestion from code review of SciPy `1.15.0` release notes. [docs only]

tylerjereddy · 2024-12-08T04:42:32Z

Alright, thanks Matt and Joren for helping with last-minute cleanups. I think got most of the recent round of comments dealt with now and if the docs CI passes again I'll likely squash merge and branch.

h-vetinari · 2024-12-08T18:27:54Z

@h-vetinari how about you? any concerns on your end/conda-forge side?

I started a testrun based on current main in conda-forge/scipy-feedstock#284, and it looks like everything is passing (emulated tests are still running, but not expecting any issues there)

Quick update: I opened #22022 (non-critical), and there's some new timeouts in emulation test_quad_vec_pool and test_quad_vec_pool_args.

More interestingly, after working around a conda-build issue, it also looks like we'll be able to add free-threading builds for scipy right away (it builds & test suite passes 🥳).

tylerjereddy added the Documentation Issues related to the SciPy documentation. Also check https://github.com/scipy/scipy.org label Dec 1, 2024

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💥 SciPy 1.15.0 support tracker jorenham/scipy-stubs#250

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DOC, REL: 1.15.0 author mappings #21940

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add scipy-typed package conda-forge/scipy-feedstock#289

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ENH: Add support for free threaded python #22018

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WIP, DOC: SciPy 1.15.0 relnotes

dcfcb7a

[skip ci] [ci skip] [skip cirrus] [skip circle]

DOC: PR 21982 revisions

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* Add a release note entry for `lombscargle` changes based on reviewer feedback. [skip ci] [ci skip] [skip cirrus] [skip circle]

DOC: PR 21982 revisions

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* Update the `.mailmap` file according to scipygh-21940, then update the authors list in the release notes for SciPy `1.15.0` accordingly. [skip ci] [ci skip] [skip cirrus] [skip circle]

DOC: PR 21982 revisions

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* Add issue/PR lists to SciPy `1.15.0` release notes. [skip ci] [ci skip] [skip cirrus] [skip circle]

DOC: PR 21982 revisions

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* Remove unused subsections in the SciPy `1.15.0` release notes. [skip ci] [ci skip] [skip cirrus] [skip circle]

DOC: PR 21982 revisions

307322c

* Address the first batch of reviewer comments related to the draft SciPy `1.15.0` release notes. [docs only]

DOC: PR 21982 revisions

89ea7d2

* Mention argument deprecations in `ttest_ind` in the SciPy `1.15.0` release notes. * A link to the `scipy-stubs` installation instructions has been added to the SciPy `1.15.0` release notes. [docs only]

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DOC, BUG: doc build failure due to scipy.misc changes #22020

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TST: tolerance violation in test_x0_working[tfqmr] on windows #22022

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		- Added ``OrderStatisticDistribution``, a class representing the distribution
		of order statistics of samples drawn from another distribution.

		- It is now possible to generate quasi-random samples from statistical
		distributions by providing a ``QMCEngine`` object to the ``rng`` argument.


		- `scipy.stats.Mixture` has been added to represent mixture distributions.

-- `scipy.stats.Mixture` has been added to represent mixture distributions.
+- `scipy.stats.Mixture` has been added to represent mixture distributions.
+- Instances of `scipy.stats.Normal` and the classes returned by
+  `scipy.stats.make_distribution` are supported by several new
+  mathematical transformations.
+  - `scipy.stats.truncate` for truncation of the support.
+  - `scipy.stats.order_statistic` for the order statistics of a specified number of
+    IID random variables.
+  - `scipy.stats.abs`, `scipy.stats.exp`, and `scipy.stats.log`. For example,
+    ``scipy.stats.abs(Normal())`` is distributed according to the folded normal
+    and ``scipy.stats.exp(Normal())`` is lognormally distributed.

		that all new code use sparse arrays and that developers start to migrate
		their existing code from sparse matrix to sparse array:

		- A new distribution infrastructure in `scipy.stats` that includes speed
		and accuracy improvements to existing distributions.

-- A new distribution infrastructure in `scipy.stats` that includes speed
-  and accuracy improvements to existing distributions.
+- New probability distribution features in `scipy.stats` can be used to improve the
+  speed and accuracy of existing continuous distributions and perform new
+  probability calculations.


		- `scipy.stats.Normal` represents the normal distribution with the new
		interface. In most cases, its methods are faster and more accurate than

	interface. In most cases, its methods are faster and more accurate than
	interface. In typical cases, its methods are faster and more accurate than

DOC: SciPy 1.15.0 relnotes #21982

DOC: SciPy 1.15.0 relnotes #21982

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