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github.com/scipy/scipy

SciPy library main repository
https://github.com/scipy/scipy

Merge pull request #19314 from Carreau/blit

DOC: Rst don't like list without blanklines.

f6b3680b13a8a25ec6b5c3befa9ac2fcbf211c73 authored over 1 year ago by Matt Haberland <[email protected]>
DOC: Rst don't like list without whitespaces.

It does not matter much as this is not rendered in the docs. But still
if something try to parse...

aa3f96730d35601432834857aa7ce3cedff926d5 authored over 1 year ago by Matthias Bussonnier <[email protected]>
Merge pull request #19312 from Carreau/and-more-docs

DOC: Misc formatting error.

1ba8359a2633ed3ea5b9e8deac28cfe22839ae73 authored over 1 year ago by Matt Haberland <[email protected]>
DOC: Misc formatting error.

Backticks, and missing `::` for directives.

[ci skip]

6849b9bc7f6ac048ef6a44ff057c59dfce0881e2 authored over 1 year ago by Matthias Bussonnier <[email protected]>
Merge pull request #19313 from Carreau/ccp-n

DOC: And new line at end of line in CPP code.

a3eb07b2354cde2fdde13a7e9b44ed074353e572 authored over 1 year ago by Matt Haberland <[email protected]>
DOC: And new line at end of line in CPP code.

Otherwise the doc is all messed up and on a single line.

[ci skip]

a1f3f97f4ade2789d1a12c171a403b815c170f5b authored over 1 year ago by Matthias Bussonnier <[email protected]>
DOC: invalid interpreted-text (missing space after closing backtick). (#19311)

bf7256bd8ae4c9ac04f75c4ddbde521b089a7d29 authored over 1 year ago by Matthias Bussonnier <[email protected]>
DEP: sparse: improve messages for deprecated private API for `sparse` (#19226)

* DEP: addressing issue #18279 changing deprecation for private API in the sparse submodule

*...

bf776169c753fff655200dc15ae26db95a083b02 authored over 1 year ago by Hoang Le <[email protected]>
MAINT: fix libquadmath licence (#19299)

* MAINT: linux amendments

* MAINT: osx amendments

* MAINT: win licence amendments

* MAI...

b7133442e796a32c22e4429e7a029697d549d629 authored over 1 year ago by Andrew Nelson <[email protected]>
ENH: fft: GPU support for non-standard basic transforms (#19263)

92fe79409b2a463c0e589b3e3e27ac11d337613a authored over 1 year ago by Lucas Colley <[email protected]>
Merge pull request #19304 from xuefeng-xu/page_typo

DOC: fix page typo in ks_2samp reference

607a423e48f9fd256c5e94c54be246bdcc24998f authored over 1 year ago by Matt Haberland <[email protected]>
DOC: fix page typo in ks_2samp reference

fe6d7c0c5f98fb4e2da548dd5d80f5ed830a5ac1 authored over 1 year ago by Xuefeng Xu <[email protected]>
Merge pull request #19289 from rgommers/fix-unuran-clang-win

BLD: stats: improve build config for `unuran_wrapper`

c6f83975417e290cf94aa4364a8e84cc813b6326 authored over 1 year ago by Tyler Reddy <[email protected]>
Merge pull request #19262 from lucascolley/fft-test-skips

MAINT: fft: clean up test-skips

59391e30e8802e1772761993d7d26eb26859d2ab authored over 1 year ago by Tyler Reddy <[email protected]>
Merge pull request #19286 from rgommers/fix-stats-boost-issue

BUG: stats: fix build failure due to incorrect Boost policies usage

0f08a6097db0ebf4ac7b1d286a5086ea9e2dc76a authored over 1 year ago by Tyler Reddy <[email protected]>
MAINT: use linalg.norm in `_minimize_newtoncg` (#19267)

c8c78d7171c074b8e5b97c57944b827fd13aa979 authored over 1 year ago by Christian Lorentzen <[email protected]>
MAINT: fix lint issues (#19296)

* MAINT: fix lint issues

These errors prevent from (eventually) merging #19295.

87c00949ea46ca77124cc93305dd8259dbf764d8 authored over 1 year ago by Dimitri Papadopoulos Orfanos <[email protected]>
Merge pull request #19290 from rgommers/fpumode-float-h

BLD: add float.h include to `_fpumode.c`, fixes Clang on Windows issue

65df3c0cc190d113842963b1bf6c37be38539717 authored over 1 year ago by Tyler Reddy <[email protected]>
Merge pull request #19298 from DimitriPapadopoulos/io.open

fe9632259c126c5702de9e5a63edfb1e6d57f76b authored over 1 year ago by Pamphile Roy <[email protected]>
MAINT: replace io.open alias with built-in open

75186670f61b3365b820ce73ad11b5719b84fe5b authored over 1 year ago by Dimitri Papadopoulos <[email protected]>
MAINT: replace IOError alias with OSError (#19294)

a589415350dce24ceef1228cfed41cf2266afe83 authored over 1 year ago by Dimitri Papadopoulos Orfanos <[email protected]>
Update scipy/optimize/_zeros_py.py

[skip ci]

967f3c81f01048606cbb8cedfbfc44b5f1edb12b authored over 1 year ago by Matt Haberland <[email protected]>
MAINT: optimize._bracket_root: refactor and comment for clarity

2f73895ddf60eb7a88fb0b5f73db8d85cf5d6a56 authored over 1 year ago by Matt Haberland <[email protected]>
BLD: add float.h include to `_fpumode.c`, fixes Clang on Windows issue

Follow-up to gh-8918; the linked CPython code in the discussion
on the issue that that PR closes...

aedbfd9444ca1fa6fdfe24bd2d2ea19a5ac4c0f9 authored over 1 year ago by Ralf Gommers <[email protected]>
BLD: stats: fix unuran build problem with Clang on Windows

This problem was observed on PR 246 to
https://github.com/conda-forge/scipy-feedstock:

```
[102...

f00eb124909ac37bcf05fac9f8fb9a5418f02b1a authored over 1 year ago by Ralf Gommers <[email protected]>
Merge pull request #19285 from rgommers/fix-depr-non-prototype-2

MAINT fix more `-Wdeprecate-non-prototype` warnings

c66a6462ddfa9e9bdb15330ffbf4181f4229072c authored over 1 year ago by Tyler Reddy <[email protected]>
BUG: stats: remove use of `BOOST_MATH_DECLARE_SPECIAL_FUNCTIONS`

This macro must not be used in the global scope, but rather in
a separate namespace (see, e.g., ...

da2c22cac0b3741587aee764548cae75aa72dc9f authored over 1 year ago by Ralf Gommers <[email protected]>
BLD: ensure build dependencies for boost codegen are tracked

2ab911be61306e44c5d5a64c31c494d97c165347 authored over 1 year ago by Ralf Gommers <[email protected]>
BLD: fix build warning for SuperLU complex double define

9f5c5d7c061506a4c1048e22ef7078b621ba3074 authored over 1 year ago by Ralf Gommers <[email protected]>
DOC: improve SuperLU docstring, avoid refguide check failures

6cc714162ed1094c9a939324b0e8a0a3d7346f37 authored over 1 year ago by Ralf Gommers <[email protected]>
BUG: integrate: expose ODEintWarning (#19224)

9d12e2c55db723ee7efa457bdb48761934fc2157 authored over 1 year ago by Jake Bowhay <[email protected]>
MAINT/TST: fft: clean up assertions (#19282)

[skip cirrus] [skip circle]

71ae3144275cfdcb685c0fe9760ff75380a66274 authored over 1 year ago by Lucas Colley <[email protected]>
ENH use inplace add in _minimize_newtoncg (#19266)

e1b17e6e92475388b3c95914a96866483c2836c3 authored over 1 year ago by Christian Lorentzen <[email protected]>
MAINT: fft: refactor basic backend with `_execute_1D` (#19261)

[skip cirrus] [skip circle]

85dfec2e081b0de903d1a32d6f596005b0a73511 authored over 1 year ago by Lucas Colley <[email protected]>
MAINT fix more `-Wdeprecate-non-prototype` warnings

These are the last ones except for a couple that come from f2py
and a bunch from SuperLU - these...

bdde09c5e232c01f29f0639d987b4ba03edfa37c authored over 1 year ago by Ralf Gommers <[email protected]>
ENH: sparse: upgrade SuperLU to 6.0.1

Note that this includes a few patches on top of 6.0.1.
The exact upstream commit from https://gi...

f4bbb25d2931a91dbad4e6528f18648d02b5d697 authored over 1 year ago by Ralf Gommers <[email protected]>
MAINT: update SuperLU patch files and reapply patches

The complex changes have been upstreamed and hence we drop the patch
file.

The patches didn't c...

85a1c28b80069fcf4727e30fabe3d2361ab95c2c authored over 1 year ago by Ralf Gommers <[email protected]>
BLD: SuperLU: silence -Wunused-result and -Wmaybe-uninitialized warnings

This replaces the fixes from gh-14442 and gh-14602, which are too
annoying to maintain as patche...

e1431ee2af116d3e3745ca90457e59ce559303a3 authored over 1 year ago by Ralf Gommers <[email protected]>
TST: sparse: fix test tolerances for splu/spilu tests

12cf125edfa17ac23d848dc3bc0b885cacbf248c authored over 1 year ago by Ralf Gommers <[email protected]>
Merge pull request #19275 from mtsokol/add-warning-filter

MAINT: Add warning filter for `numpy.core` rename

a4284db477c6b13a45c48237fd4eeb60cde24417 authored over 1 year ago by Tyler Reddy <[email protected]>
DOC: add `fft` to list of array API supporting modules (#19281)

[skip ci]

09ea687d7626c4a5c0500a6c90103ea86ea27bca authored over 1 year ago by Lucas Colley <[email protected]>
MAINT: stats.CovViaEigendecomposition: fix _colorize for singular covariance (#19199)

ece199257f857f8a2418587433cfb8b4030a19e1 authored over 1 year ago by Matt Haberland <[email protected]>
Merge pull request #19280 from andyfaff/newton

MAINT: newton, make sure x0 is an inexact type

7cc6f3f27bbf8e147994109abe014e098c9a87b9 authored over 1 year ago by Matt Haberland <[email protected]>
Merge pull request #60 from mdhaber/gh19280

TST: optimize.newton: add test of dtype conversion

647606c1f029893eedf416e1acc9ba8ca18dabd7 authored over 1 year ago by Andrew Nelson <[email protected]>
TST: optimize.newton: add test of dtype conversion

619a2f9ed4c80b73e6ab20387ae557cb9ca1bff8 authored over 1 year ago by Matt Haberland <[email protected]>
MAINT: newton, make sure x0 is an inexact type

5fb7a20d754702f892626b5a14341ba9066b4153 authored over 1 year ago by Andrew Nelson <[email protected]>
Merge pull request #19278 from kalekundert/doc-sign

DOC: use `np.copysign()` instead of `np.sign()`

57b15de7e5639fda1f2dc4bbdd052164b3dda3a2 authored over 1 year ago by Matt Haberland <[email protected]>
DOC: use `np.copysign()` instead of `np.sign()`

The basis vectors returned `scipy.linalg.null_space()` are guaranteed to
be orthonormal, but whe...

2a806927ea7bde1e0068f39b86aafa4476f0a09f authored over 1 year ago by Kale Kundert <[email protected]>
MAINT: Add warning filter for numpy.core rename

3b898981ff2d3fdc1b5d6028ed8391870893b54a authored over 1 year ago by Mateusz Sokół <[email protected]>
DOC: ndimage: add example for shift (#19271)

38410650cc0b0ffb058ec57b154a0bd688db8b8d authored over 1 year ago by Daniel Schmitz <[email protected]>
Merge pull request #19270 from rgommers/fix-depr-non-prototype

MAINT: fix -Wdeprecated-non-prototype warnings in Cephes code

d847a64d3da7842f9d8bc616626c0c2855e81656 authored over 1 year ago by Tyler Reddy <[email protected]>
Merge pull request #19265 from lucascolley/fft-param-msg

MAINT: array API: rename `arg_err_msg` and move to `_lib`

d5a1db67a041ffeb2358c0d563dbe2e123815e9d authored over 1 year ago by Tyler Reddy <[email protected]>
BUG: signal: freqz rfft grid fix (#19208)

* TST: for issues #17289 #15273

* BUG/ENH: fix #17289 #15273

* TST: use correct assert

...

a0801b8ff49911b80763de7e29d1146877bb69c9 authored over 1 year ago by drestebon <[email protected]>
MAINT: sparse/dsolve: drop patch for stdint.h with old MSVC versions

We enforce a minimum version of MSVC, and that version does have the
stdint.h header.

This reve...

88a5af89a530b20f1cabf02031abf90cc20d3b00 authored over 1 year ago by Ralf Gommers <[email protected]>
MAINT: special: restructure cephes/hyp2f1.c, remove function prototypes

Functions are only reordered, no functional or style changes.

[skip circle]

cacabacca5e5044bfe8d676dbb7b19d2c79048a9 authored over 1 year ago by Ralf Gommers <[email protected]>
MAINT: special: restructure cephes/hyperg.c, remove function prototypes

Functions are only reordered, no functional or style changes.

76c944dcefe1dc265fbc0ac1a62bc294fc6e1330 authored over 1 year ago by Ralf Gommers <[email protected]>
MAINT: special: restructure cephes/incbet.c, remove function prototypes

Functions are only reordered, no functional or style changes.

279d1ef11ac65217f27a33cfeff6133f54052602 authored over 1 year ago by Ralf Gommers <[email protected]>
MAINT: special: fix -Wdeprecated-non-prototype warnings in cephes code

This starts showing up with Clang 15. Example warning:

[95/1601] Compiling C object scipy/speci...

afc5f9da5760c5925ff49d1aa875446c1637d123 authored over 1 year ago by Ralf Gommers <[email protected]>
Merge pull request #19259 from andyfaff/gtol

DOC: outline workaround when precision losses occur in BFGS [skip cir…

efafb23c8d6d18fcc8e593858539b1da975a92bf authored over 1 year ago by Andrew Nelson <[email protected]>
DOC: minor nit [skip ci]

4338b4496f2789be5c9d0f8375d4bbbbf12fbf78 authored over 1 year ago by Andrew Nelson <[email protected]>
Update scipy/optimize/_optimize.py

Co-authored-by: Jake Bowhay <[email protected]>

033280267b0f8064be44bcdfc605e38a4351cbe3 authored over 1 year ago by Andrew Nelson <[email protected]>
Merge pull request #19264 from lucascolley/fft-namespaces

MAINT/TST: fft: remove duplicate namespace and dtype checks

ccb4f8ee67cd1a5b4dd8577fd04eb12dcb3a45e7 authored over 1 year ago by Tyler Reddy <[email protected]>
MAINT: rename `arg_err_msg` and move to `_lib`

[skip cirrus] [skip circle]

5308a19aecb73accc1d36a2852215704ba7e58a5 authored over 1 year ago by Lucas Colley <[email protected]>
MAINT/TST: fft: remove duplicate namespace and dtype checks

[skip ci]

e91ab53b55ac7291e18cf449b3643374eaed7212 authored over 1 year ago by Lucas Colley <[email protected]>
MAINT: fft: clean up test-skips

[skip cirrus] [skip circle]

53818603e036f06e38a251324ff9f70204d13b6e authored over 1 year ago by Lucas Colley <[email protected]>
DOC: BFGS gtol

eb5d7623ef547622b5267f07d254bde04d09d97e authored over 1 year ago by Andrew Nelson <[email protected]>
DOC: outline workaround when precision losses occur in BFGS [skip cirrus][skip actions]

145af11a7e8a4ff350b543e30ebe34704efef337 authored over 1 year ago by Andrew Nelson <[email protected]>
ENH: fft: support array API standard (#19005)

This PR extends the array API support of PR 18668 to also cover `scipy.fft`.

`fft` is an [arr...

b786038edd52c0a575145a628e23b1daa321b987 authored over 1 year ago by Lucas Colley <[email protected]>
Merge pull request #18348 from mdhaber/bracketer

3f9a8c80e281e746225092621935b88c1ce68040 authored over 1 year ago by Pamphile Roy <[email protected]>
Merge pull request #19253 from mtsokol/numpy-ndarray-class-cleanup

MAINT: Cleanup expired ndarray methods

dd4285d1f228a416ab3a57b77da757ce311716a4 authored over 1 year ago by Tyler Reddy <[email protected]>
MAINT: Cleanup expired ndarray methods

1bd1607fdbb5d762a7ff7bc851074cb38f829d1c authored over 1 year ago by Mateusz Sokół <[email protected]>
TST: optimize._bracket_root: add test with array factor

f5b762c7034e8c4b61601d2c1043b1071341e05e authored over 1 year ago by Matt Haberland <[email protected]>
ENH: special: dispatch to array library (#19023)

* ENH: special: dispatch to array library

[skip ci]

* TST: get hypothesis settings from an...

468f76b6a98b488e2915659116c8a6aa04117fc8 authored over 1 year ago by Matt Haberland <[email protected]>
Merge pull request #19247 from tylerjereddy/treddy_rm_numpy_ver_checks

3526d47a7b898edef16f00ff5742f7f02f202b12 authored over 1 year ago by Pamphile Roy <[email protected]>
MAINT: NumPy version check removals

* 0f41645d029a bumped our minimum required NumPy
version to `1.22.4`, which allows for a few ver...

2ac2a1b459617dc332db43147a27b3b8b6f43512 authored over 1 year ago by Tyler Reddy <[email protected]>
ENH: Add `fast_matrix_market` to scipy.io (#18631)

A parallel C++ implementation of Matrix Market file I/O for sparse
matrices. Compatible with sc...

7e96eff33bb864a6413ea1475b3b1cb486e652b5 authored over 1 year ago by Adam Lugowski <[email protected]>
DOC: Added examples for zpk2tf, tf2sos, sos2tf, lp2lp_zpk, lp2hp_zpk, lp2bp_zpk, lp2bs_zpk functions (#19218)

* DOC: Added examples for zpk2tf, tf2sos, sos2tf, lp2lp_zpk, lp2hp_zpk, lp2bp_zpk, lp2bs_zpk fun...

9df7042b68c520c0923ea1da37ec944b87716b5b authored over 1 year ago by othmane tamri <[email protected]>
DOC: stats.mstats: fix documentation of warnings raised for pearsonr (#19243)

DOC: stats.mstats: fix documentation of warnings raised for pearsonr

95cc0fd65011187c2589eaeddf0f0c86d04cc318 authored over 1 year ago by Jake Bowhay <[email protected]>
ENH: add pava and isotonic_regression (#17722)

* ENH add pava and isotonic_regression

* MNT make linter happy

* MNT make linter even happ...

3a604534ace00b6b1744b1108a6ae36df08cc81a authored over 1 year ago by Christian Lorentzen <[email protected]>
MAINT: scipy.io NEP 50 shims (#19244)

* this patch, briefly discussed in gh-19239, drops us
from 62 to 1 remaining failure with NEP 5...

5be78ff5088fa38f39f0516ed6abd25fadf9393e authored over 1 year ago by Tyler Reddy <[email protected]>
Merge pull request #19240 from j-bowhay/spatial_module_deps

26d473866c7e24b80b2253107587ade698411665 authored over 1 year ago by Pamphile Roy <[email protected]>
Merge pull request #19238 from tylerjereddy/treddy_stats_nep50

MAINT, TST: stats tests NEP 50

6de1599444ecad8714415321f98f214dce9486e3 authored over 1 year ago by Matt Haberland <[email protected]>
DEP: spatial: improve deprecation of private modules names without

underscore prefix

e0fd8153c52a987e8edf5ed11063cc2e92944920 authored over 1 year ago by Jake Bowhay <[email protected]>
MAINT, TST: stats tests NEP 50

* this drops us from 72 to 62 failures
in full test suite with NEP50 turned on via
`export NPY_P...

85ce685b9b49989846838e30f297082640648558 authored over 1 year ago by Tyler Reddy <[email protected]>
BUG: Remove removed item from `__all__` (#19236)

All those items were deprecated some time ago with:

DeprecationWarning: Please use `XXXX...

07f921748890b74d51e89cd1d409e1e9a7b502e3 authored over 1 year ago by Matthias Bussonnier <[email protected]>
DOC: Missing import in private _nan_allsame function docs. (#19237)

This is not tested, but still, copy pasting the example fails.

[skip ci]

05e39711c3b97f0a455396716e387d217a63ac42 authored over 1 year ago by Matthias Bussonnier <[email protected]>
DOC: Fix character after trailing backticks (#19233)

Having charter directly after prevent docutils/sphinx from closing the
interpreted-text/verbati...

6f324fabcc715b47d91ac83e0b20e1c3c5f15ce6 authored over 1 year ago by Matthias Bussonnier <[email protected]>
Merge pull request #19230 from tylerjereddy/treddy_docs_py311

c61477aa6a85649eb73dee3c1128cfb499100c19 authored over 1 year ago by Pamphile Roy <[email protected]>
DOC, MAINT: workaround for py311 docs

* temporary workaround to allow SciPy docs
to build on `main` with Python `3.11` until
an upstre...

db0d8032a471c07d5275e0c1b1af7d25d0c35936 authored over 1 year ago by Tyler Reddy <[email protected]>
DOC: Fix repeated typos in dev.py (#19229)

DOC: Fix repeated typos in dev.py

d675accf67cb7b8159d47bd4e19eb3b6913bfbc2 authored over 1 year ago by Warren Weckesser <[email protected]>
DOC: Trailing character after closing backquote. (#19227)

Those leads to improper parsing and rendering of the docs:
See
https://docs.scipy.org/doc/scip...

0fc0762c24f4a417b45469819d80493ff13d80cb authored over 1 year ago by Matthias Bussonnier <[email protected]>
TST: _lib: improve array API assertions (#19186)

* rename array API assertions with `xp_` prefix
* check dtypes in array API assertions
* inclu...

5ed604385ff0912dccf958a6ae48a76e3d9571b8 authored over 1 year ago by Lucas Colley <[email protected]>
Merge pull request #19222 from lucascolley/dev-docs-pep

DOC: clarify guidance on style modifications

4ec80491eee7bbb85bd8a248c9d974b1792790fd authored over 1 year ago by Matt Haberland <[email protected]>
DOC: clarify guidance on style modifications

[skip ci]

42616626c796f34c79eb13edf3cba79386b3da64 authored over 1 year ago by Lucas Colley <[email protected]>
DOC: fix sparse docs "matrix" and "array" mixup (#18898)

* DOC: made sparse array/matrix docs only have array/matrix

Before, the docs for sparse array...

d781501cc7b150a152e3f9bcfe84c10fcb57f486 authored over 1 year ago by Kat Mistberg <[email protected]>
DOC: sparse.csgraph: indicate functions with multiple valid solutions in csgraph (#18920)

Issue #17734 arose because an implementation change in Dijkstra's
algorithm led to a change in ...

b996d330471a36fc0ed592dbaee1ede02b8e4bd4 authored over 1 year ago by Alex Szatmary <[email protected]>
Merge pull request #19219 from andyfaff/strategy_func

ENH: Implemented custom mutation / crossover functions for DifferentialEvolution

90fa37c7c53d5f965181f47bf8df0bee1f7b1536 authored over 1 year ago by Andrew Nelson <[email protected]>
DOC: add custom strategy function example [skip cirrus]

f2b5664a0003dc2ce214bdc41d2b1a12060382ad authored over 1 year ago by Andrew Nelson <[email protected]>
DOC: fix doc generation

33184387dba19695bea3c54fad92fa97875e65f3 authored over 1 year ago by Andrew Nelson <[email protected]>
Merge pull request #19217 from andyfaff/numpy2

BLD: start building wheels against numpy 2.0 [wheel build]

00e47d73997ea8d8ef22937c6fd00e355a9a82e2 authored over 1 year ago by Andrew Nelson <[email protected]>