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SmirnGreg wants to merge 343 commits into

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JohannesBuchner:master

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Commits on Sep 6, 2022

Commits on Sep 8, 2022

Commits on Sep 9, 2022

[docs] config format specs changed (fixed error: dict-traits is deprecated in traitlets 5.0)
JohannesBuchner
committed
bef34cf
[docs] replace KeyboardInterrupt with Timeout, to avoid nbsphinx stopping
JohannesBuchner
committed
0e0f9a0
Merge branch 'master' of github.com:JohannesBuchner/UltraNest
JohannesBuchner
committed
a69a76e
[docs] mpiexec output does not show in notebook for some reason
JohannesBuchner
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a9883ba
[doc] docstring syntax
JohannesBuchner
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3131a2f

Commits on Sep 11, 2022

document missing parameters (thanks to pystrict3)
JohannesBuchner
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6808142

Commits on Sep 12, 2022

Bump version: 3.5.3 → 3.5.4
JohannesBuchner
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08ab73c

Commits on Sep 13, 2022

[doc] correct notebook to avoid likelihood plateau
JohannesBuchner
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a4ace9e
add sanity check to hotstart
JohannesBuchner
committed
399fb8e
Bump version: 3.5.4 → 3.5.5
JohannesBuchner
committed
00a8482

Commits on Sep 18, 2022

fix sanity check
JohannesBuchner
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d864952
rst formatting; demote harmless warning
JohannesBuchner
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f12f974

Commits on Sep 19, 2022

Commits on Sep 20, 2022

set seed to make docs reproducible
JohannesBuchner
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2ebc622
add missing json libraries
JohannesBuchner
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fe270ee

Commits on Oct 25, 2022

add encoding="utf-8" parameter
QZGao
authored
66cf7ba
Merge pull request #75 from QZGao/patch-1
JohannesBuchner
authored
d3fe862

Commits on Nov 14, 2022

skip live point test if using step sampler
JohannesBuchner
committed
dd54fe5
Merge branch 'master' of github.com:JohannesBuchner/UltraNest
JohannesBuchner
committed
295d9ec
Bump version: 3.5.5 → 3.5.6
JohannesBuchner
committed
8af6881

Commits on Nov 25, 2022

fix issue 77: wider initial sampling to overcome initial plateaus
JohannesBuchner
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27bb175
Bump version: 3.5.6 → 3.5.7
JohannesBuchner
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42d68fa
fix detection of initial plateau
JohannesBuchner
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ec15d59

Commits on Dec 6, 2022

[docs] add reference for warm-starting; formatting typo
JohannesBuchner
committed
adab4e9

Commits on May 11, 2023

Commits on Jun 1, 2023

Commits on Jun 20, 2023

Commits on Jun 21, 2023

make PopulationRandomWalkSampler interface more transparent and configurable
JohannesBuchner
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f593814

Commits on Jun 22, 2023

Bump version: 3.5.7 → 3.6.0
JohannesBuchner
committed
a69893e
add changelog notes
JohannesBuchner
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9f34057
avoid scipy.optimize.minimize_scalar error
JohannesBuchner
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10af0b5
update docstrings
JohannesBuchner
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314a267
avoid unused warning with __all__
JohannesBuchner
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cb15fad
signing is not supported by pypi anymore
JohannesBuchner
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529e690
Bump version: 3.6.0 → 3.6.1
JohannesBuchner
committed
55ad630
improve docs
JohannesBuchner
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18a4cb4
more user-friendly API list
JohannesBuchner
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c1f20f2
add pointer to popstepsamplers
JohannesBuchner
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09fcc3d
rename API page title
JohannesBuchner
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2f78e09
add module list to API page
JohannesBuchner
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64cdafc

Commits on Jun 23, 2023

friendlier API docs
JohannesBuchner
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aada49d
add module overview script
JohannesBuchner
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36395be
syntax fix, make calls sh, not bash
JohannesBuchner
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540290d
fix link to API doc
JohannesBuchner
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82f987f

Commits on Jul 18, 2023

use explicit sqrt
ahnitz
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8574c76
Merge pull request #104 from ahnitz/c3v2
JohannesBuchner
authored
c1bbe7c

Commits on Jul 19, 2023

loosen stochastic test requirement
JohannesBuchner
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557539d
Bump version: 3.6.1 → 3.6.2
JohannesBuchner
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d344775

Commits on Sep 30, 2023

better doc for step sampler functions.
JohannesBuchner
committed
e9851a3

Commits on Oct 1, 2023

stepsampler: customizable random live point selection strategies
JohannesBuchner
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fa5b3d1

Commits on Oct 11, 2023

Commits on Oct 16, 2023

Add the possibility to provide an ax for plots
facero
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d87653c
Update plot.py
facero
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3afda73

Commits on Oct 17, 2023

Updated code and example following requested changes
facero
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87f2464
Update plot.py
facero
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d3e37e3
Merge pull request #108 from facero/master
JohannesBuchner
authored
b5e3a65
Update integrator.py
adipol-ph
authored
0f4c54f
fix some typos and move new axis feature doc line
JohannesBuchner
committed
4885906
Merge pull request #1 from adipol-ph/adipol-ph-patch-1
adipol-ph
authored
55bc56d
fix for https://github.com/JohannesBuchner/UltraNest/issues/1#issuecomment-1765536315
JohannesBuchner
committed
4817c4e
Bump version: 3.6.2 → 3.6.3
JohannesBuchner
committed
66246e5
add requirements for doc building
JohannesBuchner
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273c8ba
more libraries for the tests towards a release
JohannesBuchner
committed
f3b6e82
Merge pull request #110 from gregorydavidmartinez/master
JohannesBuchner
authored
623a69c
Merge branch 'master' of github.com:JohannesBuchner/UltraNest
JohannesBuchner
committed
91a8c17

Commits on Oct 18, 2023

Merge pull request #109 from adipol-ph/master
JohannesBuchner
authored
6713546

Commits on Oct 19, 2023

remove extraneous doc and test outputs from sdist
JohannesBuchner
committed
9f3cacc
Bump version: 3.6.3 → 3.6.4
JohannesBuchner
committed
1d6edf7
Merge branch 'master' of github.com:JohannesBuchner/UltraNest
JohannesBuchner
committed
1993bcb

Commits on Nov 30, 2023

add 2 missing direction proposals to population step sampler
JohannesBuchner
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f3795df
whitespace stripping
JohannesBuchner
committed
8c5e5b7
bug fix: pass on user-provided scale
JohannesBuchner
committed
35a7565

Commits on Dec 29, 2023

add MaxPrincipleGapAffineLayer and test
JohannesBuchner
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3bf6ee3
use MaxPrincipleGapAffineLayer by default now
JohannesBuchner
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a9dcfae

Commits on Jan 29, 2024

Implementation of the vectorised slice sampler with fixed number of likelihood calls
Benjamin Beauchesne
committed
2a4743f

Commits on Feb 8, 2024

Add docs and remove useless output of the update functions for the Slice sampler
Benjamin Beauchesne
committed
a3c4ea9
Add slice size argument for the scale adaptation
Benjamin Beauchesne
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dcf9093
Add the test code update
Benjamin Beauchesne
committed
32eaeba
Update the regions documentation of the slice sampler
Benjamin Beauchesne
committed
248b5d7

Commits on Feb 9, 2024

Change name of the sampler + setup the default as a static slice width
Benjamin Beauchesne
committed
8b19d92
some small modificaton
Benjamin Beauchesne
committed
1c7f79d

Commits on Feb 13, 2024

Correct the default setup to use the bound of the unit cube instead of a fixed scale
Benjamin Beauchesne
committed
dd0d867

Commits on Feb 14, 2024

add test for speed variable generator
JohannesBuchner
committed
51e94cb

Commits on Feb 15, 2024

higher tolerance on flaky test
JohannesBuchner
committed
83a1b57
Bump version: 3.6.4 → 3.6.5
JohannesBuchner
committed
a4ee31f
Merge branch 'feature-maxprinciplegapaffinelayer'
JohannesBuchner
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50d1753
Bump version: 3.6.5 → 4.0.0
JohannesBuchner
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27479f5
add to changelog
JohannesBuchner
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a07783d
add notes for 4.0.0
JohannesBuchner
committed
df379fe
add first version of auto-calibration of nsteps
JohannesBuchner
committed
0cda068
make Calibrator work and provide more useful plots and prints
JohannesBuchner
committed
3f9c0b2
turn on step sampler diagnostics by default
JohannesBuchner
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3c242d2
test that diagnostics work
JohannesBuchner
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9e683aa
distance was erroneuously in squares, now without squares
JohannesBuchner
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7bc5f40
add logging of jump distance to population sampler
JohannesBuchner
committed
a32fc9a
Bump version: 4.0.0 → 4.1.0
JohannesBuchner
committed
b4a4a12
update changelog
JohannesBuchner
committed
889becb
fix rst issue on pypi, by removing reference to classes
JohannesBuchner
committed
5560443
rst formatting
JohannesBuchner
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118c941
add more tests and fix newly identified bugs
JohannesBuchner
committed
141d15b
test plotting and adapting the proposal; change behaviour of CubeSliceSampler
JohannesBuchner
committed
1e8e907
test reverse case in crop_bracket_at_unit_cube, hopefully covering the second if
JohannesBuchner
committed
5cf75ef
test verify_gradient function
JohannesBuchner
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3269c74
add more tests for population stepsamplers
JohannesBuchner
committed
3c6445c
add test for generate_cube_oriented_direction_scaled
JohannesBuchner
committed
22c7f2d
fix https://github.com/JohannesBuchner/UltraNest/issues/116
JohannesBuchner
committed
6af3a80
improve front-facing docs
JohannesBuchner
committed
131f3df
improve docs for calibrator
JohannesBuchner
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9ef0ec1
cross-links in docs to ReactiveNestedCalibrator
JohannesBuchner
committed
7859976
typo in sphinx conf
JohannesBuchner
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8cd160d
add test for _update_region_bootstrap
JohannesBuchner
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89a15ee
update modoverview instead of API.docs
JohannesBuchner
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134280c
update modoverview.py (API.rst is generated)
JohannesBuchner
committed
7d2b1e5
fix broken file
JohannesBuchner
committed
03d7e6a
remove always-false if
JohannesBuchner
committed
8cba314
better test coverage by enabling log=True for step sampler, and (doc)test for PredictionBand
JohannesBuchner
committed
6ff29d1
Bump version: 4.1.0 → 4.1.1
JohannesBuchner
committed
7c46420
cleaner test expectations for Exceptions
JohannesBuchner
committed
af77614
avoid LinAlgError in AffineLayer.optimize
JohannesBuchner
committed
bf78633

Commits on Feb 16, 2024

Commits on Feb 17, 2024

Bump version: 4.1.3 → 4.1.4
JohannesBuchner
committed
2310695
Bump version: 4.1.4 → 4.1.5
JohannesBuchner
committed
152f31d

Commits on Feb 18, 2024

correct dates
JohannesBuchner
committed
1b19db1

Commits on Feb 23, 2024

Change some notation and how the code was split between different functions in PopulationSimpleSliceSampler.
Benjamin Beauchesne
committed
2111ea4
Clarify the count of the likelihood call that are not used
Benjamin Beauchesne
committed
eb75841
Remove a file use for testing
Benjamin Beauchesne
committed
51268a2

Commits on Feb 26, 2024

correct typo
Benjamin Beauchesne
committed
1555cb5
Finish to correct the previous typo
Benjamin Beauchesne
committed
f432b3d

Commits on Feb 28, 2024

Correct a typo in the update of the slice bounds, the code was only shrinking on one axes and not correctly. Added a shrinking factor to increase the shrinking speed
Benjamin Beauchesne
committed
cfa3cdd

Commits on Feb 29, 2024

Remove the assertion that the live point number should be larger than the population of the sampler. It breaks in case of likelihood plateau
Benjamin Beauchesne
committed
6a0286a

Commits on Mar 3, 2024

avoid empty warnings; strip whitespace
JohannesBuchner
committed
503bc3e
Bump version: 4.1.5 → 4.1.6
JohannesBuchner
committed
bb067d2

Commits on Mar 5, 2024

closes https://github.com/JohannesBuchner/UltraNest/issues/123
JohannesBuchner
committed
00338bb
Bump version: 4.1.6 → 4.1.7
JohannesBuchner
committed
b568f24

Commits on Mar 19, 2024

implement HDI
JohannesBuchner
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0199c87
simplify code
JohannesBuchner
committed
db45aee

Commits on Mar 20, 2024

Commits on Mar 21, 2024

switch default to new local covariance, LocalAffineLayer
JohannesBuchner
committed
cd5b02e
update Changelog
JohannesBuchner
committed
2805fa6

Commits on Mar 22, 2024

Commits on Apr 17, 2024

Test implementation of a reversibility test for the vectorized slice sampler
Benjamin Beauchesne
committed
b0ca4d7
Merge with the last version from github and tentative implementation of the Calibrator. Looks like there miss some functions for all of the population slice sampler
Benjamin Beauchesne
committed
e049f15

Commits on Apr 18, 2024

Add a sanity check for the vectorised slice sampler, just checking that everything went well
Benjamin Beauchesne
committed
b5f4e53

Commits on Apr 22, 2024

Few changes, mainly docstring and comment in the code
Benjamin Beauchesne
committed
d106d72
Merge pull request #118 from njzifjoiez/fixed-size-vectorised-slice-sampler
JohannesBuchner
authored
c8e7adf
Bump version: 4.2.0 → 4.3.0
JohannesBuchner
committed
8137ff7

Commits on May 21, 2024

Commits on May 26, 2024

use np.int_ instead of np.int_t; improve docs
JohannesBuchner
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ca3a099
try to fix cython int type error; add github CI for quick checks
JohannesBuchner
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4e9f375
skip testing pathsampler in CI
JohannesBuchner
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18db9fe
avoid installing lots of deps
JohannesBuchner
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86f26b1
[ci] pycodestyle settings
JohannesBuchner
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066def8
[ci] pytest args
JohannesBuchner
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1b6a887
skip slow tests
JohannesBuchner
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6da81d8
remove unnecessay setup.cfg sections
JohannesBuchner
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074accb
Bump version: 4.3.0 → 4.3.1
JohannesBuchner
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4ea4a0e
keep number of printed lines consistent
JohannesBuchner
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7b01abe

Commits on May 27, 2024

fix some string syntax issues in docs, and apply isort
JohannesBuchner
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dacc8dc

Commits on May 28, 2024

make flake8 happy
JohannesBuchner
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c2054ef

Commits on May 29, 2024

docs: draft of results dict explanation
jacopok
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188895a
Update draft of results dictionary documentation
jacopok
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81d87f1
docs: update information on logged files
jacopok
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d84ddfe
add details on the computation of logzerr and ess
jacopok
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65d5ca0
docs: small formatting fixes
jacopok
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629900a
docs: small tweaks to results explanation
jacopok
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c7e66aa
fix whitespace
jacopok
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c0006be
split long lines
jacopok
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6a61fe1
Comply with pydocstyle
jacopok
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af444ea
Merge pull request #138 from jacopok/document-results
JohannesBuchner
authored
99a2440
rst formatting of lists
JohannesBuchner
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653d134
prettify the bottom of the README, add contributors
JohannesBuchner
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10e1320
rst formatting
JohannesBuchner
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f0fb12a
rst formatting 2
JohannesBuchner
committed
c217841
added one more contributor
JohannesBuchner
committed
6c49a7e
doc typo
JohannesBuchner
committed
766392c

Commits on Jun 20, 2024

first step to support numpy 2.0
JohannesBuchner
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ed0dd46
force numpy<2 for now, still errors:
JohannesBuchner
committed
bceff1a
Bump version: 4.3.1 → 4.3.2
JohannesBuchner
committed
a77b985

Commits on Jun 28, 2024

Only import scipy when used
MJKirk
committed
aae8967

Commits on Jul 2, 2024

Merge pull request #141 from MJKirk/conditional-scipy-import
JohannesBuchner
authored
be59148

Commits on Oct 23, 2024

doc: make pydoclint happy
JohannesBuchner
committed
5387e8d
Merge branch 'master' of github.com:JohannesBuchner/UltraNest
JohannesBuchner
committed
4accb02

Commits on Oct 25, 2024

migrate to numpy>=2, using explicit int32 dtype
JohannesBuchner
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49401c3
switch to 64 bit integers
JohannesBuchner
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1d1df26
doc: make pydocstyle happy
JohannesBuchner
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215c1cc
remove prints
JohannesBuchner
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ebce8ec
compile also vol_prefactor
JohannesBuchner
committed
7b8141b

Commits on Oct 26, 2024

doc: make pydocstyle happy
JohannesBuchner
committed
0692ec6
Bump version: 4.3.2 → 4.3.3
JohannesBuchner
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4748f00
remove numpy<2 requirement
JohannesBuchner
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760da82
Bump version: 4.3.3 → 4.3.4
JohannesBuchner
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53d6110
[ci] reinstall numpy to solve "E ValueError: numpy.dtype size changed, may indicate binary incompatibility. Expected 96 from C header, got 88 from PyObject"
JohannesBuchner
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7681e7d
reverting to force numpy<2
JohannesBuchner
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fbde672

Commits on Oct 27, 2024

remove requiring old numpy
JohannesBuchner
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5fd2305

Commits on Dec 12, 2024

[ci] upgrade base image & don't requiring old numpy version in setup.py
JohannesBuchner
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7ac7290
[ci] do not install python packages via apt
JohannesBuchner
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d27d4ae
[ci] sudo install pip
JohannesBuchner
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6fe41b0
[ci] try installing to user directory instead
JohannesBuchner
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755f52b
[ci] remove editable install
JohannesBuchner
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83dd88f
make flaky test deterministic; fix error if nsteps is passed
JohannesBuchner
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881d3f5
[ci] remove python 3.7 which does not work anymore
JohannesBuchner
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99ebb65

Commits on Dec 13, 2024

Merge branch 'feature-numpy2'
JohannesBuchner
committed
9d59a51
Bump version: 4.3.4 → 4.4.0
JohannesBuchner
committed
1a9fd91
add changelog until 4.3
JohannesBuchner
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50f9a58

Commits on Jan 22, 2025

bug fix: LocalAffineLayer reverted back to AffineLayer after the first iteration.
JohannesBuchner
committed
90d7ac8

Commits on Jan 23, 2025

doc typos
JohannesBuchner
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2ecc1c1
doc fixes
JohannesBuchner
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b127a51

Commits on Dec 11, 2025

fix calibrator.py for issue#145
Lowerce
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dbf7446
add test for calibrator.py
Lowerce
committed
f5ba3d7
Address requested changes for PR #174
Lowerce
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ebeb2f1
Follow the style requirements of flake8
Lowerce
committed
547a1cf
Restore the plot function
Lowerce
committed
c7f011d
Merge pull request #174 from Lowerce/cali-fix
JohannesBuchner
authored
7b934ed

Commits on Jan 20, 2026

address numpy 2.4 removals
JohannesBuchner
committed
f5ec27a
doc formatting
JohannesBuchner
committed
0a35103
Bump version: 4.4.0 → 4.5.0
JohannesBuchner
committed
4ccfcfb
[ci] give dirichlet fit more runtime
JohannesBuchner
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46120ed

Commits on Jan 22, 2026

change quantile computation, print gave an error
JohannesBuchner
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c8a441c

Commits on Feb 27, 2026

Corrected comment that had slipped in from a different example
tom-wood
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29d1f83

Commits on Feb 28, 2026

Merge pull request #179 from tom-wood/intrinsic-dist-tutorial-doc
JohannesBuchner
authored
c24ba60