Skip to content

Latest commit

 

History

History
667 lines (432 loc) · 23.6 KB

CHANGELOG.md

File metadata and controls

667 lines (432 loc) · 23.6 KB

Changelog

All notable changes to light-curve-python will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[Unreleased]

Added

--

Changed

--

Deprecated

--

Removed

--

Fixed

--

Security

--

[0.10.0] 2025-01-07

Changed

  • Breaking macOS x86_64 binary wheel now requires macOS 13 instead of 12 #437 #446
  • Breaking Minimum supported Python version is 3.9 due to rust-numpy 0.23 requirement
  • Default ABI3 version is also bumped to 3.9
  • Bump pyO3 to 0.23, which should potentially support free-threading, but rust-numpy still doesn't #457
  • Bump rust-numpy to 0.23, should potentially bring a better numpy v2 support #457
  • Bump ndarray to 0.16 #458
  • Bump light-curve-feature to 0.8.0 #458
  • Bump light-curve-dmdt to 0.8.0 #458

Fixed

  • pyproject.toml: move tool.setuptools.dynamic to project.dynamic which fixes build with maturin v1.8.x #467

[0.9.6] 2024-10-01

Changed

  • LinexpBolometricTerm for Rainbow changed to clip negative values to zero #430

[0.9.5] 2024-09-20

Added

  • More variants of temperature and bollometric functions for RainbowFit #411

Changed

  • Change boundary conditions for RainbowFit #414

Fixed

  • Package import doesn't fail if scipy is missed #422

[0.9.4] 2024-09-11

Changed

  • Experimental Rainbow fit features use maximum likelihood cost function instead of least squares #407

[0.9.3] 2024-06-17

Fixed

  • Small bug fix in MagnitudeNNotDetBeforeFd for numpy v2.0 compatibility #383

[0.9.2] 2024-06-05

Added

  • Roms feature implemented in Rust #362 #356

Fixed

  • PyPI wheels used to have wrong platform tags, actual minimum macOS versions are those used at CI: 12.0+ for x86_64 and 14.0+ for arm64. #376 #378

[0.9.1] 2024-04-23

Added

  • PeakToPeakVar experimental feature #332

Changed

  • Bump pyO3 to 0.21
  • Bump rust-numpy to 0.21
  • "abi3" is a default Cargo feature now

Removed

  • Stop publishing PyPy wheels to PyPI. We still publish all CPython wheels we published previously #345 #347

Fixed

  • Bug which prevents initialization of Rust's *Fit features if compiled without Ceres or GSL (our PyPi Windows wheels) #343 #344

[0.9.0] 2024-03-06

Added

  • Roms (robust median statistics) experimental feature, a variability index based on the deviation of observations from the median. #315 Thanks @GaluTi for their first contribution

Changed

  • Breaking RainbowFit is significantly refactored to make it more flexible for usage of different bolometric and temperature functions. It deletes RainbowRisingFit and RainbowSymmetricFit in favor of a single RainbowFit feature. #324
  • Breaking: stop supporting Python 3.7 #282
  • We stop distributing CPython wheels for specific Python versions, now we distribute ABI3 wheels which are compatible with all future Python versions

Deprecated

--

Removed

  • Build breaking: abi311 Cargo feature is removed, now we plan to have abi3 feature only, which would correspond to the minimum supported Python version. Feel free to use pyo3/abi3.. features directly for newer ABI versions.

Fixed

--

Security

--

[0.8.2] 2024-02-27

Added

  • New flavour of RainbowFit: RainbowSymmetricFit which will replace both RainbowFit and RainbowRisingFit in the future. #314 Thanks @karpov-sv for their first contribution
  • New cargo build-time feature, mimalloc, it is default feature now. When activated, it gives up to 2.9x of performance boost for some "fast" features. #302

Changed

  • Refactoring of rainbow features, it reduces code duplication and makes it easier to add new variants like RainbowFit and RainbowRisingFit in the future #293
  • Another change for Rainbow features is changing minuit optimization parameters #314
  • Build breaking: bump light-curve-feature to v0.7.0, which requires ceres-solver v2.2 for ceres-system Cargo feature.

Fixed

  • RainbowFit and RainbowRisingFit initial guesses for baseline fluxes are now consistent with limits. We also use band information to make initial guesses and limits more accurate. Note, that this change leads to different results comparing to previous versions. #293

[0.8.1] 2023-11-30

Added

[0.8.0] 2023-09-20

Added

  • Breaking change in experimental features: Multiband support is introduced for features implemented in Python. It changes class inheritance interface in a backward-incompatible way
  • light-curve[full] extras which installs all optional Python dependencies required by experimental features
  • New LinexpFit feature for parametric model fit comes with light-curve-feature v0.6.0
  • Experimental RainbowFit feature for fitting multiband light curves with a single model, Russeil+23 in prep. It requires Python 3.8 or later because of iminuit dependency
  • Optional iminuit>=2,<3 Python dependency (included into [full]) for RainbowFit feature
  • Add once_cell v1 dependency

Changed

  • Breaking change in experimental features scipy dependency is now optional for experimental features implemented in Python
  • Breaking change in experimental features: All experimental features implemented in Python require keyword-only arguments in their constructors. Also, all names of the arguments are changed to be the same as for Rust features
  • Build breaking: "abi3-py310" Cargo feature is replaced with "abi3-py311". "abi3" feature is now linked to " abi3-py311" feature. This is because our aim with ABI is to support future versions of Python
  • Build breaking: minimum supported Rust version (MSRV) is changed from 1.62 to 1.67 (released 2023-01-26)
  • Update *Fit fatures doc-strings to list names of the features they output
  • Bump light-curve-feature 0.5.5 -> 0.6.0
  • Bump pyO3 0.18.3 -> 0.19.1, it simplified signature generations for classes #230
  • Bump rust-numpy 0.18.0 -> 0.19.0 #230
  • Bump enum-iterator 1.2.0 -> 1.4.1 #233
  • Bump thiserror 1.0.41 -> 1.0.48 #242

[0.7.3] 2023-07-06

Added

  • All Rust features got .to_json() method to serialize their state to JSON string. #226
  • New special Rust feature JSONDeserializedFeature and a helper function feature_from_json() to deserialize features from JSON string. #226
  • Build: "abi3" and "abi3-py310" Cargo features (the least one is enabled by the first one) to build a wheel for CPython 3.10+. This stable ABI wheel is less performant than the regular one, but it is compatible with all future Python versions. See PEP 384 for details. #79

Changed

  • Build breaking: the only Python build requirement maturin updated from v0.14.x to v1.0 #216 #215
  • CI: bump cibuildwheel to 2.13.1 #225
  • Bump itertools 0.10.5 -> 0.11.0 #224
  • Bump pyO3 0.18.2 -> 0.18.3 #207

Fixed

  • Building from sdist on x86-64 macOS required manual setting of $MACOSX_DEPLOYMENT_TARGET to 10.9 or higher. Recent maturin update allowed us to specify it via pyproject.toml

[0.7.2] 2023-04-12

Added

  • Feature transformations via transform constructor keyword. For most of the features it could accept string with a transformation name such as 'arcsinh' or 'clipped_lg', True or 'default' for the default transformation, None or False for no transformation #184 #188
  • Binary wheels for x86_64 Windows built with no Ceres nor GSL features #12 #185
  • enum-iterator crate dependency #188
  • CI: code coverage with codecov #197
  • Development: now project has extras for testing (test) and development (dev) #197

Changed

  • Build breaking: minimum supported Rust version (MSRV) is bump from 1.60 to 1.62
  • Bump light-curve-feature 0.5.4 -> 0.5.5
  • Bump pyO3 0.18.1 -> 0.18.2
  • Most of the parametric features have default values for their parameters now, which, due to pyO3 limitations, are not presented in the signatures, but documented in the docstrings. It also makes Python and Rust implementations more consistent #194 #195
  • Development: switch from pytest-markdown to markdown-pytest which allowed us to use up-to-date pytest #198

Deprecated

  • BazinFit and VillarFit constructors will not accept None for mcmc_niter, ceres_niter, and lmsder_niter arguments in the future, just do not specify them to use defaults instead. #195
  • Periodogram constructor will not accept None for peaks, resolution, max_freq_factor, nyquist and fast in the future, just do not specify them to use defaults instead. #195

Fixed

  • Bins feature had non-optimal lower boundary check for time series length: it checked if it is at least unity for any underlying features. Now it takes underlying feature requirements into account. It was fixed by updating light-curve-feature to v0.5.5.

[0.7.1] 2023-03-17

Fixed

  • Bug introduced in v0.6.5: *Fit.model(t, params) wrongly checked t and params arrays to have the same length

[0.7.0] 2023-03-16

Added

  • BazinFit and VillarFit have got ceres and mcmc-ceres algorithms using Ceres Solver as a non-linear least squares optimizer. ceres is found to be more robust than lmsder algorithm (available via gsl Cargo feature) but working roughly twice slower. Ceres can be built from source (ceres-source Cargo feature, enabled by default in Cargo.toml) or linked to system library (ceres-system Cargo feature, enabled for cibuildwheel in pyproject.toml)

Changed

  • API breaking: Features' __call__() signature changed to make sorted=None, check=True and fill_value=None arguments to be keyword-only
  • API breaking: Features' many() signature changed to make all arguments but the first lcs to be keyword-only
  • API breaking: Bins constructor signature changed to make offset and window arguments to be keyword-only. For Rust implementation __getnewargs__ is replaced with __getnewargs_ex__. Please note that for the specific case of Python implementation and Python version < 3.10, Bins still accepts positional arguments
  • API breaking: BazinFit and VillarFit constructor signatures changed to make everything but the first lcs argument to be keyword-only
  • API breaking: Periodogram constructor signature changed to make all arguments to be keyword-only
  • API breaking: DmDt constructor signature changed to make all arguments but dt and dm to be keyword-only, __getnewargs__ is replaced with __getnewargs_ex__. DmDt.from_borders class-method constructor has all arguments to be keyword-only
  • API breaking: DmDt methods' signatures changed to make all arguments but data (like t, t, m or lcs) to be keyword-only
  • Build breaking: building with Ceres Solver (ceres-source Cargo feature) is now a default, and potentially could break a building pipeline in some cases. If you want to build without Ceres Solver, you need to explicitly disable default features with --no-default-features maturin flag
  • CI: switch from macos-11 to macos-latest for testing
  • Bump pyo3 0.17.3 -> 0.18.1
  • Bump rust-numpy 0.17.2 -> 0.18.0

Removed

  • Build breaking: fftw-static, fftw-dynamic, mkl Cargo features are removed after deprecation in v0.6.2 and replaced with fftw-source, fftw-system and fftw-mkl.

[0.6.6] 2023-03-17

Fixed

  • Bug introduced in v0.6.5: *Fit.model(t, params) wrongly checked t and params arrays to have the same length

[0.6.5] 2023-02-22

Fixed

  • Reduce Rust-Python inter-op cost for numpy arrays significantly. It dropped from ~4 μs per array to ~ 100ns. #174

[0.6.4] 2023-01-19

Added

  • Initial copy and pickle (minimum protocol version is 2) support for feature extractors and DmDt #103 #145 #150
  • serde v1 and serde-pickle v1 Rust dependencies. serde-pickle is an arbitrary choice of a (de)serialization binary format, but it could be useful in the future having a way to inspect Rust structures from Python #145

Changed

  • Build environment: minimum support Rust version (MSRV) is bumped 1.57 -> 1.60
  • Bump light-curve-dmdt 0.6.0 -> 0.7.1

Fixed

  • BazinFit and VillarFit docs are clarified for .model() and ln_prior usage #125 #146

[0.6.3] 2022-12-23

No changes, it was accidentally released instead of 0.6.2

[0.6.2] 2022-12-27

  • OtsuSplit implementation in Rust #120 #123

Changed

  • light-curve-feature 0.5.0 -> 0.5.2 #123
  • light-curve-dmdt 0.5.0 -> 0.6.0
  • pyO3 0.16.6 -> 0.17.3
  • rust-numpy 0.16.2 -> 0.17.2
  • CI: binary wheels are now built using our custom manylinux/musllinux images, which include FFTW library optimised to use platform-specific SIMD instructions. It should give up to 50% performance gain for Periodogram at all Linux platforms but x86_64 where we use MKL #134
  • We don't provide binary wheels for Linux i686 anymore, please contact us if you need them #134
  • wheel build dependency: maturin 0.13.x -> 0.14.x #130 #135

Deprecated

  • cargo features "fftw-dynamic", "fftw-static" and "mkl" are renamed to "fftw-system", "fftw-source" and "fftw-mkl" correspondingly #137

Fixed

— fix threshold method in Python according to Rust implementation #123

[0.6.1] 2022-11-01

Added

  • CI: Python 3.11 binary wheels

Changed

  • const_format 0.2.25 -> 0.2.30
  • itertools 0.10.3 -> 0.10.5
  • pyo3 0.16.5 -> 0.16.6
  • thiserror 1.0.31 -> 1.0.37
  • wheel build dependency: maturin 0.12.x -> 0.13.x
  • CI: macos-10.15 GitHub actions runners are EOL, we switched to macos-11
  • CI: cibuildwheel 2.10.2 -> 2.11.2

Deprecated

—

Removed

—

Fixed

  • #110 Experimental warning message specifies a class name #111
  • Support of setuptools v61+

Security

—

[0.6.0] 2022-07-04

Changed

  • Breaking: drop Python 3.6 support
  • Breaking: minimum supported Rust version (MSRV) 1.56 -> 1.57
  • light-curve-feature 0.4.6 -> 0.5.0, causes MSRV change
  • rust-numpy 0.15.1 -> 0.16.2
  • py03 0.15.1 -> 0.16.3

[0.5.9] 2022-06-15

Added

  • macro_const 0.1.0 dependency

Fixed

  • docstring for many method is added to each Rust feature class

[0.5.8] 2022-06-14

Changed

  • light-curve-feature 0.4.5 -> 0.4.6

Fixed

  • Minimum supported Rust version 1.56 wasn't actually supported, light-curve-feature upgrade fixed it

[0.5.7] 2022-06-10

Added

  • CI: build Windows w/o GSL

Changed

  • light-curve-feature 0.4.4 -> 0.4.5

Fixed

  • light-curve-feature update fixes NaN value of lnprob problem with MCMC fit in {Bazin,Villar}Fit

[0.5.6] 2022-06-06

Changed

  • Infrastructure: cibuildweel for package publishing
  • light-curve-feature 0.4.1 -> 0.4.4
  • thiserror 1.0.24 -> 1.0.31
  • enumflags2 0.7.4 -> 0.7.5
  • rayon 1.5.1 -> 1.5.3
  • pyo3 0.15.1 -> 0.15.2
  • const_format 0.2.22 -> 0.2.24

Fixed

  • light-curve-feature update fixes {Bazin,Villar}Fit overflow panic
  • Benchmark and test for MagnitudePercentageRatio

[0.5.5] 2022-04-05

Added

  • Pure-Python implemented features FluxNNotDetBeforeFd and MagnitudeNNotDetBeforeFd
  • Pure-Python implemented OtsuSplit.threshold method

Changed

  • rust-numpy 0.15.0 -> 0.15.1
  • rand 0.8.4 -> 0.8.5
  • enumflag2 0.7.3 -> 0.7.4

[0.5.4] 2021-12-20

Added

  • ln_prior submodule with LnPrior1D class and stand-alone functions to construct its instances
  • ln_prior argument for BazinFit and VillarFit constructors which can be one of: None, str literals (currently the only useful value is 'hosseinzadeh2020' for VillarFit) or list[LnPrior1D]
  • Cargo.lock is used to build the release packages and it is added to sdist, all these should make builds more reproducible

Changed

[0.5.3] 2021-12-16

Added

  • Python 3.10 support and binary wheels for supported platforms

Changed

  • Update pyo3 to 0.15.1 and rust-numpy to 0.15.0

[0.5.2] 2021-12-16

Fixed

[0.5.1] 2021-12-15

Added

  • init and bounds arguments of BazinFit and VillarFit constructors

[0.5.0] 2021-12-14

Added

  • check: bool = True keyword argument for __call__ and many methods of feature classes. It coulb be used to check if input arrays are valid

Changed

  • gsl is a default Cargo feature now, which means that GSL must be installed to build this package by standard Python tools like pip install
  • light-curve-feature 0.3 -> 0.4.1 transition brings MCMC improvements, changing feature names of BazinFit and significant changes of VillarFit feature set

Removed

  • antifeatures submodule of the Rust implementation

[0.4.1] 2021-12-15

Fixed

[0.4.0] 2021-11-26

Added

  • Pure-Python implemented OtsuSplit feature extractor (experimental)
  • Python snippets in README.md are tested, this requires pytest-markdown
  • A lot of new unit-tests for the pure-Python implementation
  • New benchmarks to compare pure-Python and Rust implementations performance
  • Publish Linux packages for aarch64 and ppc64le

Changed

  • The Python package is renamed to light-curve, light-curve-python still exists as an alias
  • Pure Python implementation of the most of the features are added, now Rust-implemented features live in light_curve_ext sub-package, while the Python implementation is in light_curve_py. Python-implemented feature extractors have an experimental status
  • Now dataclasses (for Python 3.6 only) and scipy are required, they are used by the pure-Python implementation
  • maturin version 0.12

Fixed

  • The Rust implemented classes .__module__ was buitins, now it is light_curve.light_curve_ext

[0.3.5] 2021-10-27

Changed

  • Rust edition 2021
  • Minimum supported Rust version is 1.56
  • Maturin version 0.11

[0.3.4] 2021-10-18

Fixed

  • An exception shouldn't be raised for the case of small time-series length and non-None fill_value

[0.3.3] 2021-10-14

Added

  • Support dtype=np.float32 for feature extractors
  • _FeatureEvaluator.many(lcs) method for parallel execution

[0.3.2] 2021-08-30

Changed

  • Update light-curve-feature to 0.3.3
  • __call__ docs for features

Fixed

  • light-curve-feature 0.3.3 fixes wrong VillarFit equation

[0.3.1] 2021-08-16

Added

  • mcmc_niter and lmsder_niter parameters of *Fit features

Changed

  • Amd64 PyPI packages are manylinux2014
  • PyPI releases compiled with gsl feature enabled

Deprecated

  • gsl will become a default feature in future releases

Fixed

  • *Fit algorithm parameter was marked as optional in the docstrings

[0.3.0] 2021-08-10

Added

  • This CHANGELOG.md file
  • BazinFit is enabled
  • VillarFit feature

Changed

  • Remove DmDt.point_from_columnar and DmDt.gausses_from_columnar
  • Update ndarray to 0.15.3 and light-curve-dmdt to 0.4.0
  • Update rust-numpy and pyo3 to 0.14
  • Update light-curve-feature to 0.3.1
  • Rename nonlinear-fit Cargo feature to gsl
  • Docstrings improvements

[0.2.x] pre 2021-05-31

—

[0.1.x] pre 2020-09-09

—