bump version and changelog

CHANGELOG.md

@@ -1,3 +1,17 @@
+## [1.1.0](https://github.com/eonu/sequentia/releases/tag/v1.1.0)
+
+#### Major changes
+
+- Set `max_nbytes=None` to fix read-only buffer source array error in `joblib.Parallel` (see https://github.com/scikit-learn/scikit-learn/issues/7981). ([#235](https://github.com/eonu/sequentia/pull/235))
+- Added `sequentia.preprocessing` module with [`sklearn.preprocessing`](https://scikit-learn.org/stable/modules/classes.html#module-sklearn.preprocessing) compatibility. ([#234](https://github.com/eonu/sequentia/pull/234))
+- Added `sequentia.pipeline` module for [`sklearn.pipeline`](https://scikit-learn.org/stable/modules/classes.html#module-sklearn.pipeline) compatibility. ([#234](https://github.com/eonu/sequentia/pull/234))
+
+#### Minor changes
+
+- Upgrade `sklearn` version specifier from `>=0.22` to `>=1.0`. ([#234](https://github.com/eonu/sequentia/pull/234))
+- Upgrade development status classifier to stable. ([#233](https://github.com/eonu/sequentia/pull/233))
+
+
 ## [1.0.0](https://github.com/eonu/sequentia/releases/tag/v1.0.0)
 
 #### Major changes
@@ -14,12 +28,14 @@
 - Remove `SequentialDataset.__eq__`. ([#231](https://github.com/eonu/sequentia/issues/231))
 - Change `HMMClassifier` `prior` default to `None`. ([#231](https://github.com/eonu/sequentia/issues/231))
 
+
 ## [1.0.0a2](https://github.com/eonu/sequentia/releases/tag/v1.0.0a2)
 
 #### Minor changes
 
 - Fix broken link on README.md. ([#229](https://github.com/eonu/sequentia/issues/229))
 
+
 ## [1.0.0a1](https://github.com/eonu/sequentia/releases/tag/v1.0.0a1)
 
 #### Major changes
@@ -35,12 +51,14 @@
 - Documentation rework + switch Sphinx documentation theme. ([#226](https://github.com/eonu/sequentia/issues/226))
 - Fix Sakoe-Chiba width calculation. ([#226](https://github.com/eonu/sequentia/issues/226))
 
+
 ## [0.13.1](https://github.com/eonu/sequentia/releases/tag/v0.13.1)
 
 #### Major changes
 
 - Add `digits.npz` as package data in `setup.py`. ([#221](https://github.com/eonu/sequentia/issues/221))
 
+
 ## [0.13.0](https://github.com/eonu/sequentia/releases/tag/v0.13.0)
 
 #### Major changes
@@ -66,6 +84,7 @@
 - Update `README.md` and documentation. ([#202](https://github.com/eonu/sequentia/issues/202))
 - Add `Jinja2` dependency for RTD. ([#188](https://github.com/eonu/sequentia/issues/188))
 
+
 ## [0.12.1](https://github.com/eonu/sequentia/releases/tag/v0.12.1)
 
 > - `KNNClassifier` has a major bug in all versions prior to and including v0.12.1 resulting in inaccurate predictions (see [#186](https://github.com/eonu/sequentia/issues/186)).
@@ -77,9 +96,11 @@
 
 - Remove `requirements.py` due to import error. ([#182](https://github.com/eonu/sequentia/pull/182))
 
+
 ## [0.12.0](https://github.com/eonu/sequentia/releases/tag/v0.12.0)
 
 #### Major changes
+
 - Rework preprocessing module (see [#177](https://github.com/eonu/sequentia/pull/177)). ([#179](https://github.com/eonu/sequentia/pull/179))
   - Add `Custom` transformation.
   - Rename `Preprocess` to `Compose`.
@@ -98,6 +119,7 @@
 - Add `sequentia[torch]` extra for optional `torch` CPU installation. ([#169](https://github.com/eonu/sequentia/pull/169))
 
 #### Minor changes
+
 - Keep batch lengths on CPU ([pytorch/pytorch#43227](https://github.com/pytorch/pytorch/issues/43227)). ([#178](https://github.com/eonu/sequentia/pull/178))
 - Remove `docs/requirements.txt` and specify `docs` extra in `.readthedocs.yml`. ([#176](https://github.com/eonu/sequentia/pull/176))
 - Move Sphinx extensions from `docs/conf.py` to `requirements.py`. ([#176](https://github.com/eonu/sequentia/pull/176))
@@ -109,68 +131,85 @@
 - Fix patch description in `CONTRIBUTING.md`. ([#170](https://github.com/eonu/sequentia/pull/170))
 - Fix wording in `README.md`. ([#167](https://github.com/eonu/sequentia/pull/167), [#168](https://github.com/eonu/sequentia/pull/168))
 
+
 ## [0.11.1](https://github.com/eonu/sequentia/releases/tag/v0.11.1)
 
 #### Major changes
+
 - Fix validation for univariate sequences. ([#164](https://github.com/eonu/sequentia/pull/164))
 
 #### Minor changes
+
 - Clean up `README.md` and add examples. ([#165](https://github.com/eonu/sequentia/pull/165))
 - Clean up validation logical expressions. ([#164](https://github.com/eonu/sequentia/pull/164))
 
+
 ## [0.11.0](https://github.com/eonu/sequentia/releases/tag/v0.11.0)
 
 #### Major changes
+
 - Add trailing underscore to variables containing trainable parameters (see #154). ([#158](https://github.com/eonu/sequentia/pull/158))
 - Add properties for GMM emission distribution parameters (see #153). ([#156](https://github.com/eonu/sequentia/pull/156))
 - Add selective `GMMHMM` parameter freezing/unfreezing (see #150). ([#155](https://github.com/eonu/sequentia/pull/155))
 - Fix random transition matrix initialization for `_LeftRightTopology` (see #149). ([#151](https://github.com/eonu/sequentia/pull/151))
 
 #### Minor changes
+
 - Add access to Baum-Welch algorithm convergence monitor (see #139). ([#162](https://github.com/eonu/sequentia/pull/162))
 - Prefix `_Validator` functions with `is_` (see #159). ([#161](https://github.com/eonu/sequentia/pull/161))
 - Add validation for checking fitted parameters (see #157). ([#160](https://github.com/eonu/sequentia/pull/160))
 - Clean up `__repr__` for `GMMHMM`, `HMMClassifier` and `KNNClassifier`. ([#160](https://github.com/eonu/sequentia/pull/160))
 - Add classifier documentation links to `README.md`. ([#152](https://github.com/eonu/sequentia/pull/152))
 - Simplify random transition matrix initialization for `_LinearTopology` and `_LeftRightTopology`. ([#151](https://github.com/eonu/sequentia/pull/151))
 
+
 ## [0.10.3](https://github.com/eonu/sequentia/releases/tag/v0.10.3)
 
 #### Major changes
+
 - Fix `setup.py` encoding problem. ([#145](https://github.com/eonu/sequentia/pull/145))
 - Add `docs/robots.txt` and `sphinx-version-warning` package to prevent search engines from indexing old package versions (see #143). ([#147](https://github.com/eonu/sequentia/pull/147))
 
 #### Minor changes
+
 - Add @Prhmma as a contributor for #145. ([#146](https://github.com/eonu/sequentia/pull/146))
 
+
 ## [0.10.2](https://github.com/eonu/sequentia/releases/tag/v0.10.2)
 
 #### Major changes
+
 - Add support for dependent feature warping (addresses [#124](https://github.com/eonu/sequentia/pull/124)). ([#135](https://github.com/eonu/sequentia/pull/135))
 - Add multi-processed predictions for `HMMClassifier` (addresses [#121](https://github.com/eonu/sequentia/pull/121)). ([#136](https://github.com/eonu/sequentia/pull/136))
 - Re-order `predict()` and `evaluate()` arguments. ([#138](https://github.com/eonu/sequentia/pull/138))
 
 #### Minor changes
+
 - Add `original_labels` documentation to `KNNClassifier`. ([#133](https://github.com/eonu/sequentia/pull/133))
 - Simplify `GMMHMM` documentation. ([#134](https://github.com/eonu/sequentia/pull/134))
 - Fix posterior comment in `classifier.svg`. ([#137](https://github.com/eonu/sequentia/pull/137))
 
+
 ## [0.10.1](https://github.com/eonu/sequentia/releases/tag/v0.10.1)
 
 #### Minor changes
+
 - Remove references to `sigment`. ([#130](https://github.com/eonu/sequentia/pull/130))
 - Fix type specifiers in documentation (see [#129](https://github.com/eonu/sequentia/issues/129)). ([#131](https://github.com/eonu/sequentia/pull/131))
 
+
 ## [0.10.0](https://github.com/eonu/sequentia/releases/tag/v0.10.0)
 
 #### Major changes
+
 - Switch out [`pomegranate`](https://github.com/jmschrei/pomegranate) HMM backend to [`hmmlearn`](https://github.com/hmmlearn/hmmlearn). ([#105](https://github.com/eonu/sequentia/pull/105))
 - Remove separate HMM and GMM-HMM implementations – only keep a single GMM-HMM implementation (in the `GMMHMM` class) and treat multivariate Gaussian emission HMM as a special case of GMM-HMM. ([#105](https://github.com/eonu/sequentia/pull/105))
 - Support string and numeric labels by using label encodings (from [`sklearn.preprocessing.LabelEncoder`](https://scikit-learn.org/stable/modules/generated/sklearn.preprocessing.LabelEncoder.html)). ([#105](https://github.com/eonu/sequentia/pull/105))
 - Add support for Python v3.6, v3.7, v3.8, v3.9 and remove support for v3.5. ([#105](https://github.com/eonu/sequentia/pull/105))
 - Switch from approximate DTW algorithm ([`fastdtw`](https://github.com/slaypni/fastdtw)) to exact implementation ([`dtaidistance`](https://github.com/wannesm/dtaidistance)) for `KNNClassifier`. ([#106](https://github.com/eonu/sequentia/pull/106))
 
 #### Minor changes
+
 - Switch to use duck-typing for iterables instead of requiring lists. ([#105](https://github.com/eonu/sequentia/pull/105))
 - Rename 'strict left-right' HMM topology to 'linear'. ([#105](https://github.com/eonu/sequentia/pull/105))
 - Switch `m2r` to `m2r2`, as `m2r` is no longer maintained. ([#105](https://github.com/eonu/sequentia/pull/105))
@@ -183,21 +222,27 @@
 - Use feature-independent warping (DTWI). ([#121](https://github.com/eonu/sequentia/pull/121))
 - Ensure minimum Sakoe-Chiba band width is 1. ([#126](https://github.com/eonu/sequentia/pull/126))
 
+
 ## [0.7.2](https://github.com/eonu/sequentia/releases/tag/v0.7.2)
 
 #### Major changes
+
 - Stop referring to sequences as temporal, as non-temporal sequences can also be used. ([#103](https://github.com/eonu/sequentia/pull/103))
 
+
 ## [0.7.1](https://github.com/eonu/sequentia/releases/tag/v0.7.1)
 
 #### Major changes
+
 - Fix deserialization for `KNNClassifier`. ([#93](https://github.com/eonu/sequentia/pull/93))
   - Sort HDF5 keys before loading as `numpy.ndarray`s.
   - Pass `weighting` function into deserialization constructor.
 
+
 ## [0.7.0](https://github.com/eonu/sequentia/releases/tag/v0.7.0)
 
 #### Major changes
+
 - Fix `pomegranate` version to v0.12.0. ([#79](https://github.com/eonu/sequentia/pull/79))
 - Add serialization and deserialization support for all classifiers. ([#80](https://github.com/eonu/sequentia/pull/80))
   - `HMM`, `HMMClassifier`: Serialized in JSON format.
@@ -211,43 +256,55 @@
 - Rename `DTWKNN` to `KNNClassifer`. ([#91](https://github.com/eonu/sequentia/pull/91))
 
 #### Minor changes
+
 - (_Internal_) Simplify package imports. ([#82](https://github.com/eonu/sequentia/pull/82))
 - (_Internal_) Add `Validator.func()` for validating callables. ([#90](https://github.com/eonu/sequentia/pull/90))
 
+
 ## [v0.7.0a1](https://github.com/eonu/sequentia/releases/tag/v0.7.0a1)
 
 #### Major changes
+
 - Clean up package imports. ([#77](https://github.com/eonu/sequentia/pull/77))
 - Rework `preprocessing` module. ([#75](https://github.com/eonu/sequentia/pull/75))
 
 #### Minor changes
+
 - Fix typos and update preprocessing information in `README.md`. ([#76](https://github.com/eonu/sequentia/pull/76))
 
+
 ## [0.6.1](https://github.com/eonu/sequentia/releases/tag/v0.6.1)
 
 #### Major changes
+
 - Remove strict requirement of Numpy arrays being two-dimensional by using `numpy.atleast_2d` to convert one-dimensional arrays into 2D. ([#70](https://github.com/eonu/sequentia/pull/70))
 
 #### Minor changes
+
 - As the HMM classifier is not a true ensemble of HMMs (since each HMM doesn't really contribute to the classification), it is no longer referred to as an ensemble. ([#69](https://github.com/eonu/sequentia/pull/69))
 
+
 ## [0.6.0](https://github.com/eonu/sequentia/releases/tag/v0.6.0)
 
 #### Major changes
+
 - Add package tests and Travis CI support. ([#56](https://github.com/eonu/sequentia/pull/56))
 - Remove Python v3.8+ support. ([#56](https://github.com/eonu/sequentia/pull/56))
 - Rename `normalize` preprocessing method to `center`, since it just centers an observation sequence. ([#62](https://github.com/eonu/sequentia/pull/62))
 - Add `standardize` preprocessing method for standardizing (standard scaling) an observation sequence. ([#63](https://github.com/eonu/sequentia/pull/63))
 - Add `trim_zeros` preprocessing method for removing zero-observations from an observation sequence. ([#67](https://github.com/eonu/sequentia/pull/67))
 
 #### Minor changes
+
 - Add `Validator.random_state` for validating random state objects and seeds. ([#56](https://github.com/eonu/sequentia/pull/56))
 - Internalize `Validator` and topology (`Topology`, `ErgodicTopology`, `LeftRightTopology`) classes. ([#57](https://github.com/eonu/sequentia/pull/57))
 - Use proper documentation format for topology classes. ([#58](https://github.com/eonu/sequentia/pull/58))
 
+
 ## [0.5.0](https://github.com/eonu/sequentia/releases/tag/v0.5.0)
 
 #### Major changes
+
 - Add `Preprocess.summary()` to display an ordered summary of preprocessing transformations. ([#54](https://github.com/eonu/sequentia/pull/54))
 - Add mean and median filtering preprocessing methods. ([#48](https://github.com/eonu/sequentia/pull/48))
 - Use median filtering and decimation downsampling by default. ([#52](https://github.com/eonu/sequentia/pull/52))
@@ -256,26 +313,34 @@
   - Modify downsampling method to downsample residual observations.
 
 #### Minor changes
+
 - Add supported topologies (left-right and ergodic) to feature list. ([#53](https://github.com/eonu/sequentia/pull/53))
 - Add restrictions on preprocessing parameters: downsample factor and window size. ([#50](https://github.com/eonu/sequentia/pull/50))
 - Allow `Preprocess` class to be used to apply preprocessing transformations to a single observation sequence. ([#49](https://github.com/eonu/sequentia/pull/49))
 
+
 ## [0.4.0](https://github.com/eonu/sequentia/releases/tag/v0.4.0)
 
 #### Major changes
+
 - Re-add `euclidean` metric as `DTWKNN` default. ([#43](https://github.com/eonu/sequentia/pull/43))
 
 #### Minor changes
+
 - Add explicit labels to `evaluate()` in `HMMClassifier` example. ([#44](https://github.com/eonu/sequentia/pull/44))
 
+
 ## [0.3.0](https://github.com/eonu/sequentia/releases/tag/v0.3.0)
 
 #### Major changes
+
 - Add proper documentation, hosted on [Read The Docs](https://sequentia.readthedocs.io/en/latest). ([#40](https://github.com/eonu/sequentia/pull/40), [#41](https://github.com/eonu/sequentia/pull/41))
 
+
 ## [0.2.0](https://github.com/eonu/sequentia/releases/tag/v0.2.0)
 
 #### Major changes
+
 - Add multi-processing support for `DTWKNN` predictions. ([#29](https://github.com/eonu/sequentia/pull/29))
 - Rename the `fit_transform()` function in `Preprocess` to `transform()` since there is nothing being fitted. ([#35](https://github.com/eonu/sequentia/pull/35))
 - Modify package classifiers in `setup.py` ([#31](https://github.com/eonu/sequentia/pull/31)):
@@ -284,13 +349,16 @@
   - Specify UNIX and macOS operating system classifiers.
 
 #### Minor changes
+
 - Finish tutorial and example notebooks. ([#35](https://github.com/eonu/sequentia/pull/35))
 - Rename `examples` directory to `notebooks`. ([#32](https://github.com/eonu/sequentia/pull/32))
 - Host notebooks statically on [nbviewer](https://github.com/jupyter/nbviewer). ([#32](https://github.com/eonu/sequentia/pull/32))
 - Add reference to Pomegranate [paper](http://jmlr.org/papers/volume18/17-636/17-636.pdf) and [repository](https://github.com/jmschrei/pomegranate). ([#30](https://github.com/eonu/sequentia/pull/30))
 - Add badges to `README.md`. ([#28](https://github.com/eonu/sequentia/pull/28))
 
+
 ## [0.1.0](https://github.com/eonu/sequentia/releases/tag/v0.1.0)
 
 #### Major changes
+
 Nothing, initial release!

lib/sequentia/__init__.py

@@ -5,7 +5,7 @@
 from .utils import *
 
 __name__ = "sequentia"
-__version__ = "1.0.0"
+__version__ = "1.1.0"
 __author__ = "Edwin Onuonga"
 __email__ = "ed@eonu.net"
 __copyright__ = f"2019-2023, {__author__}"