Release v0.2.0

CHANGELOG.md

@@ -6,7 +6,20 @@ and this project adheres to [Semantic Versioning](http://semver.org/spec/v2.0.0.
 
 
 ## [Unreleased]
-[Unreleased]: https://github.com/althonos/pyrodigal/compare/v0.1.2...HEAD
+[Unreleased]: https://github.com/althonos/pyrodigal/compare/v0.2.0...HEAD
+
+
+## [v0.2.0] - 2021-06-20
+[Unreleased]: https://github.com/althonos/pyrodigal/compare/v0.1.2...v0.2.0
+
+### Added
+- `Sketch.clear` method to remove all sequences currently in a `Sketch` and reset the list of minimizers.
+- SIMD code to read and reverse-complement the input sequences efficiently on supported platforms (x86-64 with SSE2 or SSSE3, and ARM with NEON).
+### Changed
+- Split the `Sketch` type in two depending on whether the object is at the sketching stage (`Sketch`) or at the querying stage (`Mapper`).
+- `Sketch.add_genome`, `Sketch.add_draft`, `Mapper.query_genome` and `Mapper.query_draft` can now be passed a Unicode string for the sequence.
+### Fixed
+- Integer underflow causing minimizers out of the block window to be added to the final minimizers list.
 
 
 ## [v0.1.2] - 2021-06-15

README.md

@@ -13,7 +13,7 @@
 [![GitHub issues](https://img.shields.io/github/issues/althonos/pyfastani.svg?style=flat-square&maxAge=600)](https://github.com/althonos/pyfastani/issues)
 [![Changelog](https://img.shields.io/badge/keep%20a-changelog-8A0707.svg?maxAge=2678400&style=flat-square)](https://github.com/althonos/pyfastani/blob/master/CHANGELOG.md)
 [![Downloads](https://img.shields.io/badge/dynamic/json?style=flat-square&color=303f9f&maxAge=86400&label=downloads&query=%24.total_downloads&url=https%3A%2F%2Fapi.pepy.tech%2Fapi%2Fprojects%2Fpyfastani)](https://pepy.tech/project/pyfastani)
-[![DOI](https://img.shields.io/badge/doi-10.5281%2Fzenodo.4940238-purple?style=flat-square&maxAge=86400)](https://doi.org/10.5281/zenodo.4940238)
+[![DOI](https://img.shields.io/badge/doi-10.5281%2Fzenodo.4940237-purple?style=flat-square&maxAge=86400)](https://doi.org/10.5281/zenodo.4940237)
 
 
 ## 🗺️ Overview
@@ -42,7 +42,7 @@ FastANI internals, which has the following advantages over CLI wrappers:
   without needing to write them to a temporary file.
 
 *This library is still a work-in-progress, and in an experimental stage,
-but it should already pack enough features to run one-to-one computations.*
+but it should already pack enough features to be used in a standard pipeline.*
 
 
 ## 🔧 Installing

pyfastani/__init__.py

@@ -3,7 +3,7 @@
 
 __author__ = "Martin Larralde <[email protected]>"
 __license__ = "MIT"
-__version__ = "0.1.2"
+__version__ = "0.2.0"
 
 __all__ = ["Sketch", "Mapper", "Hit", "MAX_KMER_SIZE"]
 __doc__ = _fastani.__doc__

setup.cfg

@@ -37,13 +37,13 @@ project_urls =
     Coverage = https://codecov.io/gh/althonos/pyfastani/
     Builds = https://github.com/althonos/pyfastani/actions/
     PyPI = https://pypi.org/project/pyfastani
-    Zenodo = https://doi.org/10.5281/zenodo.4940238
+    Zenodo = https://doi.org/10.5281/zenodo.4940237
 
 [options]
 zip_safe = false
 packages = pyfastani, pyfastani.tests
 python_requires = >=3.6
-test_suite = tests
+test_suite = pyfastani.tests
 include_package_data = true
 setup_requires =
     setuptools >=46.4