:tocdepth: 2

``moclo``
=========

All notable changes to this project will be documented in this file.

The format is based on `Keep a Changelog <http://keepachangelog.com>`_ and this
project adheres to `Semantic Versioning <http://semver.org/spec/v2.0.0.html>`_.

Unreleased_
-----------

v0.4.7_ - 2021-11-08
--------------------

Changed
'''''''
- Dropped support for Python versions older than Python 3.6.
- Required minimum version of ``1.78`` for Biopython.


v0.4.6_ - 2019-07-25
-------------------

Changed
'''''''
- Switch from ``cached-property`` to ``property-cached`` in dependencies.

v0.4.5_ - 2019-02-22
--------------------

Fixed
'''''
- Support all ``fs`` versions under `3.0`.

v0.4.4_ - 2019-02-11
--------------------

Changed
'''''''
- Add ``2.3.0`` to the supported ``fs`` versions.

v0.4.3_ - 2019-01-06
--------------------

Changed
'''''''
- Add ``2.2.0`` to the supported ``fs`` versions.

Added
'''''
- Add ``Item.record`` shortcut to ``Item.entity.record`` in ``moclo.registry``.
- Make ``moclo.core`` abstract classes check for illegal sites in sequence to
  be identified as *valid*.
- This *CHANGELOG* file.

Documented
''''''''''
- Fix typos.


v0.4.2_ - 2018-08-16
--------------------

Fixed
'''''
- Some registries not loading ``CircularRecord`` instances.


v0.4.1_ - 2018-08-16
--------------------

Changed
'''''''
- Bump required ``fs`` version to ``2.1.0``.


v0.4.0_ - 2018-08-10
--------------------

Added
'''''
- ``AbstractPart.characterize`` to load a record into a part instance.
- Option to include / exclude ``ELabFTWRegistry`` items using tags.


v0.3.0_ - 2018-08-07
--------------------

Added
'''''
- Annotate assembled vectors as *circular* in ``AbstractVector.assemble``.
- *eLabFTW* registry connector in ``moclo.registry.elabftw``.

Changed
'''''''
- Move ``Item._find_type`` to public function ``moclo.registry.utils.find_type``.
- Improve annotation generated in ``AbstractVector.assemble``.

Fixed
'''''
- ``AbstractPart`` subclasses not being recognized as abstract.


v0.2.1_ - 2018-07-27
--------------------

Added
'''''
- ``moclo.registry.utils`` module with resistance idenfication function.
- Make ``AbstractVector.assemble`` add an alphabet to the generated sequence.

Documented
''''''''''
- Improved ``README.rst`` file.


v0.2.0_ - 2018-07-24
--------------------

Added
'''''
- Use ``AbstracModule.cutter`` and ``AbstractVector.cutter`` to deduce the
  required structure for modules and vectors.
- ``AbstractPart`` class to generate sequence structure based on part signature.
- Add registry API in ``moclo.registry`` module.

Changed
'''''''
- Make ``StructuredRecord`` convert ``SeqRecord`` to ``CircularRecord`` on
  instantiation if needed.
- Use ``target_sequence`` method in ``AbstractVector.assemble``.
- Make modules and vectors add sources to their target sequences when assembled.
- Patch ``CircularRecord.reverse_complement`` to return a ``CircularRecord``.


Documented
''''''''''
- Add ``moclo.base.parts`` to documentation.
- Add example in ``AbstractPart`` docstring.
- Fix documentation of ``moclo.base``

Fixed
'''''
- Fix ``AbstracModule.target_sequence`` and ``AbstractVector.target_sequence`` to
  take into account cutter overhand position.


v0.1.0_ - 2018-07-12
--------------------

Initial public release.

.. _Unreleased: https://github.com/althonos/moclo/compare/v0.4.7...HEAD
.. _v0.4.6: https://github.com/althonos/moclo/compare/v0.4.6...v0.4.7
.. _v0.4.6: https://github.com/althonos/moclo/compare/v0.4.5...v0.4.6
.. _v0.4.5: https://github.com/althonos/moclo/compare/v0.4.4...v0.4.5
.. _v0.4.4: https://github.com/althonos/moclo/compare/v0.4.3...v0.4.4
.. _v0.4.3: https://github.com/althonos/moclo/compare/v0.4.2...v0.4.3
.. _v0.4.2: https://github.com/althonos/moclo/compare/v0.4.1...v0.4.2
.. _v0.4.1: https://github.com/althonos/moclo/compare/v0.4.0...v0.4.1
.. _v0.4.0: https://github.com/althonos/moclo/compare/v0.3.0...v0.4.0
.. _v0.3.0: https://github.com/althonos/moclo/compare/v0.2.1...v0.3.0
.. _v0.2.1: https://github.com/althonos/moclo/compare/v0.2.0...v0.2.1
.. _v0.2.0: https://github.com/althonos/moclo/compare/v0.1.0...v0.2.0
.. _v0.1.0: https://github.com/althonos/moclo/compare/20aa50fb2202279215c36e2b687a7e989667e34f...v0.1.0