Memote

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* Add a feature to allow suppling a commit range to ``memote history``.
* Add a test that checks if reactions are annotated with reactome identifiers.
* Add a feature that allows identifying specific metabolites by matching
annotation information against the metabolite shortlist for a given MNX ID.
* Change every usage of SBO key to lower case to conform to the identifiers.org
namespace for the Systems Biology Ontology.
* Remove that metabolite SBO terms are used when identifying transport
reactions as this may lead to false positives.
* Return metabolite IDs when finding duplicate metabolites to avoid
serialization errors.
* Identify transport reactions first by formula then by annotation.
* For the diff report, run pytest in different processes to avoid accidentally
overwriting the results of the former with the results of the later runs.
* In the diff report, fix a typo that allowed the diff button to depart the
defined colour scheme (blue -> red) to cyan.
* Fix the snapshot report not showing environment information.
* Allow ``memote run`` to skip commits where the model was not
changed, if the flag ``--skip-unchanged`` is provided.
* Fix the default value of the overall score to be zero instead of one and
make sure that the calculation is ensured with unit tests.
* Fix medium and experiment loading
* Add a test to check reaction directionality with thermodynamic estimation
from eQuilibrator API.

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* Fix test titles and descriptions.

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* Unpin cobra dependency and set it to >0.13.3.
* Set ruamel.yaml to >=0.15 to keep up with cobra.

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* Handle various pytest verbosity options better.
* Improve ``memote new`` behavior.

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* ``memote run`` in a repository now immediately commits the result to the
deployment branch.

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* Allow running of ``memote history`` from any branch.
* Let the history report only use commits where the model actually changed.
* Proofread and update all docstrings and comments inside the ``memote``
subfolder.
* Reworded all test titles to be a) shorter and b) as neutral as was
sensibly possible.
* Reordered tests in the `test-config.yaml` such that results belonging to a
category are grouped logically.
* Updated the documentation to include a newer flowchart, up-to-date getting
started and custom test sections.
* Update code to account for breaking changes in the most recent version of
cobrapy (0.13.0) and subsequently unpin cobrapy dependency (set to >=0.13.0).