Bugfix for working with subtomogram averages

v0.8.1

v0.8.1: bugfix for using subtomogram averages in the list of shapes f…

Subtomogram average support now included

This release incorporates the final entity that was incomplete: representing subtomogram averages. A subtomogram average consists of two data types: an indexed lattice, which is a base64-encoded 3D volume with the subtomogram average's density and a list of 'shapes' each of which is a reference to the lattice together with a transform ID specifying how the particle instance is mapped back to the tomogram.

Options for merging colours

v0.7.3: merge with colour option added

* upgraded github workflow dependencies

Bugfix for Windows

Exit codes are now pure integers independent of the os package. Also fixed some references in the documentation.

bugfix: entity ids need casting from HDF5

bugfix: reading from HDF5 retains some ids as `numpy.int64`

* tests added and pass
* version bump