Fixed an atomizer bug where the export wasn't in UTF-8 encoding. Minor bugfix to CLI plotting where the BNGPlotter import was incorrect and added a CLI plotting test case.
0.5.5
Component states in atomizer outputs are now lexically ordered. Minor bugfix for atomizer where a user inputted self-binding site would add two separate binding sites on the same molecule.
0.5.4
Default log level for atomizer is now `WARNING`, by default atomizer probes web services now, minor atomizer bugfixes
0.5.3
Bugfix to fixed species output where the `$` appeared before overall pattern compartments, added `__getitem__` and `__setitem__` for the species block to allow for array indexing of seed species.
0.5.2
Various updates and bugfixes for atomize subcommand
0.5.1
Subcommand atomize is added allowing for translation and atomization of SBML models. A simple test case for flat and atomized translations is added. See `bionetgen atomize -h` for more information.