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generate_configuration.py now only generates a configuration file; it no longer also runs dactyl_manuform.py.
it will save the generated configuration file to the configs directory, and it will be named according to the config_name. passing a --config=<name> argument to the script will set the config_name and save_dir.
dactyl_manuform.py now also accepts a --config=<name> argument. if non is passed, the default values from generate_configuration.py are used. otherwise, the defaults will be overridden by the values from the config specified.
because of these changes, i removed run_config.json. it should have default values anyway, so it seemed reduandant and confusing.
the run command has also been updated to allow for the config changes, and some bugs have also been fixed.
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