class jade.rosetta_jade.SetupRosettaOptionsGeneral.SetupRosettaOptionsGeneral(cluster_json_file)

Bases: object

Class for setting up more general Rosetta options for benchmarking and repeatable runs on different clusters. Useful for benchmarking. Subclass for adding more benchmarking settings for specific benchmarks.

get_base_rosetta_flag_string(indir_root=None)

Get the full flag string for output. Optionally give indir_root for subclasses that require setting of different

directories, but with same root as given in the cluster file. Used primarily for complicated benchmarks.

get_db_mode()

get_indirs()

get_machine_file()

get_nstruct()

get_program()

get_root()

get_xml_script()

get_xml_var_string()