Reply To: How to set up options in rosetta

[Anonymous]

The first thing to notice is that most lines of Rosetta output are prepended with a string matching where the result came from:

core.init: Constant seed mode, seed=1111111 seed_offset=0 real_seed=1111111
protocols.jd2.PDBJobInputter: Instantiate PDBJobInputter
protocols.jd2.PDBJobInputter: PDBJobInputter::fill_jobs
protocols.jd2.PDBJobInputter: pushing complex_readytail_final_nozn.pdb nstruct index 1
basic.io.database: Database file opened: /users/smlewis/minirosetta_database/env_log.txt

You can mute these individually or in groups with the mute and unmute command line flags:
-mute protocols
will mute all of protocols’ tracers, including subchannels like protocols.jd2.PDBJobInputter
-mute protocols.jd2.PDBJobInputter
will mute only PDBJobInputter
-mute all
will mute all mutable output in the program (which is nearly all of it).

Second, if you want to modify the value of options from within the code, the add_relevant function is not quite the right one. add_relevant reorganizes the -help option in the option system but does not change values. You want to do this:

core::options::option[core::options::OptionKeys::whatever_option].value(argument)
where whatever_option is the option you want to modify (probably mute, but you can try run::silent), and argument is the value you want to give it. Note that this is the same syntax as ACCESSING the value of an option, but .value() now receives an argument instead of returning the argument.