rosetta_scripts.cc File Reference

The application file for rosetta_scripts, aka jd2_scripting or the parser. More...

#include <protocols/jd2/JobDistributor.hh>
#include <protocols/jd2/MPIWorkPoolJobDistributor.hh>
#include <protocols/jd2/MPIFileBufJobDistributor.hh>
#include <protocols/jd2/BOINCJobDistributor.hh>
#include <protocols/viewer/viewers.hh>
#include <core/types.hh>
#include <protocols/abinitio/ClassicAbinitio.hh>
#include <devel/init.hh>
#include <basic/options/option.hh>
#include <protocols/rosetta_scripts/RosettaScriptsParser.hh>
#include <protocols/moves/Mover.fwd.hh>
#include <protocols/filters/FilterFactory.hh>
#include <protocols/moves/MoverFactory.hh>
#include <core/select/residue_selector/ResidueSelectorFactory.hh>
#include <core/pack/task/operation/TaskOperationFactory.hh>
#include <core/pack/task/operation/ResLvlTaskOperationFactory.hh>
#include <basic/options/keys/parser.OptionKeys.gen.hh>
#include <basic/options/keys/jd2.OptionKeys.gen.hh>
#include <utility/tag/XMLSchemaGeneration.hh>
#include <utility/vector1.hh>
#include <utility/excn/EXCN_Base.hh>
#include <basic/Tracer.hh>
#include <fstream>

Functions
static THREAD_LOCAL basic::Tracer	TR ("apps.public.rosetta_scripts.rosetta_scripts")
void *	my_main (void *)
void	print_template_script ()
	Prints out an empty template RosettaScript to the tracer. More...
bool	print_information (std::string const &component_name, std::stringstream &outstream)
	Prints out XSD information about the XML-accessible options for a given RosettaScipts-accessible mover, filter, task operation, or residue selector. More...
void	print_information (utility::vector1< std::string > const &component_names)
	Prints out XSD information about the XML-accessible options for a given set of RosettaScipts-accessible movers, filters, task operations, or residue selectors. More...
void	save_schema (std::string const &filename)
	Saves the XSD to the given file. More...
int	main (int argc, char *argv[])

Detailed Description

The application file for rosetta_scripts, aka jd2_scripting or the parser.

Author

Sarel Fleishman (sarel.nosp@m.f@u..nosp@m.washi.nosp@m.ngto.nosp@m.n.edu)

Vikram K. Mulligan (vmull.nosp@m.ig@u.nosp@m.w.edu) – Added template script generation and "-parser:info" flag (in-app help for RosettaScripts).

Function Documentation

int main	(	int	argc,
		char *	argv[]
	)

dock_design_scripting provides an xml-based scripting capability to run rosetta movers and filters defined in a text file provided by the user. A full documentation of dock_design_scripting is available at: manual_doxygen/applications/app_dock_design.dox

References basic::options::OptionKeys::jd2::dd_parser, basic::Error(), utility::options::OptionKeys::options::exit, basic::options::OptionKeys::parser::info, devel::init(), my_main(), basic::options::OptionKeys::jd2::ntrials, basic::options::option, options, basic::options::OptionKeys::parser::output_schema, print_information(), print_template_script(), basic::options::OptionKeys::parser::protocol, register_options(), save_schema(), basic::options::OptionKeys::inout::dbms::user, basic::options::OptionKeys::docking::view, and basic::options::OptionKeys::parser::view.

void* my_main

(

void *

)

Referenced by main().

bool print_information	(	std::string const &	component_name,
		std::stringstream &	outstream
	)

Prints out XSD information about the XML-accessible options for a given RosettaScipts-accessible mover, filter, task operation, or residue selector.

Author

Vikram K. Mulligan (vmull.nosp@m.ig@u.nosp@m.w.edu)

Returns true for FAILURE to find the given component, false otherwise.

Author

Vikram K. Mulligan (vmull.nosp@m.ig@u.nosp@m.w.edu)

References utility::tag::XMLSchemaDefinition::human_readable_summary().

Referenced by main(), and print_information().

void print_information

(

utility::vector1< std::string > const &

component_names

)

Prints out XSD information about the XML-accessible options for a given set of RosettaScipts-accessible movers, filters, task operations, or residue selectors.

Calls the single string version.

Author

Vikram K. Mulligan (vmull.nosp@m.ig@u.nosp@m.w.edu)

References print_information(), runtime_assert_string_msg, and TR().

void print_template_script

(

)

Prints out an empty template RosettaScript to the tracer.

Author

Vikram K. Mulligan (vmull.nosp@m.ig@u.nosp@m.w.edu)

References TR().

Referenced by main().

void save_schema

(

std::string const &

filename

)

Saves the XSD to the given file.

References basic::Tracer::Error, utility::excn::EXCN_Msg_Exception::msg(), assign_charges::ofs, basic::options::OptionKeys::parser::parser, and TR().

Referenced by main().

static THREAD_LOCAL basic::Tracer TR ( "apps.public.rosetta_scripts.rosetta_scripts"  )

static

Referenced by print_information(), print_template_script(), and save_schema().