Index _ | A | B | C | D | E | G | H | I | K | L | M | N | O | P | R | S | U | V | W _ __author__ (in module dfba) __email__ (in module dfba) __version__ (in module dfba) A add_exchange_flux_lb() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_exchange_flux_ub() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_exchange_fluxes() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_initial_conditions() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_kinetic_variables() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_objectives() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_rhs_expression() (dfba.DfbaModel method) (dfba.model.DfbaModel method) add_to_library() (dfba.DfbaModel method) (dfba.model.DfbaModel method) B BuildExtWithoutPlatformSuffix (class in dfba.jit) C change_points (dfba.control.ControlParameter attribute) (dfba.ControlParameter attribute) change_points() (dfba.control.ControlParameter property) (dfba.ControlParameter property) cobra_model (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) cobra_model() (dfba.DfbaModel property) (dfba.model.DfbaModel property) col_indices() (in module dfba.library) compile() (in module dfba.jit) ControlParameter (class in dfba) (class in dfba.control) create() (in module dfba.library) ctrl_parm_expression() (in module dfba.library) CXX_FLAGS (in module dfba.jit) D dfba module dfba._version module dfba.control module dfba.exchange module dfba.helpers module dfba.jit module dfba.library module dfba.model module dfba.plot module dfba.plot.matplotlib module dfba.plot.plotly module dfba.types module dfba.variable module DfbaModel (class in dfba) (class in dfba.model) directions (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) directions() (dfba.DfbaModel property) (dfba.model.DfbaModel property) E exchange_fluxes (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) exchange_fluxes() (dfba.DfbaModel property) (dfba.model.DfbaModel property) ExchangeFlux (class in dfba) (class in dfba.exchange) Expression (in module dfba.types) G get_config() (in module dfba._version) get_cxxflags() (in module dfba.jit) get_ext_filename() (dfba.jit.BuildExtWithoutPlatformSuffix method) get_ext_filename_without_platform_suffix() (in module dfba.jit) get_keywords() (in module dfba._version) get_versions() (in module dfba) (in module dfba._version) git_get_keywords() (in module dfba._version) git_pieces_from_vcs() (in module dfba._version) git_versions_from_keywords() (in module dfba._version) H HANDLERS (in module dfba._version) I id (dfba.control.ControlParameter attribute) (dfba.ControlParameter attribute) (dfba.exchange.ExchangeFlux attribute) (dfba.ExchangeFlux attribute) (dfba.KineticVariable attribute) (dfba.variable.KineticVariable attribute) id() (dfba.control.ControlParameter property) (dfba.ControlParameter property) (dfba.DfbaModel property) (dfba.exchange.ExchangeFlux property) (dfba.ExchangeFlux property) (dfba.KineticVariable property) (dfba.model.DfbaModel property) (dfba.variable.KineticVariable property) indices() (in module dfba.library) initial_condition() (dfba.KineticVariable property) (dfba.variable.KineticVariable property) initital_condition (dfba.KineticVariable attribute) (dfba.variable.KineticVariable attribute) K kinetic_variables (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) kinetic_variables() (dfba.DfbaModel property) (dfba.model.DfbaModel property) KineticVariable (class in dfba) (class in dfba.variable) L logger (in module dfba.jit) (in module dfba.model) LONG_VERSION_PY (in module dfba._version) lower_bound_expression (dfba.exchange.ExchangeFlux attribute) (dfba.ExchangeFlux attribute) lower_bound_expression() (dfba.exchange.ExchangeFlux property) (dfba.ExchangeFlux property) lp_problem() (dfba.DfbaModel method) (dfba.model.DfbaModel method) M module dfba dfba._version dfba.control dfba.exchange dfba.helpers dfba.jit dfba.library dfba.model dfba.plot dfba.plot.matplotlib dfba.plot.plotly dfba.types dfba.variable N NotThisMethod O objectives (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) objectives() (dfba.DfbaModel property) (dfba.model.DfbaModel property) P PALETTE (in module dfba.plot.matplotlib) plot_concentrations() (in module dfba.plot.matplotlib) (in module dfba.plot.plotly) plot_trajectories() (in module dfba.plot.matplotlib) (in module dfba.plot.plotly) plus_or_dot() (in module dfba._version) Problem (in module dfba.types) R reactions (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) reactions() (dfba.DfbaModel property) (dfba.model.DfbaModel property) register_vcs_handler() (in module dfba._version) render() (in module dfba._version) render_git_describe() (in module dfba._version) render_git_describe_long() (in module dfba._version) render_pep440() (in module dfba._version) render_pep440_old() (in module dfba._version) render_pep440_post() (in module dfba._version) render_pep440_pre() (in module dfba._version) rhs_expression (dfba.KineticVariable attribute) (dfba.variable.KineticVariable attribute) rhs_expression() (dfba.KineticVariable property) (dfba.variable.KineticVariable property) run_command() (in module dfba._version) S set_parameters() (dfba.control.ControlParameter method) (dfba.ControlParameter method) show_versions() (in module dfba) (in module dfba.helpers) simulate() (dfba.DfbaModel method) (dfba.model.DfbaModel method) solver_data (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) solver_data() (dfba.DfbaModel property) (dfba.model.DfbaModel property) U UnsupportedCompilerException upper_bound_expression (dfba.exchange.ExchangeFlux attribute) (dfba.ExchangeFlux attribute) upper_bound_expression() (dfba.exchange.ExchangeFlux property) (dfba.ExchangeFlux property) user_data (dfba.DfbaModel attribute) (dfba.model.DfbaModel attribute) user_data() (dfba.DfbaModel property) (dfba.model.DfbaModel property) V values (dfba.control.ControlParameter attribute) (dfba.ControlParameter attribute) values() (dfba.control.ControlParameter property) (dfba.ControlParameter property) VersioneerConfig (class in dfba._version) versions_from_parentdir() (in module dfba._version) W write_model_to_file() (in module dfba.library) WriteIndent() (in module dfba.library)