CADBIOM User Manual
0.3
Installation
Command line usage
Tutorial
Cadbiom File Format Specification
Documentation for developers
License
CADBIOM User Manual
»
Index
Index
A
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B
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C
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D
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E
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F
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G
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H
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I
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J
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L
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M
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N
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O
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P
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Q
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R
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S
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T
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U
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V
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W
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X
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Z
A
accept() (cadbiom.models.biosignal.sig_expr.SigBotExpr method)
(cadbiom.models.biosignal.sig_expr.SigConstExpr method)
(cadbiom.models.biosignal.sig_expr.SigConstraintExpr method)
(cadbiom.models.biosignal.sig_expr.SigDefaultExpr method)
(cadbiom.models.biosignal.sig_expr.SigDiffExpr method)
(cadbiom.models.biosignal.sig_expr.SigEqualExpr method)
(cadbiom.models.biosignal.sig_expr.SigEventExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
(cadbiom.models.biosignal.sig_expr.SigIdentExpr method)
(cadbiom.models.biosignal.sig_expr.SigNotExpr method)
(cadbiom.models.biosignal.sig_expr.SigSyncBinExpr method)
(cadbiom.models.biosignal.sig_expr.SigWhenExpr method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
(cadbiom.models.guard_transitions.chart_model.CTransition method)
(cadbiom.models.guard_transitions.chart_model.CTrapNode method)
(cadbiom.models.guard_transitions.chart_model.ChartModel method)
activate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputPlace method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
add_accelerator() (cadbiom_gui.gt_gui.charter.Charter method)
add_arg() (cadbiom.models.biosignal.sig_expr.SigConstraintExpr method)
add_aux_clause() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
add_aux_var() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
add_clause() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
add_copy() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_edit_mvc() (cadbiom_gui.gt_gui.charter.Charter method)
add_ev_place() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputEvent method)
add_event() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
add_free_clock() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
add_icon_to_button() (in module cadbiom_gui.gt_gui.utils.notebookUtils)
add_image() (cadbiom_gui.gt_gui.charter.Charter method)
add_input() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
(cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
add_input_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_lit() (cadbiom.models.clause_constraints.CLDynSys.Clause method)
add_macro_subnode() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_perm_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_place() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
add_place_clock() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
add_simple_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_start_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_start_trap_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_state_place() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
add_submodel() (cadbiom.models.guard_transitions.chart_model.CTopNode method)
add_transition() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
add_trap_node() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
add_var() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
aff_coef() (cadbiom.models.guard_transitions.chart_model.CTopNode method)
ai_inter_rb_callback() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
Arrow (class in cadbiom_gui.gt_gui.graphics.drawing_style)
attach() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
(cadbiom_gui.gt_gui.chart_view.ChartPage method)
attribute
B
BAGWindow (class in cadbiom_gui.gt_gui.chart_static.chart_stat_controler)
BioSignalEditor (class in cadbiom_gui.gt_gui.utils.text_page)
build() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
build_button_frame() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.BAGWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.STATWindow method)
build_from_cadlang() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
(cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
(cadbiom.models.guard_transitions.chart_model.ChartModel method)
build_from_chart_file() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
(cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
build_from_chart_model() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
(cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
build_from_pid_file() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
(cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
build_graph() (in module cadbiom_cmd.interaction_graph)
(in module cadbiom_cmd.tools.graphs)
build_input_clock_sequence() (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution class method)
build_input_transition() (cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
build_interactions() (in module cadbiom_cmd.interaction_graph)
build_new_transition_to_nodes() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
build_transition() (cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
C
cadbiom.commons (module)
cadbiom.models.biosignal.sig_expr (module)
cadbiom.models.clause_constraints.CLDynSys (module)
cadbiom.models.clause_constraints.mcl.CLUnfolder (module)
cadbiom.models.clause_constraints.mcl.MCLAnalyser (module)
cadbiom.models.clause_constraints.mcl.MCLQuery (module)
cadbiom.models.clause_constraints.mcl.MCLSolutions (module)
cadbiom.models.clause_constraints.mcl.TestCLUnfolder (module)
cadbiom.models.clause_constraints.mcl.TestMCLAnalyser (module)
cadbiom.models.clause_constraints.mcl.TestMCLTranslators (module)
cadbiom.models.guard_transitions.analyser.ana_visitors (module)
cadbiom.models.guard_transitions.analyser.static_analysis (module)
cadbiom.models.guard_transitions.analyser.TestStaticAnalysis (module)
cadbiom.models.guard_transitions.chart_model (module)
cadbiom.models.guard_transitions.simulator.chart_simul (module)
cadbiom.models.guard_transitions.simulator.chart_simul_elem (module)
cadbiom.models.guard_transitions.simulator.translators.gt_visitors (module)
cadbiom.models.guard_transitions.TestModelExtraction (module)
cadbiom.models.guard_transitions.translators.chart_xml (module)
cadbiom.models.guard_transitions.translators.chart_xml_pid (module)
cadbiom_cmd.interaction_graph (module)
cadbiom_cmd.models (module)
cadbiom_cmd.queries_2_clustermap (module)
cadbiom_cmd.solution_merge (module)
cadbiom_cmd.solution_search (module)
cadbiom_cmd.solution_sort (module)
cadbiom_cmd.tools.graphs (module)
cadbiom_cmd.tools.models (module)
cadbiom_cmd.tools.solutions (module)
cadbiom_gui.gt_gui.chart_checker.chart_checker_controler (module)
cadbiom_gui.gt_gui.chart_controler (module)
cadbiom_gui.gt_gui.chart_misc_widgets (module)
cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler (module)
cadbiom_gui.gt_gui.chart_static.chart_stat_controler (module)
cadbiom_gui.gt_gui.chart_view (module)
cadbiom_gui.gt_gui.charter (module)
cadbiom_gui.gt_gui.charter_info (module)
cadbiom_gui.gt_gui.edit_mvc (module)
cadbiom_gui.gt_gui.graphics.drawing_style (module)
cadbiom_gui.gt_gui.layout (module)
cadbiom_gui.gt_gui.utils.listDisplay (module)
cadbiom_gui.gt_gui.utils.notebookUtils (module)
cadbiom_gui.gt_gui.utils.reporter (module)
cadbiom_gui.gt_gui.utils.text_page (module)
cadbiom_gui.gt_gui.utils.warn (module)
cancel() (cadbiom_gui.gt_gui.charter.Charter method)
cancel_warn() (in module cadbiom_gui.gt_gui.utils.warn)
change_model() (cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
characters() (cadbiom.models.guard_transitions.translators.chart_xml.MakeHandler method)
ChartChecker (class in cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
ChartClipboard (class in cadbiom_gui.gt_gui.chart_controler)
ChartControler (class in cadbiom_gui.gt_gui.chart_controler)
Charter (class in cadbiom_gui.gt_gui.charter)
CharterInfo (class in cadbiom_gui.gt_gui.charter_info)
ChartModel (class in cadbiom.models.guard_transitions.chart_model)
ChartModelException
ChartPage (class in cadbiom_gui.gt_gui.chart_view)
ChartSimulator (class in cadbiom.models.guard_transitions.simulator.chart_simul)
ChartSimulControler (class in cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler)
ChartStatControler (class in cadbiom_gui.gt_gui.chart_static.chart_stat_controler)
ChartView (class in cadbiom_gui.gt_gui.chart_view)
check_curent_model() (cadbiom_gui.gt_gui.charter.Charter method)
check_inv_conditions() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
check_name() (cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
check_query() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
check_reachable_property() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
choice_selection_callback() (cadbiom_gui.gt_gui.utils.listDisplay.ChoiceList method)
ChoiceList (class in cadbiom_gui.gt_gui.utils.listDisplay)
choose_BioPAX_file() (cadbiom_gui.gt_gui.charter.Charter method)
choose_cadlang_file() (cadbiom_gui.gt_gui.charter.Charter method)
choose_file() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
choose_pid_file() (cadbiom_gui.gt_gui.charter.Charter method)
choose_pint_file() (cadbiom_gui.gt_gui.charter.Charter method)
choose_xml_file() (cadbiom_gui.gt_gui.charter.Charter method)
CInputNode (class in cadbiom.models.guard_transitions.chart_model)
Clause (class in cadbiom.models.clause_constraints.CLDynSys)
CLDynSys (class in cadbiom.models.clause_constraints.CLDynSys)
clean() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom.models.guard_transitions.chart_model.CTransition method)
clean_code() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
clean_subwin() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
clear() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
(cadbiom_gui.gt_gui.chart_view.NavView method)
(cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
(cadbiom_gui.gt_gui.utils.text_page.TextPage method)
clock_rb_callback() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
clock_trans() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
CLUnfolder (class in cadbiom.models.clause_constraints.mcl.CLUnfolder)
CMacroNode (class in cadbiom.models.guard_transitions.chart_model)
cmpval() (in module cadbiom.models.guard_transitions.analyser.static_analysis)
CNode (class in cadbiom.models.guard_transitions.chart_model)
code_name() (cadbiom.models.clause_constraints.CLDynSys.Literal method)
compile_to_cadlang() (cadbiom_gui.gt_gui.charter.Charter method)
CompilReporter (class in cadbiom_gui.gt_gui.utils.reporter)
compute_combinations() (in module cadbiom_cmd.solution_search)
compute_macs() (in module cadbiom_cmd.solution_search)
Condition (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
confirm() (in module cadbiom_gui.gt_gui.utils.warn)
connect() (cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
context_menu() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
convert_solutions_to_json() (in module cadbiom_cmd.tools.solutions)
coord_inc() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
copy() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
(cadbiom.models.guard_transitions.chart_model.CTopNode method)
copy_subnodes() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
copy_transitions() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
CPermNode (class in cadbiom.models.guard_transitions.chart_model)
create_custom_tab() (in module cadbiom_gui.gt_gui.utils.notebookUtils)
create_drawing_buttons() (cadbiom_gui.gt_gui.charter.Charter method)
create_init_file() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
create_solution_file() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.BAGWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.STATWindow method)
create_unfolder() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
create_xml_file() (cadbiom_gui.gt_gui.charter.Charter method)
CSimpleNode (class in cadbiom.models.guard_transitions.chart_model)
CStartNode (class in cadbiom.models.guard_transitions.chart_model)
CTopNode (class in cadbiom.models.guard_transitions.chart_model)
CTransition (class in cadbiom.models.guard_transitions.chart_model)
CTrapNode (class in cadbiom.models.guard_transitions.chart_model)
current_step (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
D
declare() (cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
decompile_condition() (in module cadbiom_cmd.tools.models)
default_clock() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
DependencyGraphWindow (class in cadbiom_gui.gt_gui.chart_static.chart_stat_controler)
desactivate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputPlace method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
deselect_all() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
destroy() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.ChartChecker method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
(cadbiom_gui.gt_gui.chart_misc_widgets.LegendWindow method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.DependencyGraphWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
detach() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
(cadbiom_gui.gt_gui.chart_view.ChartPage method)
detect_model_type() (in module cadbiom_cmd.solution_search)
DialogEntry (class in cadbiom_gui.gt_gui.utils.warn)
DimacsFrontierSol (class in cadbiom.models.clause_constraints.mcl.MCLSolutions)
DirectFlowGraphBuilder (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
disconnect() (cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
display() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.ErrorReporter method)
(cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.ErrorRep method)
(cadbiom.models.clause_constraints.mcl.TestMCLTranslators.ErrorRep method)
(cadbiom.models.guard_transitions.TestModelExtraction.Reporter method)
(cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.Reporter method)
(cadbiom.models.guard_transitions.simulator.chart_simul.SimReport method)
(cadbiom_gui.gt_gui.charter_info.CharterInfo method)
(cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
(cadbiom_gui.gt_gui.utils.reporter.CompilReporter method)
(cadbiom_gui.gt_gui.utils.reporter.ErrorReporter method)
(cadbiom_gui.gt_gui.utils.reporter.SimpleErrorReporter method)
display_activ_sol() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
display_info() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.ErrorReporter method)
(cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.ErrorRep method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.BAGWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.STATWindow method)
(cadbiom_gui.gt_gui.utils.reporter.CompilReporter method)
display_nodes() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchFrontier method)
(cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
display_note_window() (cadbiom_gui.gt_gui.charter_info.Info method)
DisplayError (class in cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler)
do_layout() (cadbiom_gui.gt_gui.charter.Charter method)
draft_transition() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
draw() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom.models.guard_transitions.chart_model.CInputNode method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CPermNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
(cadbiom.models.guard_transitions.chart_model.CTopNode method)
(cadbiom.models.guard_transitions.chart_model.CTrapNode method)
(cadbiom_gui.gt_gui.graphics.drawing_style.Arrow method)
draw_circle() (cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
draw_edge_gen() (cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_graph() (in module cadbiom_cmd.tools.graphs)
draw_input() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
draw_macro() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_macro_node_gen() (cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_matrix_heatmap() (in module cadbiom_cmd.queries_2_clustermap)
draw_node_gen() (cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_perm() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_rectangle() (cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
draw_simple() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_start() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
draw_top_node() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
draw_transition() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_transition_group() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.graphics.drawing_style.PlainDrawing method)
draw_trap() (cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
drawing_button_disable() (cadbiom_gui.gt_gui.charter.Charter method)
drawing_button_disconnect() (cadbiom_gui.gt_gui.charter.Charter method)
drawing_button_enable() (cadbiom_gui.gt_gui.charter.Charter method)
drawing_buttons_connect() (cadbiom_gui.gt_gui.charter.Charter method)
DrawingStyle (class in cadbiom_gui.gt_gui.graphics.drawing_style)
dynamic_constraints (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
dynamic_system (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser attribute)
E
EditMVC (class in cadbiom_gui.gt_gui.edit_mvc)
element
endElement() (cadbiom.models.guard_transitions.translators.chart_xml.MakeHandler method)
enter_callback() (cadbiom_gui.gt_gui.charter_info.CharterInfo method)
ErrorRep (class in cadbiom.models.clause_constraints.mcl.TestMCLAnalyser)
(class in cadbiom.models.clause_constraints.mcl.TestMCLTranslators)
ErrorReporter (class in cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
(class in cadbiom_cmd.solution_search)
(class in cadbiom_gui.gt_gui.utils.reporter)
EstimExpVisitor (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
Event (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
export_2_dot() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
export_2_graphml() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
export_graph() (in module cadbiom_cmd.tools.graphs)
export_picture() (cadbiom_gui.gt_gui.charter.Charter method)
export_picture_to_file() (cadbiom_gui.gt_gui.charter.Charter method)
export_to_cadlang() (cadbiom_gui.gt_gui.charter.Charter method)
export_to_xml() (cadbiom_gui.gt_gui.charter.Charter method)
extract_act_input_clock_seq() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
extract_act_inputs_clocks() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
extract_activated_frontier_values() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
extract_int() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
F
feed_mclanalyser() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
filter_trajectories() (in module cadbiom_cmd.interaction_graph)
final_constraints (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
find_element() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom.models.guard_transitions.chart_model.CInputNode method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
(cadbiom.models.guard_transitions.chart_model.CTopNode method)
find_mac() (in module cadbiom_cmd.solution_search)
find_macs() (in module cadbiom_cmd.solution_search)
find_transition() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
force_desactivate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
free_clocks (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
from_dimacs_front_sol() (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution class method)
from_file() (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution class method)
from_frontier_sol() (cadbiom.models.clause_constraints.mcl.MCLQuery.MCLSimpleQuery class method)
from_frontier_sol_new_timing() (cadbiom.models.clause_constraints.mcl.MCLQuery.MCLSimpleQuery class method)
from_frontier_sol_same_timing() (cadbiom.models.clause_constraints.mcl.MCLQuery.MCLSimpleQuery class method)
from_raw() (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution class method)
frontier_pos_and_neg_values (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution attribute)
FrontierSolution (class in cadbiom.models.clause_constraints.mcl.MCLSolutions)
FrontierVisitor (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
G
GenSimVisitor (class in cadbiom.models.guard_transitions.simulator.translators.gt_visitors)
get_all_macs() (in module cadbiom_cmd.tools.solutions)
get_basal_activated_genes() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_center_loc_coord() (cadbiom.models.guard_transitions.chart_model.CInputNode method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
get_coordinates() (cadbiom.models.guard_transitions.chart_model.CNode method)
get_dimacs_start_properties() (in module cadbiom_cmd.solution_search)
get_em_with_model_name() (cadbiom_gui.gt_gui.charter.Charter method)
get_emvc_with_view() (cadbiom_gui.gt_gui.charter.Charter method)
get_existing_attributes() (cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
get_fact_ids() (cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
get_frame() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
get_frontier_node_names() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
(cadbiom_gui.gt_gui.chart_misc_widgets.SearchFrontier method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ToggleFrontier method)
get_frontier_places() (in module cadbiom_cmd.tools.models)
get_frontier_scc() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_gene_places() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_influenced_transition() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
get_influencing_places() (cadbiom.models.guard_transitions.chart_model.CTransition method)
get_json_graph() (in module cadbiom_cmd.tools.graphs)
get_key() (cadbiom.models.guard_transitions.chart_model.CTransition method)
get_local_neighbors() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_mac_lines() (in module cadbiom_cmd.tools.solutions)
get_matching_node_names() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
get_model_identifier_mapping() (in module cadbiom_cmd.tools.models)
get_node() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom_gui.gt_gui.chart_controler.ChartClipboard method)
get_pair_values() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
get_places_data() (in module cadbiom_cmd.tools.models)
get_places_from_condition() (in module cadbiom_cmd.tools.models)
get_predecessors() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_query_from_filename() (in module cadbiom_cmd.tools.solutions)
get_root() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
get_selected_items() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ToggleWholeModel method)
(cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
get_selected_or_matching_node_names() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
get_signals() (cadbiom.models.biosignal.sig_expr.SigBinExpr method)
(cadbiom.models.biosignal.sig_expr.SigBotExpr method)
(cadbiom.models.biosignal.sig_expr.SigConstExpr method)
(cadbiom.models.biosignal.sig_expr.SigEventExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
(cadbiom.models.biosignal.sig_expr.SigIdentExpr method)
(cadbiom.models.biosignal.sig_expr.SigNotExpr method)
get_simple_node() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
get_simple_node_names() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
get_solution_graphs() (in module cadbiom_cmd.solution_sort)
get_solutions() (in module cadbiom_cmd.tools.solutions)
get_solutions_and_related_places() (in module cadbiom_cmd.interaction_graph)
get_solutions_and_related_places_from_file() (in module cadbiom_cmd.interaction_graph)
get_solutions_graph_data() (in module cadbiom_cmd.tools.graphs)
get_statistics() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_stats_entities_data() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_stats_model_data() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_stats_model_structure_data() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_step() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
get_successors() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_symb_tab() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
get_system_var_number() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
get_text() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
(cadbiom_gui.gt_gui.utils.text_page.TextPage method)
get_tr_principal_variables() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
get_transitions() (in module cadbiom_cmd.tools.models)
get_transitions_from_model_file() (in module cadbiom_cmd.tools.models)
get_ultimate_signals() (cadbiom.models.biosignal.sig_expr.SigBinExpr method)
(cadbiom.models.biosignal.sig_expr.SigEventExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
(cadbiom.models.biosignal.sig_expr.SigIdentExpr method)
(cadbiom.models.biosignal.sig_expr.SigNotExpr method)
get_unique_dimacs_front_sols_from_raw_sols() (cadbiom.models.clause_constraints.mcl.MCLSolutions.DimacsFrontierSol class method)
get_unshift_code() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
get_var_indexed_name() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
get_var_name() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
(cadbiom.models.clause_constraints.mcl.MCLSolutions.DimacsFrontierSol method)
(cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
get_var_number() (cadbiom.models.clause_constraints.CLDynSys.CLDynSys method)
(cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
get_why_basal_genes() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
graph_isomorph_test() (in module cadbiom_cmd.models)
H
has_element() (cadbiom_gui.gt_gui.chart_controler.ChartClipboard method)
has_input() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
has_macro() (cadbiom_gui.gt_gui.chart_controler.ChartClipboard method)
has_transition() (cadbiom_gui.gt_gui.charter_info.CharterInfo method)
(cadbiom_gui.gt_gui.charter_info.Info method)
(cadbiom_gui.gt_gui.charter_info.TransInfo method)
hide() (cadbiom_gui.gt_gui.charter.Charter method)
I
ic_sequence (cadbiom.models.clause_constraints.mcl.MCLSolutions.DimacsFrontierSol attribute)
import_BioPAX_data() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
import_from_cadlang_file() (cadbiom_gui.gt_gui.charter.Charter method)
import_from_pid_file() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
import_from_pint_file() (cadbiom_gui.gt_gui.charter.Charter method)
import_from_xml() (cadbiom_gui.gt_gui.charter.Charter method)
import_from_xml_file() (cadbiom_gui.gt_gui.charter.Charter method)
ImportBioPAXParams (class in cadbiom_gui.gt_gui.chart_misc_widgets)
ImportPIDParam (class in cadbiom_gui.gt_gui.chart_misc_widgets)
in_degree_cut_off() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
IndirectFlowGraphBuilder (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
Info (class in cadbiom_gui.gt_gui.charter_info)
InhibWindow (class in cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
init_backward_unfolding() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
init_desactivate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
init_forward_unfolding() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
init_forward_unfolding_part_1() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_forward_unfolding_part_2() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_forward_unfolding_solution_1() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_forward_unfolding_solution_2() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_forward_unfolding_solution_3() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_forward_unfolding_solution_4() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
init_node_functions() (cadbiom.models.guard_transitions.translators.chart_xml.MakeHandler method)
init_with_query() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
initial_constraints (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
input_activate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputPlace method)
input_desactivate() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputPlace method)
input_perm_name() (in module cadbiom.models.guard_transitions.simulator.translators.gt_visitors)
input_trans_name() (in module cadbiom.models.guard_transitions.simulator.translators.gt_visitors)
InputEvent (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
InputPlace (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
inputs (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
insert_at_end() (cadbiom_gui.gt_gui.utils.text_page.TextPage method)
intersect() (cadbiom.models.guard_transitions.chart_model.CInputNode method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
intersect_simple() (in module cadbiom.models.guard_transitions.chart_model)
invariant_constraints (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
is_bot() (cadbiom.models.biosignal.sig_expr.SigBotExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
is_clock() (cadbiom.models.biosignal.sig_expr.SigConstExpr method)
(cadbiom.models.biosignal.sig_expr.SigDefaultExpr method)
(cadbiom.models.biosignal.sig_expr.SigDiffExpr method)
(cadbiom.models.biosignal.sig_expr.SigEqualExpr method)
(cadbiom.models.biosignal.sig_expr.SigEventExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
(cadbiom.models.biosignal.sig_expr.SigIdentExpr method)
(cadbiom.models.biosignal.sig_expr.SigNotExpr method)
(cadbiom.models.biosignal.sig_expr.SigSyncBinExpr method)
(cadbiom.models.biosignal.sig_expr.SigWhenExpr method)
is_const() (cadbiom.models.biosignal.sig_expr.SigConstExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
is_const_false() (cadbiom.models.biosignal.sig_expr.SigConstExpr method)
(cadbiom.models.biosignal.sig_expr.SigExpression method)
is_for_extremity() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
is_for_origin() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
is_frontier() (cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
is_ident() (cadbiom.models.biosignal.sig_expr.SigExpression method)
(cadbiom.models.biosignal.sig_expr.SigIdentExpr method)
is_input() (cadbiom.models.guard_transitions.chart_model.CNode method)
is_input_event() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.Event method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputEvent method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
is_input_place() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputPlace method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
is_macro() (cadbiom.models.guard_transitions.chart_model.CNode method)
is_me() (cadbiom.models.guard_transitions.chart_model.CTransition method)
is_modified() (cadbiom_gui.gt_gui.utils.text_page.TextPage method)
is_perm() (cadbiom.models.guard_transitions.chart_model.CNode method)
is_place() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.Event method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
is_simple() (cadbiom.models.guard_transitions.chart_model.CNode method)
is_start() (cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
is_strong_activator() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
is_strong_inhibitor() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
is_submodel() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
is_top_node() (cadbiom.models.guard_transitions.chart_model.CNode method)
is_trap() (cadbiom.models.guard_transitions.chart_model.CNode method)
J
json_2_interaction_graph() (in module cadbiom_cmd.interaction_graph)
L
LayoutVisitor (class in cadbiom_gui.gt_gui.layout)
LegendWindow (class in cadbiom_gui.gt_gui.chart_misc_widgets)
less_activated_solution() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
lit_not() (cadbiom.models.clause_constraints.CLDynSys.Literal method)
lit_sol_equal() (in module cadbiom.models.clause_constraints.mcl.TestMCLAnalyser)
lit_subsol_equal() (in module cadbiom.models.clause_constraints.mcl.TestMCLAnalyser)
Literal (class in cadbiom.models.clause_constraints.CLDynSys)
load_init_file() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
load_solutions() (in module cadbiom_cmd.tools.solutions)
location_converter() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
log_level() (in module cadbiom.commons)
logger() (in module cadbiom.commons)
logical_and() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
(in module cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
logical_operator() (in module cadbiom_cmd.solution_search)
logical_or() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
loop() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
low_graph_info() (in module cadbiom_cmd.models)
low_model_info() (in module cadbiom_cmd.models)
M
mac_inhibitor_search() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
mac_search() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
make_dependence_dg() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
make_dict() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
make_full_dependence_dg() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
make_logical_formula() (in module cadbiom_cmd.solution_search)
make_mev_dict() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
make_name() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
make_new_name() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
make_new_node() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
make_submodel() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
make_transition() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
make_transition_dg() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
MakeHandler (class in cadbiom.models.guard_transitions.translators.chart_xml)
MakeModelFromPidFile (class in cadbiom.models.guard_transitions.translators.chart_xml_pid)
MakeModelFromXmlFile (class in cadbiom.models.guard_transitions.translators.chart_xml)
MakeModelFromXmlString (class in cadbiom.models.guard_transitions.translators.chart_xml)
mark_as_frontier() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
MCLAnalyser (class in cadbiom.models.clause_constraints.mcl.MCLAnalyser)
MCLException
MCLSimpleQuery (class in cadbiom.models.clause_constraints.mcl.MCLQuery)
menuitem_response() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
merge() (cadbiom.models.clause_constraints.mcl.MCLQuery.MCLSimpleQuery method)
(cadbiom.models.guard_transitions.translators.chart_xml_pid.MEvent method)
merge_graphs() (in module cadbiom_cmd.tools.graphs)
merge_macs_to_csv() (in module cadbiom_cmd.solution_merge)
MEvent (class in cadbiom.models.guard_transitions.translators.chart_xml_pid)
model (cadbiom.models.guard_transitions.translators.chart_xml.MakeModelFromXmlFile attribute)
(cadbiom.models.guard_transitions.translators.chart_xml.MakeModelFromXmlString attribute)
model1() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
model2() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
model3() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
model4() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
model_graph() (in module cadbiom_cmd.models)
model_identifier_mapping() (in module cadbiom_cmd.models)
model_info() (in module cadbiom_cmd.models)
ModelInfo (class in cadbiom_gui.gt_gui.charter_info)
move() (cadbiom.models.guard_transitions.chart_model.CInputNode method)
(cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CStartNode method)
N
NavControler (class in cadbiom_gui.gt_gui.chart_controler)
NavDrawing (class in cadbiom_gui.gt_gui.graphics.drawing_style)
NavView (class in cadbiom_gui.gt_gui.chart_view)
nb_timed() (cadbiom.models.clause_constraints.mcl.MCLSolutions.DimacsFrontierSol method)
new_charts() (cadbiom_gui.gt_gui.charter.Charter method)
new_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
new_transition() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
next_inhibitor() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
next_mac() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
no_clock_trans() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
NodeInfo (class in cadbiom_gui.gt_gui.charter_info)
nodes_names_generator() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
notify() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
(cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
(cadbiom_gui.gt_gui.chart_view.ChartPage method)
numeric_properties() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
O
occurrence_matrix() (in module cadbiom_cmd.solution_sort)
ok_new_text() (cadbiom_gui.gt_gui.charter.Charter method)
ok_warn() (in module cadbiom_gui.gt_gui.utils.warn)
on_b_gene() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
on_basal_activated_genes() (cadbiom_gui.gt_gui.charter.Charter method)
on_button_press() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
(cadbiom_gui.gt_gui.chart_view.ChartView method)
on_button_release() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
on_button_scroll_event() (cadbiom_gui.gt_gui.charter.Charter method)
on_check() (cadbiom_gui.gt_gui.charter.Charter method)
on_chrono() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_clear() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
on_command_line_doc_menu() (cadbiom_gui.gt_gui.charter.Charter method)
on_cond() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
on_configure_event() (cadbiom_gui.gt_gui.chart_view.ChartView method)
(cadbiom_gui.gt_gui.chart_view.NavView method)
on_delay() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_delete_tab_callback() (cadbiom_gui.gt_gui.charter.Charter method)
on_dependency_graph() (cadbiom_gui.gt_gui.charter.Charter method)
on_depgraph() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
on_deselect() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
on_destroy() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
(cadbiom_gui.gt_gui.chart_misc_widgets.LegendWindow method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.DependencyGraphWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.charter.Charter method)
(cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
on_display_states() (cadbiom_gui.gt_gui.charter.Charter method)
on_edit_constraints() (cadbiom_gui.gt_gui.charter.Charter method)
on_entry_changed() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
on_escape() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.ChartChecker method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
(cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
(cadbiom_gui.gt_gui.chart_misc_widgets.LegendWindow method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.charter_info.Info method)
on_expose_event() (cadbiom_gui.gt_gui.chart_view.ChartView method)
(cadbiom_gui.gt_gui.chart_view.NavView method)
on_extract() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_frontier() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
on_frontier_scc() (cadbiom_gui.gt_gui.charter.Charter method)
on_gui_doc_menu() (cadbiom_gui.gt_gui.charter.Charter method)
on_import() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportPIDParam method)
on_import_blacklist_file() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
on_inhib() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
on_init() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_input_file_selected() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_key_pressed() (cadbiom_gui.gt_gui.charter.Charter method)
on_load() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
on_mac() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
on_motion_notify() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
on_new() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
on_open() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
on_reload() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_save() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
on_save_as() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
on_save_dot() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.DependencyGraphWindow method)
on_save_graphml() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.DependencyGraphWindow method)
on_select() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
on_select_front() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_select_whole() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_set_output_file() (cadbiom_gui.gt_gui.chart_misc_widgets.ImportBioPAXParams method)
on_show() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
on_show_doc() (cadbiom_gui.gt_gui.charter.Charter method)
on_show_legend() (cadbiom_gui.gt_gui.charter.Charter method)
on_simul() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
on_simulate() (cadbiom_gui.gt_gui.charter.Charter method)
on_solutions() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
on_start() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_stat() (cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
on_stats_info() (cadbiom_gui.gt_gui.charter.Charter method)
on_step_simul() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
on_update() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
on_validate() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
on_workflow_doc_menu() (cadbiom_gui.gt_gui.charter.Charter method)
on_yn() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
on_zoom_minus() (cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
on_zoom_plus() (cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
open_dataframe() (in module cadbiom_cmd.queries_2_clustermap)
open_macro() (cadbiom_gui.gt_gui.charter.Charter method)
opposite() (cadbiom.models.clause_constraints.CLDynSys.Literal method)
out_degree_cut_off() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
P
parse_condition() (cadbiom.models.guard_transitions.chart_model.CTransition method)
(in module cadbiom_cmd.tools.models)
payload() (in module cadbiom_cmd.queries_2_clustermap)
Place (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
PlainDrawing (class in cadbiom_gui.gt_gui.graphics.drawing_style)
PropertyVisitor (class in cadbiom.models.clause_constraints.mcl.CLUnfolder)
(class in cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
ptm_converter() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
put_node() (cadbiom_gui.gt_gui.chart_controler.ChartClipboard method)
Q
queries_2_clustermap() (in module cadbiom_cmd.queries_2_clustermap)
queries_2_common_graph() (in module cadbiom_cmd.solution_sort)
queries_2_json() (in module cadbiom_cmd.solution_sort)
queries_2_occcurrence_matrix() (in module cadbiom_cmd.solution_sort)
QueryCheckingForm (class in cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
R
RawSolution (class in cadbiom.models.clause_constraints.mcl.MCLSolutions)
rb_callback() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.DependencyGraphWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
read_mac_file() (in module cadbiom_cmd.solution_search)
refresh() (cadbiom_gui.gt_gui.charter.Charter method)
(cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
refresh_config() (cadbiom_gui.gt_gui.utils.text_page.TextArea method)
(cadbiom_gui.gt_gui.utils.text_page.TextPage method)
remove() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom.models.guard_transitions.chart_model.CTransition method)
remove_node_or_transition() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
remove_nodes_in_list() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
remove_nodes_not_in_list() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
Reporter (class in cadbiom.models.guard_transitions.analyser.TestStaticAnalysis)
(class in cadbiom.models.guard_transitions.TestModelExtraction)
reset() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
(cadbiom_gui.gt_gui.utils.reporter.CompilReporter method)
resize() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
return_xml() (cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
S
save() (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution method)
save_choice() (cadbiom_gui.gt_gui.charter.Charter method)
save_constraints() (cadbiom_gui.gt_gui.charter.Charter method)
save_note() (cadbiom_gui.gt_gui.charter_info.Info method)
(cadbiom_gui.gt_gui.charter_info.TransInfo method)
save_solutions_to_graphs() (in module cadbiom_cmd.solution_sort)
SCCWindow (class in cadbiom_gui.gt_gui.chart_static.chart_stat_controler)
scroll_update() (cadbiom_gui.gt_gui.chart_view.NavView method)
search_entry_point() (in module cadbiom_cmd.solution_search)
SearchFrontier (class in cadbiom_gui.gt_gui.chart_misc_widgets)
SearchManager (class in cadbiom_gui.gt_gui.chart_misc_widgets)
select_all() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
SelectPlaceWindow (class in cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler)
self_to_virtual_frame() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
set_act_file_input_stream() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_act_input_stream() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_action() (cadbiom.models.guard_transitions.chart_model.CTransition method)
set_action_new_input_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_macro_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_perm_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_simple_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_start_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_transition() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_new_trap_node() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_action_select() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_activated() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.Event method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.InputEvent method)
set_cfile_input_stream() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_clock() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MEvent method)
set_condition() (cadbiom.models.guard_transitions.chart_model.CTransition method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
set_context() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.ErrorReporter method)
(cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.ErrorRep method)
(cadbiom_gui.gt_gui.utils.reporter.CompilReporter method)
set_controler() (cadbiom_gui.gt_gui.charter_info.CharterInfo method)
set_current_edit_mvc() (cadbiom_gui.gt_gui.charter.Charter method)
set_event() (cadbiom.models.guard_transitions.chart_model.CTransition method)
(cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
set_include_aux_clauses() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
set_input_file() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.ChartSimulControler method)
set_invariant_prop() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_layout_coordinates() (cadbiom.models.guard_transitions.chart_model.CNode method)
set_list_pairs() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
set_list_select() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
set_model() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
(cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
(cadbiom_gui.gt_gui.charter_info.ModelInfo method)
set_mouse_role() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
set_name() (cadbiom.models.guard_transitions.chart_model.CNode method)
(cadbiom.models.guard_transitions.chart_model.CSimpleNode method)
(cadbiom.models.guard_transitions.chart_model.CTransition method)
set_node() (cadbiom_gui.gt_gui.charter_info.NodeInfo method)
set_note() (cadbiom.models.guard_transitions.chart_model.CTransition method)
(cadbiom_gui.gt_gui.charter_info.NodeInfo method)
(cadbiom_gui.gt_gui.charter_info.TransInfo method)
set_perm() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.Place method)
set_places() (cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler.SelectPlaceWindow method)
set_reachable_prop() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_sce_file_input_stream() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
set_search_mark() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
set_selected_items() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
set_signal() (cadbiom.models.guard_transitions.simulator.chart_simul_elem.STransition method)
set_stats() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
set_text() (cadbiom_gui.gt_gui.utils.text_page.BioSignalEditor method)
(cadbiom_gui.gt_gui.utils.text_page.TextPage method)
set_trans() (cadbiom_gui.gt_gui.charter_info.TransInfo method)
set_view() (cadbiom_gui.gt_gui.chart_controler.ChartControler method)
(cadbiom_gui.gt_gui.chart_controler.NavControler method)
shift() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
shift_direction (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
shift_step (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
show() (cadbiom_gui.gt_gui.charter.Charter method)
SigBinExpr (class in cadbiom.models.biosignal.sig_expr)
SigBotExpr (class in cadbiom.models.biosignal.sig_expr)
SigConstExpr (class in cadbiom.models.biosignal.sig_expr)
SigConstraintExpr (class in cadbiom.models.biosignal.sig_expr)
SigDefaultExpr (class in cadbiom.models.biosignal.sig_expr)
SigDiffExpr (class in cadbiom.models.biosignal.sig_expr)
SigEqualExpr (class in cadbiom.models.biosignal.sig_expr)
SigEventExpr (class in cadbiom.models.biosignal.sig_expr)
SigExpIdCollectVisitor (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
SigExpression (class in cadbiom.models.biosignal.sig_expr)
SigIdentExpr (class in cadbiom.models.biosignal.sig_expr)
SigNotExpr (class in cadbiom.models.biosignal.sig_expr)
SigSyncBinExpr (class in cadbiom.models.biosignal.sig_expr)
SigWhenExpr (class in cadbiom.models.biosignal.sig_expr)
SimpleErrorReporter (class in cadbiom_gui.gt_gui.utils.reporter)
SimReport (class in cadbiom.models.guard_transitions.simulator.chart_simul)
simul_init() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
simul_init_places() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
simul_step() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
simul_step_trace() (cadbiom.models.guard_transitions.simulator.chart_simul.ChartSimulator method)
solutions_2_graphs() (in module cadbiom_cmd.solution_sort)
solutions_search() (in module cadbiom_cmd.solution_search)
solutions_sort() (in module cadbiom_cmd.solution_sort)
SolutionWindow (class in cadbiom_gui.gt_gui.chart_checker.chart_checker_controler)
sort_solutions_in_file() (in module cadbiom_cmd.solution_sort)
sorted_activated_frontier (cadbiom.models.clause_constraints.mcl.MCLSolutions.FrontierSolution attribute)
sq_frontier_solutions() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
sq_is_satisfiable() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
sq_solutions() (cadbiom.models.clause_constraints.mcl.MCLAnalyser.MCLAnalyser method)
squery_is_satisfied() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
squery_solve() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
start_warn() (in module cadbiom_gui.gt_gui.utils.warn)
startElement() (cadbiom.models.guard_transitions.translators.chart_xml.MakeHandler method)
stat_on_dgraph() (in module cadbiom.models.guard_transitions.analyser.static_analysis)
stat_on_graph() (in module cadbiom.models.guard_transitions.analyser.static_analysis)
StaticAnalyzer (class in cadbiom.models.guard_transitions.analyser.static_analysis)
stats() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
STATWindow (class in cadbiom_gui.gt_gui.chart_static.chart_stat_controler)
STransition (class in cadbiom.models.guard_transitions.simulator.chart_simul_elem)
string_to_clause() (cadbiom.models.clause_constraints.CLDynSys.Clause class method)
switch_graph_page_callback() (cadbiom_gui.gt_gui.charter.Charter method)
switch_to() (cadbiom_gui.gt_gui.charter_info.CharterInfo method)
system_warn() (in module cadbiom_gui.gt_gui.utils.warn)
T
TableVisitor (class in cadbiom.models.guard_transitions.analyser.ana_visitors)
tag
test_antlr_optimization() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestFull method)
test_bin1() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_bin2() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_bin3() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_bin4() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_cadbiom_2_graphml() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_cond() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_cond_event() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_constraints() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestFull method)
test_cse1() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_cse2() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_delay1() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_delay1_w_ic() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_dimacs_frontier_ban() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_exec1() (cadbiom.models.guard_transitions.TestModelExtraction.TestExtractVisitors method)
test_exec2() (cadbiom.models.guard_transitions.TestModelExtraction.TestExtractVisitors method)
test_free_clocks_inputs() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.TestCLUnfolder method)
test_frontier() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.TestCLUnfolder method)
(cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestAnaVisitors method)
test_frontier1() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_frontier1_no_clock() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_frontier2() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_gene_signal_dependent() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_get_pred_and_succ() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_get_tr_node_variables() (cadbiom.models.guard_transitions.analyser.static_analysis.StaticAnalyzer method)
(cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_ident1() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestMCLSigExprVisitor method)
test_init_forward_unfolding_solution_1_dimacs() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_1_text() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_2_dimacs() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_2_text() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_3() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_4() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_solution_5() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_init_forward_unfolding_variant_constraints() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_input1() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_input_cond_event() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_lit_sol_equal() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_load1() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_load2() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_load3() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_mac_clock() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_mac_delay_save() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_mac_inhibitor() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_mac_no_clock() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_mcl_query_merge() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_model1() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestFull method)
test_model2() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestFull method)
test_model3() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestFull method)
test_no_cond() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_event() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_event_default() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_event_when1() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_event_when2() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_event_when3() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_no_cond_on_out2events() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
test_ordering_pred() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_perm_cond_event() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_perm_no_cond_event() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionClauses method)
test_pred_dependence_graph() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_pred_graph_extraction() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_principal_variables() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_shift() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
test_signal_gene_influent() (cadbiom.models.guard_transitions.analyser.TestStaticAnalysis.TestStaticAnalysis method)
test_simple() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
test_simple_in_no_out() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
test_simple_no_trans() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
test_simple_out_no_in() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
test_solution_pruning() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_unflatten() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_valid_simul_delay() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_valid_simul_input() (cadbiom.models.clause_constraints.mcl.TestMCLAnalyser.TestMCLAnaLyzer method)
test_var_name() (cadbiom.models.clause_constraints.mcl.TestCLUnfolder.TestCLUnfolder method)
test_very_simple() (cadbiom.models.clause_constraints.mcl.TestMCLTranslators.TestTransitionList method)
TestAnaVisitors (class in cadbiom.models.guard_transitions.analyser.TestStaticAnalysis)
TestCLUnfolder (class in cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
TestExtractVisitors (class in cadbiom.models.guard_transitions.TestModelExtraction)
TestFull (class in cadbiom.models.clause_constraints.mcl.TestMCLTranslators)
TestMCLAnaLyzer (class in cadbiom.models.clause_constraints.mcl.TestMCLAnalyser)
TestMCLSigExprVisitor (class in cadbiom.models.clause_constraints.mcl.TestMCLTranslators)
TestStaticAnalysis (class in cadbiom.models.guard_transitions.analyser.TestStaticAnalysis)
TestTransitionClauses (class in cadbiom.models.clause_constraints.mcl.TestMCLTranslators)
TestTransitionList (class in cadbiom.models.clause_constraints.mcl.TestMCLTranslators)
TextArea (class in cadbiom_gui.gt_gui.utils.text_page)
TextEditConfig (class in cadbiom_gui.gt_gui.utils.text_page)
TextPage (class in cadbiom_gui.gt_gui.utils.text_page)
textual_properties() (in module cadbiom.models.clause_constraints.mcl.TestCLUnfolder)
throught_component() (cadbiom.models.guard_transitions.translators.chart_xml_pid.MakeModelFromPidFile method)
toggled_col1_callback() (cadbiom_gui.gt_gui.utils.listDisplay.ToggleList method)
ToggleFrontier (class in cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler)
ToggleList (class in cadbiom_gui.gt_gui.utils.listDisplay)
ToggleWholeModel (class in cadbiom_gui.gt_gui.chart_simulator.chart_simul_controler)
TransInfo (class in cadbiom_gui.gt_gui.charter_info)
transitions (cadbiom.models.guard_transitions.chart_model.CMacroNode attribute)
transpose_csv() (in module cadbiom_cmd.solution_sort)
turn_into_input() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
turn_into_perm() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
U
unflatten() (cadbiom.models.clause_constraints.mcl.MCLSolutions.RawSolution method)
unmark_nodes_and_transitions() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
unset_search_mark() (cadbiom.models.guard_transitions.chart_model.ChartModel method)
unset_stats() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
update() (cadbiom_gui.gt_gui.chart_misc_widgets.SearchManager method)
(cadbiom_gui.gt_gui.chart_view.ChartPage method)
(cadbiom_gui.gt_gui.chart_view.ChartView method)
(cadbiom_gui.gt_gui.chart_view.NavView method)
(cadbiom_gui.gt_gui.charter.Charter method)
(cadbiom_gui.gt_gui.charter_info.CharterInfo method)
(cadbiom_gui.gt_gui.charter_info.Info method)
(cadbiom_gui.gt_gui.charter_info.ModelInfo method)
(cadbiom_gui.gt_gui.charter_info.NodeInfo method)
(cadbiom_gui.gt_gui.charter_info.TransInfo method)
(cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
V
v_affinity_coef() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
var_dimacs_code() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
var_names_in_clause() (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder method)
variant_constraints (cadbiom.models.clause_constraints.mcl.CLUnfolder.CLUnfolder attribute)
view_graph() (in module cadbiom.models.guard_transitions.analyser.static_analysis)
view_weighted_graph() (in module cadbiom.models.guard_transitions.analyser.static_analysis)
virt_to_self_frame() (cadbiom.models.guard_transitions.chart_model.CMacroNode method)
visit_chart_model() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_cinput_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_cmacro_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_cperm_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_csimple_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_cstart_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_ctop_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_ctransition() (cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_ctrap_node() (cadbiom.models.guard_transitions.analyser.ana_visitors.DirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.FrontierVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.IndirectFlowGraphBuilder method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.TableVisitor method)
(cadbiom.models.guard_transitions.simulator.translators.gt_visitors.GenSimVisitor method)
(cadbiom.models.guard_transitions.translators.chart_xml.XmlVisitor method)
(cadbiom_gui.gt_gui.graphics.drawing_style.DrawingStyle method)
(cadbiom_gui.gt_gui.graphics.drawing_style.NavDrawing method)
(cadbiom_gui.gt_gui.layout.LayoutVisitor method)
visit_sig_const() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
visit_sig_default() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
visit_sig_equal() (cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
visit_sig_ident() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.PropertyVisitor method)
visit_sig_not() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.PropertyVisitor method)
visit_sig_sync() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.PropertyVisitor method)
visit_sig_when() (cadbiom.models.clause_constraints.mcl.CLUnfolder.PropertyVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.EstimExpVisitor method)
(cadbiom.models.guard_transitions.analyser.ana_visitors.SigExpIdCollectVisitor method)
W
warn_change() (cadbiom_gui.gt_gui.charter_info.Info method)
(cadbiom_gui.gt_gui.charter_info.TransInfo method)
when_clock() (in module cadbiom.models.guard_transitions.translators.chart_xml_pid)
win_register() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.charter.Charter method)
(cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
win_remove() (cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.QueryCheckingForm method)
(cadbiom_gui.gt_gui.chart_checker.chart_checker_controler.SolutionWindow method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.ChartStatControler method)
(cadbiom_gui.gt_gui.chart_static.chart_stat_controler.SCCWindow method)
(cadbiom_gui.gt_gui.charter.Charter method)
(cadbiom_gui.gt_gui.edit_mvc.EditMVC method)
write_json() (in module cadbiom_cmd.solution_sort)
write_matrix() (in module cadbiom_cmd.queries_2_clustermap)
X
XmlVisitor (class in cadbiom.models.guard_transitions.translators.chart_xml)
Z
zoom_minus() (cadbiom_gui.gt_gui.chart_view.ChartView method)
zoom_plus() (cadbiom_gui.gt_gui.chart_view.ChartView method)