Steady State (analysis) - Revision history

WikiBot: Automatic synchronization with BioUML

2020-12-09T11:14:51Z

Automatic synchronization with BioUML

WikiBot: Automatic synchronization with BioUML

2019-03-12T09:32:44Z

Automatic synchronization with BioUML

WikiBot: Automatic synchronization with BioUML

2017-02-13T12:00:33Z

Automatic synchronization with BioUML

WikiBot: Automatic synchronization with BioUML

2015-08-25T05:20:26Z

Automatic synchronization with BioUML

WikiBot: Automatic synchronization with BioUML

2014-12-11T09:17:40Z

Automatic synchronization with BioUML

WikiBot: Default analysis icon as separate file

2013-06-14T11:07:37Z

Default analysis icon as separate file

WikiBot: Class name added

2013-05-31T04:14:25Z

Class name added

WikiBot: Mistaken file names update reverted

2013-05-16T05:40:45Z

Mistaken file names update reverted

WikiBot: Automatic synchronization with BioUML

2013-05-16T05:32:45Z

Automatic synchronization with BioUML

WikiBot: Link to plugin page

2013-05-07T03:51:08Z

Link to plugin page

@@ Line 1: / Line 1: @@
 ;Analysis title
-:[[File:DAE-models-Steady-State-icon.png]] Steady State
+:[[File:Differential-algebraic-equations-Steady-State-icon.png]] Steady State
 ;Provider
 :[[Institute of Systems Biology]]
@@ Line 26: / Line 26: @@
 * '''Start time''' (expert) – Start time for steady state detection.
 * '''Simulation parameters''' (expert) – Simulation parameters.
-** '''Engine type''' – Engine type.
+** '''Selected engine''' – Selected simulation engine.
-** '''Engine options''' – Engine options.
+** '''Java simulation engine''' – Deterministic simulation engine to solve system of odinary differential equations.
 *** '''Initial time''' – Initial time.
 *** '''Completion time''' – Completion time.
@@ Line 44: / Line 44: @@
 **** '''Mu''' – Upper bandwidth of Banded Jacobian
 **** '''Ml''' – Lower bandwidth of Banded Jacobian
-**** '''Detect incorrect numbers (NaNs and Infs''' – If true then simulation will end when NaN or Infinity encountered
+**** '''Detect incorrect numbers (NaNs and Infs)''' – If true then simulation will end when NaN or Infinity encountered
 *** '''Code generation type''' – Type of code generation: if auto then BioUML will try to choose by itself.
 *** '''Constraints violation''' – How to handle constraints violation in the model.
@@ Line 56: / Line 56: @@
 [[Category:Analyses]]
-[[Category:DAE models (analyses group)]]
+[[Category:Differential algebraic equations (analyses group)]]
 [[Category:ISB analyses]]
 [[Category:Autogenerated pages]]

@@ Line 20: / Line 20: @@
 * '''Simulation result''' – Simulation result
 * '''Result table''' – Result table
-* '''Variable names''' – Variables which values will be used for steady state detection. If no variables selected then all variables will be used.
+* '''Stady state variables''' – Variables which values will be used for steady state detection. If no variables selected then all variables will be used.
 * '''Relative tolerance''' – Relative tolerance for steady state.
 * '''Absolute tolerance''' – Absolute tolerance for steady state.
@@ Line 46: / Line 46: @@
 **** '''Detect incorrect numbers (NaNs and Infs''' – If true then simulation will end when NaN or Infinity encountered
 *** '''Code generation type''' – Type of code generation: if auto then BioUML will try to choose by itself.
 *** '''Algebraic solver name''' – Name of algebraic solver which will be used
 *** '''Algebraic Solver parameters''' – Parameters of algebraic solver which will be used

@@ Line 1: / Line 1: @@
 ;Analysis title
-:[[File:Default-analysis-icon.png]] Steady State
+:[[File:DAE-models-Steady-State-icon.png]] Steady State
 ;Provider
 :[[Institute of Systems Biology]]
@@ Line 13: / Line 13: @@
 ==== Parameters: ====
-* '''Diagram''' – Diagram for analysis.
+* '''Input diagram''' – Input diagram.
-* '''Steady state name''' – Steady state name if empty - steady state parameters will be set to default state.
+* '''Input state''' – Input state
-* '''Result diagram''' – Diagram with steady state values.
+* '''Output type''' – Output type.
-* '''Variable names''' (expert) – Variables which values will be used for steady state detection. If no variables selected then all variables will be used
+* '''Result diagram''' – Result diagram.
-* '''Relative tolerance''' – Relative tolerance for the steady state checking.
+* '''State''' – Diagram state.
-* '''Absolute tolerance''' – Absolute tolerance for the steady state checking.
+* '''Simulation result''' – Simulation result
-* '''Validation series size''' (expert) – Size of parameters time series for steady state check.
+* '''Result table''' – Result table
-* '''Start search time''' (expert) – Time to start the steady state searching.
+* '''Variable names''' – Variables which values will be used for steady state detection. If no variables selected then all variables will be used.
-* '''Simulation options''' (expert) – Simulation engine, suitable for chosen diagram.
+* '''Relative tolerance''' – Relative tolerance for steady state.
 ** '''Engine type''' – Engine type.
 ** '''Engine options''' – Engine options.
@@ Line 31: / Line 35: @@
 **** '''Absolute tolerance''' – Absolute tolerance.
 **** '''Relative tolerance''' – Relative tolerance.
-**** '''Statistics mode''' – Statistics mode
+**** '''Statistics mode''' – Statistics mode.
 **** '''Integration method''' – Integration method (ADAMS or BDF)
 **** '''Inner linear solver type''' – Inner linear solver type
 **** '''Jacobian approximation type''' – Jacobian approximation type
 **** '''Steps limit''' – Limitation for solver steps count
-**** '''Minimum time step''' – minimum time step
+**** '''Minimum time step''' – Minimum time step.
-**** '''Maximum time step inversed''' – 1 / maximum time step
+**** '''Maximum time step inverted''' – 1 / maximum time step.
 **** '''Mu''' – Upper bandwidth of Banded Jacobian
 **** '''Ml''' – Lower bandwidth of Banded Jacobian
 *** '''Code generation type''' – Type of code generation: if auto then BioUML will try to choose by itself.
 [[Category:Analyses]]

@@ Line 9: / Line 9: @@
 ==== Description ====
-Model steady state finding.
+Find steady state by simuilating model until steady state.
 ==== Parameters: ====
@@ Line 40: / Line 40: @@
 **** '''Mu''' – Upper bandwidth of Banded Jacobian
 **** '''Ml''' – Lower bandwidth of Banded Jacobian
 [[Category:Analyses]]

@@ Line 27: / Line 27: @@
 *** '''Completion time''' – Completion time.
 *** '''Time increment''' – Time increment.
-*** '''Simulator name''' – Simulator name
+*** '''Simulator name''' – Simulator name.
-*** '''Simulator options''' – Simulator options
+*** '''Simulator options''' – Simulator options.
 **** '''Absolute tolerance''' – Absolute tolerance.
 **** '''Relative tolerance''' – Relative tolerance.

@@ Line 4: / Line 4: @@
 :[[Institute of Systems Biology]]
 ;Plugin
-:biouml.plugins.modelreduction (Model reduction plug-in)
+:[[Biouml.plugins.modelreduction (plugin)|biouml.plugins.modelreduction (Model reduction plug-in)]]
 ==== Description ====