Manual parameter fitting - Revision history

Akberdinir@gmail.com at 10:25, 18 March 2022

2022-03-18T10:25:51Z

Axec@dote.ru at 10:19, 18 March 2022

2022-03-18T10:19:11Z

Axec@dote.ru at 10:19, 18 March 2022

2022-03-18T10:19:04Z

Axec@dote.ru at 10:18, 18 March 2022

2022-03-18T10:18:57Z

Akberdinir@gmail.com at 10:01, 18 March 2022

2022-03-18T10:01:32Z

Axec@dote.ru at 09:51, 18 March 2022

2022-03-18T09:51:22Z

Axec@dote.ru at 09:50, 18 March 2022

2022-03-18T09:50:55Z

Axec@dote.ru at 09:50, 18 March 2022

2022-03-18T09:50:24Z

Axec@dote.ru at 09:50, 18 March 2022

2022-03-18T09:50:07Z

Axec@dote.ru at 09:48, 18 March 2022

2022-03-18T09:48:22Z

← Older revision		Revision as of 10:25, 18 March 2022
Line 5:		Line 5:


−	'''Important note:''' simulation document ~~will open~~ only if corresponding diagram is not currently open itself.	+	'''Important note:''' simulation document can be opened only if corresponding diagram is not currently open itself.

← Older revision		Revision as of 10:19, 18 March 2022
Line 3:		Line 3:

	To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.		To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.
		+

	'''Important note:''' simulation document will open only if corresponding diagram is not currently open itself.		'''Important note:''' simulation document will open only if corresponding diagram is not currently open itself.

← Older revision		Revision as of 10:19, 18 March 2022
Line 5:		Line 5:

	'''Important note:''' simulation document will open only if corresponding diagram is not currently open itself.		'''Important note:''' simulation document will open only if corresponding diagram is not currently open itself.
		+

	To work with manual fitting go to tab '''Simulation editor'''. Here we will use one of the example models for optimization which can be found [https://ict.biouml.org/bioumlweb/#de=data/Examples/Optimization/Data/Diagrams/diagram_1A here].		To work with manual fitting go to tab '''Simulation editor'''. Here we will use one of the example models for optimization which can be found [https://ict.biouml.org/bioumlweb/#de=data/Examples/Optimization/Data/Diagrams/diagram_1A here].

← Older revision		Revision as of 10:18, 18 March 2022
Line 3:		Line 3:

	To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.		To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.
		+
		+	'''Important note:''' simulation document will open only if corresponding diagram is not currently open itself.

	To work with manual fitting go to tab '''Simulation editor'''. Here we will use one of the example models for optimization which can be found [https://ict.biouml.org/bioumlweb/#de=data/Examples/Optimization/Data/Diagrams/diagram_1A here].		To work with manual fitting go to tab '''Simulation editor'''. Here we will use one of the example models for optimization which can be found [https://ict.biouml.org/bioumlweb/#de=data/Examples/Optimization/Data/Diagrams/diagram_1A here].

@@ Line 1: / Line 1: @@
 <font size=3>
-Manual parameter fitting is a tool providing user with convenient interface to manually tweak model parameters and observe changed simulation result.
+Manual parameter fitting is a tool providing a user the convenient interface to manually tweak model parameters and observe changed simulation result.
 To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.
@@ Line 15: / Line 15: @@
 </ul>
-Simulation result will be updated automatically.
+The simulation result will be updated automatically.
 <gallery>
@@ Line 26: / Line 26: @@
 Additional functional:
 User may also change '''Value''' or '''Step''' for any parameter in the table. After changing the value press '''Run simulation''' to update simulation result with new parameter values.
-Button '''Save parameters to diagram''' saves all changes to parameters to the diagram. It also updates default values to current values.
+Button '''Save parameters to diagram''' saves all changes to parameters to the diagram. It also updates default values to current parameter values.
 Button '''Reload parameters from diagram''' resets all changes made to parameters, also resets default values.

@@ Line 2: / Line 2: @@
 Manual parameter fitting is a tool providing user with convenient interface to manually tweak model parameters and observe changed simulation result.
-To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document also uses plot settings from the diagram. To learn how to change plot settings refer to [[Systems biology - model simulation]] page.
+To open this interface right click on diagram in repository tree and select '''New Simulation Document'''. Please note that opening of the document may take a while because it will simulate the model until completion time. Simulation document uses simulation and plot settings from the diagram. To learn how to change these settings refer to [[Systems biology - model simulation]] page.
 To work with manual fitting go to tab '''Simulation editor'''. Here we will use one of the example models for optimization which can be found [https://ict.biouml.org/bioumlweb/#de=data/Examples/Optimization/Data/Diagrams/diagram_1A here].

@@ Line 18: / Line 18: @@
 <gallery>
-File:manual_fitting_1.png|k11 = 0.01524.
+File:manual_fitting_1.png|<center>k11 = 0.01524.
-File:manual_fitting_2.png|k11 = 0.02024.
+File:manual_fitting_2.png|<center>k11 = 0.02024.
-File:manual_fitting_3.png|k11 = 0.02524.
+File:manual_fitting_3.png|<center>k11 = 0.02524.
-File:manual_fitting_4.png|k11 = 0.03024.
+File:manual_fitting_4.png|<center>k11 = 0.03024.
 </gallery>

@@ Line 18: / Line 18: @@
 <gallery>
-File:manual_fitting_1.png|'''Figure 1''': Manual fitting of parameter k12.
+File:manual_fitting_1.png|Manual fitting: k11 = 0.01524.
-File:manual_fitting_2.png|'''Figure 2''': Manual fitting of parameter k12.
+File:manual_fitting_2.png|Manual fitting: k11 = 0.02024.
-File:manual_fitting_3.png|'''Figure 3''': Manual fitting of parameter k12.
+File:manual_fitting_3.png|Manual fitting: k11 = 0.02524.
-File:manual_fitting_4.png|'''Figure 4''': Manual fitting of parameter k12.
+File:manual_fitting_4.png|Manual fitting: k11 = 0.03024.
 </gallery>