yeastnet / Discussion / Help: Can't load Yeast 7.6 in OptFlux

Hello,

I'm using OptFlux and trying to load the model as an SMBL level 3 and FBC file. However it dosn't work and return the following error:

Type of error: NullPointerException
Back trace:
pt.uminho.ceb.biosystems.mew.biocomponents.container.io.readers.JSBMLLevel3Reader.kinetic(JSBMLLevel3Reader.java:271)
pt.uminho.ceb.biosystems.mew.biocomponents.container.io.readers.JSBMLLevel3Reader.readReactions(JSBMLLevel3Reader.java:174)
pt.uminho.ceb.biosystems.mew.biocomponents.container.io.readers.JSBMLLevel3Reader.populateInformation(JSBMLLevel3Reader.java:106)
pt.uminho.ceb.biosystems.mew.biocomponents.container.io.readers.JSBMLLevel3Reader.<init>(JSBMLLevel3Reader.java:91)
pt.uminho.ceb.biosystems.mew.biocomponents.container.io.readers.JSBMLLevel3Reader.<init>(JSBMLLevel3Reader.java:80)
org.optflux.core.utils.iowizard.readers.OptFluxSBMLLevel3Reader.createContainer(OptFluxSBMLLevel3Reader.java:53)
org.optflux.core.utils.iowizard.readers.AbstractOptFluxReader.getContainer(AbstractOptFluxReader.java:277)
org.optflux.core.gui.wizards.newproject.descriptors.NewProjectStep2Descriptor.validConditions(NewProjectStep2Descriptor.java:120)
org.optflux.core.utils.wizard2.WizardController.nextButtonPressed(WizardController.java:67)
org.optflux.core.utils.wizard2.WizardController.actionPerformed(WizardController.java:50)
javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
javax.swing.DefaultButtonModel.setPressed(Unknown Source)
javax.swing.plaf.basic.BasicButtonListener.mouseReleased(Unknown Source)
java.awt.Component.processMouseEvent(Unknown Source)
javax.swing.JComponent.processMouseEvent(Unknown Source)
java.awt.Component.processEvent(Unknown Source)
java.awt.Container.processEvent(Unknown Source)
java.awt.Component.dispatchEventImpl(Unknown Source)
java.awt.Container.dispatchEventImpl(Unknown Source)
java.awt.Component.dispatchEvent(Unknown Source)
java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
java.awt.Container.dispatchEventImpl(Unknown Source)
java.awt.Window.dispatchEventImpl(Unknown Source)
java.awt.Component.dispatchEvent(Unknown Source)
java.awt.EventQueue.dispatchEventImpl(Unknown Source)
java.awt.EventQueue.access$200(Unknown Source)
java.awt.EventQueue$3.run(Unknown Source)
java.awt.EventQueue$3.run(Unknown Source)
java.security.AccessController.doPrivileged(Native Method)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.awt.EventQueue$4.run(Unknown Source)
java.awt.EventQueue$4.run(Unknown Source)
java.security.AccessController.doPrivileged(Native Method)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.awt.EventQueue.dispatchEvent(Unknown Source)
java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
java.awt.WaitDispatchSupport$2.run(Unknown Source)
java.awt.WaitDispatchSupport$4.run(Unknown Source)
java.security.AccessController.doPrivileged(Native Method)
java.awt.WaitDispatchSupport.enter(Unknown Source)
java.awt.Dialog.show(Unknown Source)
java.awt.Component.show(Unknown Source)
java.awt.Component.setVisible(Unknown Source)
java.awt.Window.setVisible(Unknown Source)
java.awt.Dialog.setVisible(Unknown Source)
org.optflux.core.utils.wizard2.Wizard.showDialog(Wizard.java:107)
org.optflux.core.gui.wizards.newproject.NewProjectWizard.init(NewProjectWizard.java:71)
es.uvigo.ei.aibench.workbench.Workbench.executeOperation(Workbench.java:1088)
es.uvigo.ei.aibench.workbench.Workbench.executeOperation(Workbench.java:956)
es.uvigo.ei.aibench.workbench.OperationWrapper.actionPerformed(OperationWrapper.java:66)
javax.swing.AbstractButton.fireActionPerformed(Unknown Source)
javax.swing.AbstractButton$Handler.actionPerformed(Unknown Source)
javax.swing.DefaultButtonModel.fireActionPerformed(Unknown Source)
javax.swing.DefaultButtonModel.setPressed(Unknown Source)
javax.swing.AbstractButton.doClick(Unknown Source)
javax.swing.plaf.basic.BasicMenuItemUI.doClick(Unknown Source)
javax.swing.plaf.basic.BasicMenuItemUI$Handler.mouseReleased(Unknown Source)
java.awt.Component.processMouseEvent(Unknown Source)
javax.swing.JComponent.processMouseEvent(Unknown Source)
java.awt.Component.processEvent(Unknown Source)
java.awt.Container.processEvent(Unknown Source)
java.awt.Component.dispatchEventImpl(Unknown Source)
java.awt.Container.dispatchEventImpl(Unknown Source)
java.awt.Component.dispatchEvent(Unknown Source)
java.awt.LightweightDispatcher.retargetMouseEvent(Unknown Source)
java.awt.LightweightDispatcher.processMouseEvent(Unknown Source)
java.awt.LightweightDispatcher.dispatchEvent(Unknown Source)
java.awt.Container.dispatchEventImpl(Unknown Source)
java.awt.Window.dispatchEventImpl(Unknown Source)
java.awt.Component.dispatchEvent(Unknown Source)
java.awt.EventQueue.dispatchEventImpl(Unknown Source)
java.awt.EventQueue.access$200(Unknown Source)
java.awt.EventQueue$3.run(Unknown Source)
java.awt.EventQueue$3.run(Unknown Source)
java.security.AccessController.doPrivileged(Native Method)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.awt.EventQueue$4.run(Unknown Source)
java.awt.EventQueue$4.run(Unknown Source)
java.security.AccessController.doPrivileged(Native Method)
java.security.ProtectionDomain$1.doIntersectionPrivilege(Unknown Source)
java.awt.EventQueue.dispatchEvent(Unknown Source)
java.awt.EventDispatchThread.pumpOneEventForFilters(Unknown Source)
java.awt.EventDispatchThread.pumpEventsForFilter(Unknown Source)
java.awt.EventDispatchThread.pumpEventsForHierarchy(Unknown Source)
java.awt.EventDispatchThread.pumpEvents(Unknown Source)
java.awt.EventDispatchThread.pumpEvents(Unknown Source)
java.awt.EventDispatchThread.run(Unknown Source)

  When I load the file as a SMBL level 2 and below I got no biomass production.

  How can I get it to work?

Last edit: Jérôme BODIN 2016-09-21

Yeast 7.6 no biomass.jpg

Can't load Yeast 7.6 in OptFlux

Forums

Help

Can't load Yeast 7.6 in OptFlux document.SUBSCRIPTION_OPTIONS = { "thing": "topic", "subscribed": false, "url": "subscribe", "icon": { "css": "fa fa-envelope-o" } };

Can't load Yeast 7.6 in OptFlux