[neuroConstruct] source code of NeuroConstructor
Michele Mattioni
mattioni at ebi.ac.uk
Wed Apr 30 00:09:37 BST 2008
Hi list,
how can I download the code of NeuroConstructor?
I tried to run the quick tutorial but I can not run the simulation
from Neuroconstruct but I'm not able to do it.
I've got the error attached.
When I tried to run the genesis simulation it worked.
Do you have any suggestion?
Regards,
Michele
-------------- next part --------------
00:01:30.543> GeneratedNetworkConnections: Finished saving data to file: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/simulations/Sim_30/NetworkConnections.dat
00:01:30.543> GeneratedElecInputs : Saving 1 inputs to file: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/simulations/Sim_30/ElectricalInputs.dat
00:01:30.544> GeneratedElecInputs : File: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/simulations/Sim_30/ElectricalInputs.dat doesn't exist.
00:01:30.544> GeneratedElecInputs : Finished saving data to file: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/simulations/Sim_30/ElectricalInputs.dat
00:01:30.545> CellGroupsInfo : Request for Cell Type in group: SampleCellGroup
00:01:30.546> GenesisSettings : Looking for text for location: Type -1, Before Cells created
00:01:30.547> GenesisSettings : Found:
00:01:30.547> GenesisSettings : Looking for text for location: Type 5, Before Final reset
00:01:30.547> GenesisSettings : Found:
00:01:30.548> GenesisSettings : Looking for text for location: Type 10, After Final reset
00:01:30.548> GenesisSettings : Found: null
00:01:30.549> GenesisSettings : Looking for text for location: Type 15, After simulation run
00:01:30.549> GenesisSettings : Found: null
00:01:30.549> SequenceGenerator : Num in sequence: 1
00:01:30.550> SequenceGenerator : Num in sequence: 1
00:01:30.550> SequenceGenerator : Num in sequence: 1
00:01:30.556> GenesisFileManager : Assuming *nix environment...
00:01:30.557> GenesisFileManager : Assume we're using Gnome
00:01:31.181> GenesisFileManager : Going to execute command: --title=GENESIS_simulation___Sim_30 --working-directory=/home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS -x /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS/runsim.sh
00:01:31.198> GenesisFileManager : *** ERROR*** : Error running the command: --title=GENESIS_simulation___Sim_30 --working-directory=/home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS -x /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS/runsim.sh
00:01:31.199> MainFrame : *** ERROR*** : User being informed of error
00:01:31.199> MainFrame : *** ERROR*** : Error executing the GENESIS file: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS/Ex1-Simple.g
00:01:31.201> MainFrame : *** ERROR*** : ucl.physiol.neuroconstruct.genesis.GenesisException: Error executing the GENESIS file: /home/mattions/Work/progs/neuroConstruct_1.0.4.1/examples/Ex1-Simple/generatedGENESIS/Ex1-Simple.g
00:01:31.202> MainFrame : *** ERROR*** : at ucl.physiol.neuroconstruct.genesis.GenesisFileManager.runGenesisFile(GenesisFileManager.java:2731)
00:01:31.202> MainFrame : *** ERROR*** : at ucl.physiol.neuroconstruct.gui.MainFrame.doRunGenesis(MainFrame.java:5812)
00:01:31.202> MainFrame : *** ERROR*** : at ucl.physiol.neuroconstruct.gui.MainFrame.jButtonGenesisRun_actionPerformed(MainFrame.java:10737)
00:01:31.203> MainFrame : *** ERROR*** : at ucl.physiol.neuroconstruct.gui.MainFrame$23.actionPerformed(MainFrame.java:1111)
00:01:31.203> MainFrame : *** ERROR*** : at javax.swing.AbstractButton.fireActionPerformed(AbstractButton.java:2012)
00:01:31.203> MainFrame : *** ERROR*** : at javax.swing.AbstractButton$Handler.actionPerformed(AbstractButton.java:2335)
00:01:31.204> MainFrame : *** ERROR*** : at javax.swing.DefaultButtonModel.fireActionPerformed(DefaultButtonModel.java:404)
00:01:31.204> MainFrame : *** ERROR*** : at javax.swing.DefaultButtonModel.setPressed(DefaultButtonModel.java:259)
00:01:31.204> MainFrame : *** ERROR*** : at javax.swing.plaf.basic.BasicButtonListener.mouseReleased(BasicButtonListener.java:253)
00:01:31.205> MainFrame : *** ERROR*** : at java.awt.Component.processMouseEvent(Component.java:6101)
00:01:31.205> MainFrame : *** ERROR*** : at javax.swing.JComponent.processMouseEvent(JComponent.java:3276)
00:01:31.205> MainFrame : *** ERROR*** : at java.awt.Component.processEvent(Component.java:5866)
00:01:31.206> MainFrame : *** ERROR*** : at java.awt.Container.processEvent(Container.java:2105)
00:01:31.206> MainFrame : *** ERROR*** : at java.awt.Component.dispatchEventImpl(Component.java:4462)
00:01:31.207> MainFrame : *** ERROR*** : at java.awt.Container.dispatchEventImpl(Container.java:2163)
00:01:31.207> MainFrame : *** ERROR*** : at java.awt.Component.dispatchEvent(Component.java:4288)
00:01:31.207> MainFrame : *** ERROR*** : at java.awt.LightweightDispatcher.retargetMouseEvent(Container.java:4461)
00:01:31.208> MainFrame : *** ERROR*** : at java.awt.LightweightDispatcher.processMouseEvent(Container.java:4125)
00:01:31.208> MainFrame : *** ERROR*** : at java.awt.LightweightDispatcher.dispatchEvent(Container.java:4055)
00:01:31.208> MainFrame : *** ERROR*** : at java.awt.Container.dispatchEventImpl(Container.java:2149)
00:01:31.209> MainFrame : *** ERROR*** : at java.awt.Window.dispatchEventImpl(Window.java:2478)
00:01:31.209> MainFrame : *** ERROR*** : at java.awt.Component.dispatchEvent(Component.java:4288)
00:01:31.209> MainFrame : *** ERROR*** : at java.awt.EventQueue.dispatchEvent(EventQueue.java:604)
00:01:31.210> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.pumpOneEventForFilters(EventDispatchThread.java:275)
00:01:31.210> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.pumpEventsForFilter(EventDispatchThread.java:200)
00:01:31.211> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.pumpEventsForHierarchy(EventDispatchThread.java:190)
00:01:31.211> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:185)
00:01:31.212> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.pumpEvents(EventDispatchThread.java:177)
00:01:31.212> MainFrame : *** ERROR*** : at java.awt.EventDispatchThread.run(EventDispatchThread.java:138)
00:01:31.212> MainFrame : *** ERROR*** : Caused by: java.io.IOException: Cannot run program "--title=GENESIS_simulation___Sim_30": java.io.IOException: error=2, No such file or directory
00:01:31.213> MainFrame : *** ERROR*** : at java.lang.ProcessBuilder.start(ProcessBuilder.java:474)
00:01:31.213> MainFrame : *** ERROR*** : at java.lang.Runtime.exec(Runtime.java:610)
00:01:31.213> MainFrame : *** ERROR*** : at java.lang.Runtime.exec(Runtime.java:448)
00:01:31.214> MainFrame : *** ERROR*** : at java.lang.Runtime.exec(Runtime.java:345)
00:01:31.214> MainFrame : *** ERROR*** : at ucl.physiol.neuroconstruct.genesis.GenesisFileManager.runGenesisFile(GenesisFileManager.java:2723)
00:01:31.215> MainFrame : *** ERROR*** : ... 28 more
00:01:31.215> MainFrame : *** ERROR*** : Caused by: java.io.IOException: java.io.IOException: error=2, No such file or directory
00:01:31.215> MainFrame : *** ERROR*** : at java.lang.UNIXProcess.<init>(UNIXProcess.java:164)
00:01:31.216> MainFrame : *** ERROR*** : at java.lang.ProcessImpl.start(ProcessImpl.java:81)
00:01:31.216> MainFrame : *** ERROR*** : at java.lang.ProcessBuilder.start(ProcessBuilder.java:467)
00:01:31.216> MainFrame : *** ERROR*** : ... 32 more
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