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<div style="direction: ltr;font-family: Tahoma;color: #000000;font-size: 10pt;">To all,<br>
<br>
I'm having some problems running datasynth simulations using mesh substrates specified by a .ply file - my bash script is:<br>
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#! /bin/bash<br>
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echo DEL_9<br>
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datasynth -walkers 1000000 -tmax 5000 -voxels 1 -p 0.0 -schemefile DEL_9.scheme -initial uniform -substrate mesh -plyfile sphere_1.ply > sphere_1_1000000_walkers_DEL_9_Ghigh_290_seed1.Bfloat<br>
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The output in the terminal is:<br>
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DEL_9<br>
Sep 20, 2011 10:54:04 AM tools.CL_Initializer CL_init<br>
WARNING: unrecognised geometry type 'mesh' will use default (CYL_1_FIXED)<br>
Sep 20, 2011 10:54:04 AM tools.CL_Initializer checkParsing<br>
WARNING: WARNING: couldn't parse arg 13: 'mesh'<br>
Sep 20, 2011 10:54:04 AM simulation.dynamics.StepGeneratorFactory getStepGenerator<br>
INFO: instantiating fixed length step generator<br>
Sep 20, 2011 10:54:04 AM simulation.geometry.substrates.ParallelCylinderSubstrate <init><br>
INFO: constructing hexagonally packed cylinder substrate, radius= 1.0E-5 separation= 3.0E-5<br>
Sep 20, 2011 10:54:04 AM simulation.geometry.substrates.ParallelCylinderSubstrate <init><br>
INFO: intracellular vol frac = 0.40306652538538185<br>
Sep 20, 2011 10:54:04 AM simulation.DiffusionSimulation <init><br>
INFO: running simulation: 1000000 walkers, 5000 timesteps, p= 0.0<br>
Sep 20, 2011 10:54:04 AM simulation.DiffusionSimulation <init><br>
INFO: dynamics duration 0.035<br>
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Here it proceeds with the simulation, but uses the default CYL_1_FIXED substrate. Any help with what I need to do in order for the simulation to run in the mesh substrate is much appreciated.
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<br>
Thanks,<br>
Damien<br>
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