Label20120920-150201
Motivation Replaced locally-defined AdExp cell class with BretteGerstnerIF.
OutcomeResults seem to be unchanged, but simulation time much longer.
Date20/09/2012
Time15:02:01
Duration741.77 s
Launch modedistributed, n=

Code

Executable Repository Version Main file Arguments
Python 2.7.1 (/home/andrew/env/pyNN-0.7/bin/python) https://bitbucket.org/apdavison/destexhe_jcns_2009 b84106ada1b9 demo_cx05_N=500b_LTS.py

Dependencies

NamePathVersion
Cheetah/usr/lib/pymodules/python2.7/Cheetahunknown
PIL/usr/lib/python2.7/dist-packages/PILunknown
PyQt4/usr/lib/pymodules/python2.7/PyQt4unknown
csa/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/csa0.0.4
dateutil/usr/lib/pymodules/python2.7/dateutil1.4.1
distutils/home/andrew/env/pyNN-0.7/lib/python2.7/distutils2.7.1
encodings/home/andrew/env/pyNN-0.7/lib/python2.7/encodingsunknown
glib/usr/lib/python2.7/dist-packages/glibunknown
gobject/usr/lib/python2.7/dist-packages/gobjectunknown
jinja2/usr/lib/pymodules/python2.7/jinja22.5.5
markupsafe/usr/lib/python2.7/dist-packages/markupsafeunknown
matplotlib/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/matplotlib1.0.1
mpi4py/usr/local/lib/python2.7/dist-packages/mpi4py1.2.2
mpl_toolkits/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/mpl_toolkitsunknown
neuron/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/neuronunknown
nose/usr/lib/pymodules/python2.7/nose0.11.4
numpy/usr/lib/pymodules/python2.7/numpy1.5.1
pyNN/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/pyNN1219
pygments/usr/lib/python2.7/dist-packages/pygments1.4
pygsl/usr/local/lib/python2.7/dist-packages/pygsl0.9.5
pytz/usr/lib/python2.7/dist-packages/pytz2010b
scipy/usr/lib/python2.7/dist-packages/scipy0.8.0
tables/usr/lib/python2.7/dist-packages/tables2.1.2
wx/usr/lib/python2.7/dist-packages/wx-2.8-gtk2-unicode/wx2.8.11.0 (gtk2-unicode)

Inputs

Outputs

Output files

20120920-150201/Vm0_cx05_LTS500b.dat 10fe497a467f20e6f2095d19a08bd98624e650cd text/plain 717.2 KB
20120920-150201/Vm170_cx05_LTS500b.dat d1060ea8bc360ff932113331195406cd2acd85ff text/plain 739.9 KB
20120920-150201/Vm99_cx05_LTS500b.dat 6b7eb46ae7e85d60fcca46361ad0479c90071983 text/plain 728.1 KB
20120920-150201/numspikes_cx05_LTS500b.dat 5c10ce82087fdf15e24e6c089324f35349078adf text/plain 1.7 KB
20120920-150201/spiketimes_cx05_LTS500b.dat 806d49c25074989678a6f0292ee8603e38a9857b text/plain 778.1 KB

Stdout & Stderr

MPI_Initialized==false, disabling MPI functionality.
NEURON -- Release 7.1 (359:7f113b76a94b) 2009-10-26
Duke, Yale, and the BlueBrain Project -- Copyright 1984-2008
See http://www.neuron.yale.edu/credits.html

NEURON: unable to open font "*helvetica-medium-r-normal*--14*", using "fixed"
	1 
loading membrane mechanisms from /home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/pyNN/neuron/nmodl/x86_64/.libs/libnrnmech.so
Additional mechanisms from files
 adexp.mod alphaisyn.mod alphasyn.mod expisyn.mod gsfa_grr.mod hh_traub.mod netstim2.mod refrac.mod reset.mod stdwa_guetig.mod stdwa_softlimits.mod stdwa_songabbott.mod stdwa_symm.mod tmgsyn.mod tmisyn.mod vecstim.mod

=======================================================================
            Network of  500 IF neurons in an active state
=======================================================================

----[ CREATING CELLS ]----
Cell  116  is LTS
Cell  156  is LTS
Cell  167  is LTS
Cell  207  is LTS
Cell  228  is LTS
Cell  238  is LTS
Cell  243  is LTS
Cell  254  is LTS
Cell  299  is LTS
Cell  341  is LTS
Cell  352  is LTS
Cell  387  is LTS
Cell  399  is LTS
----[ CREATING NETWORK ]----
Calculate connectivity of cortical cells...
MEAN SYNAPSES PER NEURON:
cortical excitatory inputs  29.95
cortical inhibitory inputs  6.934
----[ ADDING NETWORK INPUT ]----
Add stimulation of cortical neurons...
>>> Writing spikes to file...
Mean rate per RS cell (Hz) =  30.1895
 standard deviation =  26.1324585478
Mean rate per FS cell (Hz) =  34.342
 standard deviation =  27.1685155281
>>> 
Exception in thread Thread-1 (most likely raised during interpreter shutdown):
Traceback (most recent call last):
  File "/usr/lib/python2.7/threading.py", line 552, in __bootstrap_inner
  File "/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/neuron/gui.py", line 36, in run
  File "/home/andrew/env/pyNN-0.7/lib/python2.7/site-packages/neuron/gui.py", line 17, in process_events
<type 'exceptions.AttributeError'>: 'NoneType' object has no attribute 'doNotify'

Environment

NameIP addressProcessor ArchitectureSystem type ReleaseVersion
retina 127.0.1.1 x86_64 x86_64 64bit ELF Linux 2.6.38-11-generic #50-Ubuntu SMP Mon Sep 12 21:17:25 UTC 2011