Label20120920-173017
Motivation Re-running 'effect of synaptic delay', as I missed one set of connections
OutcomeMean firing rate of RS cells 38 Hz
Date20/09/2012
Time17:30:17
Duration208.22 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 888f50c4119e 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

20120920-173017/Vm0_cx05_LTS500b.dat bb93415e7745c645fb901ef907e6f57a6ba4ab34 text/plain 678.1 KB
20120920-173017/Vm170_cx05_LTS500b.dat 38d7de626ece592c5359a0723ba027a8ca2a334e text/plain 745.4 KB
20120920-173017/Vm99_cx05_LTS500b.dat b72fef79011c8bf400cc9018c8b4a2f303542856 text/plain 712.6 KB
20120920-173017/numspikes_cx05_LTS500b.dat 0b8a80e860d999a7ac466f46533d9adf957d805b text/plain 1.7 KB
20120920-173017/spiketimes_cx05_LTS500b.dat 15277e098bbcd4b0ac0fcf32c818ca0c64630d07 text/plain 954.0 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) =  37.799
 standard deviation =  43.9427855171
Mean rate per FS cell (Hz) =  39.602
 standard deviation =  49.7807472423

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