Label20120906-144727
Motivation Run Alain's original script, to give us a baseline when we start to convert to Python.
OutcomeEverything seems to work: graphical interface appears, membrane potential is plotted in a window. Three text files are created with output data.
Date06/09/2012
Time14:47:27
Duration105.76 s
Launch modeserial

Code

Executable Repository Version Main file Arguments
NEURON 7.1 (/home/andrew/env/pyNN-0.7/bin/nrngui) https://bitbucket.org/apdavison/destexhe_jcns_2009 1f8586159691 demo_cx05_N=500b_LTS.oc

Dependencies

NamePathVersion
atoltool.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/atoltool.hocunknown
chanbild.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/chanbild.hocunknown
family.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/family.hocunknown
inserter.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/inserter.hocunknown
movierun.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/movierun.hocunknown
nrngui.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/nrngui.hocunknown
pointman.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/pointman.hocunknown
shapebox.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/shapebox.hocunknown
stdgui.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/stdgui.hocunknown
stdlib.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/stdlib.hocunknown
stdrun.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/stdrun.hocunknown
varmeth1.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/varmeth1.hocunknown
wingroup.hoc/home/andrew/Apps/NEURON/build/7.1/share/nrn/lib/hoc/wingroup.hocunknown

Inputs

Outputs

Output files

/home/docker/site
20120906-144727/Vm170_cx05_LTS500b.dat 9b5d67a2551e04de9a965a922e855a68b95b1f70 755.1 KB
20120906-144727/numspikes_cx05_LTS500b.dat a4ce0d2ab41d595a0f34f9cb543f86dd8a10d21b 1.7 KB
20120906-144727/spiketimes_cx05_LTS500b.dat 800ce9a4589413fc5ec295c40e95cbd2fa08de6a 557.5 KB
20120906-144727/x86_64/.libs/IF_BG4.o 6991acb028f27862919a6352d2e1d33b79046fc3 application/octet-stream 41.9 KB
20120906-144727/x86_64/.libs/gen5.o dbd70480044340961ec08ae56c046c16637b3a79 application/octet-stream 38.9 KB
20120906-144727/x86_64/.libs/libnrnmech.la 3741bc76c86372487644b3e462e89aa54773b0c3 0 bytes
20120906-144727/x86_64/.libs/libnrnmech.lai 612ce33fcce50900f4279df26af679b2a9c1ab6c 1.5 KB
20120906-144727/x86_64/.libs/libnrnmech.so a2ecfe197a47586d18f15e965aa42b6474b755ca application/octet-stream 0 bytes
20120906-144727/x86_64/.libs/libnrnmech.so.0 a2ecfe197a47586d18f15e965aa42b6474b755ca 0 bytes
20120906-144727/x86_64/.libs/libnrnmech.so.0.0.0 a2ecfe197a47586d18f15e965aa42b6474b755ca 142.7 KB
20120906-144727/x86_64/.libs/mod_func.o 4686ab813bd79ff1677c961ddf08ed6baf036cb4 application/octet-stream 8.5 KB
20120906-144727/x86_64/.libs/multiAMPAexp.o f61f681d074fac6d65629b0bdb9c0d7f31be1fb8 application/octet-stream 54.0 KB
20120906-144727/x86_64/.libs/multiGABAAexp.o 28364623638e64e9e1384de857f089752f96bce8 application/octet-stream 54.1 KB
20120906-144727/x86_64/.libs/multiStimexp.o a4fc6d39adf41aca4667bc88c432776eaee5f298 application/octet-stream 54.0 KB
20120906-144727/x86_64/IF_BG4.c 07fe50f0d477a5101cb9e20ba0da6c8818a226ba text/plain 9.2 KB
20120906-144727/x86_64/IF_BG4.lo c7c648bf1bdda6aaa62964871dcad54c89c722dd 303 bytes
20120906-144727/x86_64/gen5.c 9fa784c13cba48fd750cdec90e3fd41393e9e9d1 text/plain 7.8 KB
20120906-144727/x86_64/gen5.lo 18f8a5a23b07dd0953f16898462a5633e2bed531 299 bytes
20120906-144727/x86_64/libnrnmech.la 3741bc76c86372487644b3e462e89aa54773b0c3 1.5 KB
20120906-144727/x86_64/mod_func.c a416c23a1677051dc6cba386b19f2969e207104b text/plain 533 bytes
20120906-144727/x86_64/mod_func.lo 813032efd41c05c83f6b4ba9baa49909387212bb 307 bytes
20120906-144727/x86_64/multiAMPAexp.c 772e12a4d9aa12f89262433fc470845330213e81 text/plain 11.8 KB
20120906-144727/x86_64/multiAMPAexp.lo 9ef8da94b62d3757a0308e907dc57ed157eee82e 315 bytes
20120906-144727/x86_64/multiGABAAexp.c 03198ead6b5a12df5db73da22bc52d7773e561ad text/plain 11.8 KB
20120906-144727/x86_64/multiGABAAexp.lo 2cedde97d218dfdcd1aa539777bf2f247c66613a 317 bytes
20120906-144727/x86_64/multiStimexp.c a4b0a968110ebe956bc1613c55d4b15a3f06ba96 text/plain 11.8 KB
20120906-144727/x86_64/multiStimexp.lo 0e937700fa845fcccb2ac9839cc4518b4e56b214 315 bytes
20120906-144727/x86_64/special 1c31abb60fbdab3d22160b635193c56b36e70516 393 bytes

Stdout & Stderr

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

Additional mechanisms from files
 IF_BG4.mod gen5.mod multiAMPAexp.mod multiGABAAexp.mod multiStimexp.mod
loading membrane mechanisms from /home/andrew/dev/destexhe_jcns_2009/demo_cx-lts/x86_64/.libs/libnrnmech.so
nrniv: unable to open font "*helvetica-medium-r-normal*--14*", using "fixed"
	1 

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

----[ CREATING CELLS ]----
Cell 7  is LTS
Cell 20  is LTS
Cell 45  is LTS
Cell 58  is LTS
Cell 90  is LTS
Cell 99  is LTS
Cell 102  is LTS
Cell 145  is LTS
Cell 163  is LTS
Cell 186  is LTS
Cell 196  is LTS
Cell 227  is LTS
Cell 242  is LTS
Cell 243  is LTS
Cell 253  is LTS
Cell 289  is LTS
Cell 322  is LTS
Cell 325  is LTS
Cell 343  is LTS
Cell 353  is LTS
Cell 374  is LTS
----[ CREATING NETWORK ]----
Calculate connectivity of cortical cells...
MEAN SYNAPSES PER NEURON:
cortical excitatory inputs 30.222 
cortical inhibitory inputs 6.982 
----[ ADDING NETWORK INPUT ]----
Add stimulation of cortical neurons...
	1 
oc>Writing spikes on file...
Mean rate per RS cell (Hz) = 18.3605 
 standard deviation = 13.641699 
Mean rate per FS cell (Hz) = 25.65 
 standard deviation = 18.848838 

oc>
oc>

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