Search found 7 matches

by johnawolf
Mon Jul 20, 2009 10:23 am
Forum: Parallel NEURON
Topic: Proper compile command for OSX Cluster
Replies: 1
Views: 1547

Proper compile command for OSX Cluster

We are prepping a new OSX cluster for use with NEURON, and would like to make sure that the settings are optimal. Since there are no instructions on compiling from sources on the main install site, I wanted to check the optimal configuration flags for OSX in parallel. This is what I remember from th...
by johnawolf
Thu Dec 07, 2006 7:46 pm
Forum: OS X
Topic: CVODE variable dt error
Replies: 2
Views: 4045

Fix for this problem

Dr. Hines mailed me the following: "The problem is with access acell_home_ L=0 in create_mspcells.hoc Set L to a nonzero value or else get rid of acell_home_ completely (in 5.9 and above it is no longer necessary to place ARTIFICIAL_CELL instances in such a dummy section)" Removing the acell_home_ i...
by johnawolf
Wed Dec 06, 2006 1:55 pm
Forum: OS X
Topic: "Warning: no DISPLAY environment variable."
Replies: 4
Views: 11890

Changing Display Variable on the Mac

The default shell in the terminal is bash. Therefore, to change the environment variable such that XWindows will display properly, use the following command:

export DISPLAY=localhost:0

You should now be able to run NEURON from the terminal, which is infinitely better than the X11 terminal.
by johnawolf
Sun Dec 03, 2006 5:26 pm
Forum: OS X
Topic: "Warning: no DISPLAY environment variable."
Replies: 4
Views: 11890

Building Carbon Application for Intel Macs

I generally do NOT use X11 for the mac but the built-in carbon library. There is a dmg for that machine at http://www.neuron.yale.edu/ftp/neuron/versions/alpha/ or you can look at the nrn/mkalpha.sh file for the configuration options to use if you wish to build from the sources. I like building the...
by johnawolf
Sun Dec 03, 2006 5:17 pm
Forum: OS X
Topic: CVODE variable dt error
Replies: 2
Views: 4045

CVODE variable dt error

Hi all, When running our model on Macs with a powerpc chip, it runs fine with variable dt. When running on i686's (either Mac or Linux) we get the following error, and it will only run with variable dt off. Any ideas would be greatly appreciated. CVode-- At t = 0 and h = 1.65133e-10, the corrector c...
by johnawolf
Tue Feb 14, 2006 6:23 pm
Forum: OS X
Topic: Compiling for OSX on Intel
Replies: 2
Views: 4649

Compiling for OSX on Intel

Hi all - I was wondering if anyone had attempted to compile NEURON on an OSX Intel box yet, and if so, what the results were. Are there any inherent problems in this that we should be aware of, or should it be straightforward? I just found out I will have access to one soon if this needs to be teste...
by johnawolf
Mon Oct 24, 2005 4:35 pm
Forum: Modeling networks
Topic: Code for Lists of Synaptic Connections
Replies: 2
Views: 4827

Code for Lists of Synaptic Connections

Hi all,

Does anyone (Bill?) have a chunk of code that does a nice job of displaying all the NetCons in a network sorted by either precell or postcell? We are having problems printing the contents of netconlist...

TIA,

John