URLs for Parallel NEURON course in Tucson
<p>
<a href="http://www.neuron.yale.edu/ftp/neuron/versions/alpha/">
The NEURON Alpha versions we are using
</a>
<p>
<a href="http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=17664">
Thread exercise (Miyasho 2001)
</a>

<p>
<a href="http://www.mcs.anl.gov/research/projects/mpich2/">
mpich2
</a>

<p>
<a href="http://www.neuron.yale.edu/hg">
Mercurial repository.
</a>
From here it is one click away from the repository for
the Santhakumar 2005 serial to parallel transformation.
You can find out about <a href="http://mercurial.selenic.com/">
mercurial here</a> and <a href="http://hgbook.red-bean.com/">here is the
online book</a>

<p><p>
In this folder are the meeting talks I gave for
<a href="threadtalk.pdf">threads</a>, and
<a href="netpartalk.pdf">parallel networks</a>. Also
the course <a href="partut1talk.pdf">installation talk</a> and
<a href="partutorial1.pdf">handout</a> and the <a href="bbstalk.pdf">
introduction to the bulletin board</a>
<p>
<a href="sortspike">sortspike</a> is a shell script for
sorting spike output files according to time and gid.
For mswin you should put it and the cygwin programs
<a href="sort.exe">sort.exe</a> and <a href="diff.exe">diff.exe</a>
into c:/nrn72/bin

<p>
<a href="test0.hoc">test0.hoc</a> is used to test NEURON + MPI via<br>
mpiexec -n 2 nrniv -mpi test0.hoc<br>
<p>
<a href="bbsexample.hoc">bbsexample.hoc</a> is an example of
bulletin board usage.
<p>
For debugging you need <a href="prcellstate.hoc">prcellstate.hoc</a>

<p>
Other links mentioned (or indirectly referenced) in the handout are:
<br><a href="http://www.neuron.yale.edu/neuron/static/papers/jnm/parallelizing_models_jnm2008.pdf">Translating network modesl to parallel hardware in NEURON</a>
<br><a href="http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=96444">Modeldb entry for above</a>
<br><a href="http://www.neuron.yale.edu/neuron/static/papers/jcns/parallel_nets_2006.pdf">Parallel Network Simulations with NEURON<a>
<br><a href="http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=64229">Modeldb entry for above<a>
<br><a href="http://www.neuron.yale.edu/neuron/static/papers/jcns/brette2007.pdf">Brette et al 2007<a>
<br><a href="http://senselab.med.yale.edu/modeldb/ShowModel.asp?model=96444">ModelDB entry for above<a>
<br><a href="http://www.neuron.yale.edu/ftp/hines/tucson/brette2007neuron.zip">NEURON part of above model</a>
<br><a href="http://www.neuron.yale.edu/hg/z/models/nrntraub/">Mercurial repository for parallel Traub model<a>
<br><a href="http://www.neuron.yale.edu/neuron/static/docs/help/quick_reference.html">NEURON reference<a>