Installing NEURON on cluster

General issues of interest both for network and
individual cell parallelization.

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catubc
Posts: 21
Joined: Mon Apr 07, 2014 6:46 pm

Installing NEURON on cluster

Post by catubc » Fri Aug 22, 2014 11:46 am

Hi everyone

I've been trying for over 1 month to get NEURON to work on a cluster in Canada (Westgrid). I'm getting close but I still get errors like:

Code: Select all

dlopen failed - 
x86_64/.libs/libnrnmech.so: cannot read file data: Is a directory
or

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/neuron/nrn-7.3/x86_64/lib/liboc.so.0: undefined symbol: __intel_sse2_strchr
I've read an old 2008 post that on clusters I may need to recompile NEURON with this "linux_nrnmech=no" option

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./configure --prefix=`pwd` --without-iv --disable-shared --with-paranrn  linux_nrnmech=no
Before I spend another day or two recompiling everything was hoping to hear from someone with experience running NEURON on clusters... Any advice is appreciated.

Thanks,
Catubc


UPDATE: The issue may be cluster side... working on it, will post updates.
Last edited by catubc on Sun Aug 24, 2014 10:49 pm, edited 1 time in total.

ted
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Location: Yale University School of Medicine
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Re: Installing NEURON on cluster

Post by ted » Fri Aug 22, 2014 11:47 pm

neuromau has posted some hints for installation on parallel hardware that may or may not be pertinent
viewtopic.php?f=6&t=2267
viewtopic.php?f=6&t=2781

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