I will get the bug report up later today. Thank you again for your
attention here, I really appreciate it.
Best wishes,
Josh
On Fri, Mar 27, 2020 at 10:08 AM Hans Ekkehard Plesser <
hans.ekkehard.plesser(a)nmbu.no> wrote:
Hi!
Just a brief update: The macOS build instructions are at
https://nest-simulator.readthedocs.io/en/stable/installation/install_opti...
Best,
Hans Ekkehard
On 27 Mar 2020, at 15:06, Hans Ekkehard Plesser <
hans.ekkehard.plesser(a)nmbu.no> wrote:
Hi Josh,
I am able to reproduce the problem when I install NEST via conda onder
macOS 10.14 and 10.15, while all works well with NEST 2.20.0 if I build it
from scratch on my computer. Obviously, this should not happen. Could you
create a bug report on the NEST Github page (
https://github.com/nest/nest-simulator/issues/new?assignees=&labels=&...
)?
As work-arounds for now, you could use the dockered version of NEST (
https://nest-simulator.readthedocs.io/en/stable/installation/index.html#s...)
or build NEST yourself. Unfortunately, it seems that our build instructions
for NEST on Mac are currently missing, I will check that asap.
Best,
Hans Ekkehard
On 26 Mar 2020, at 17:07, Joshua Stern <sternj(a)college.harvard.edu> wrote:
Thank you for your reply Hans!
I am using Nest-2.20.0 installed with Conda on Mac os 10.14 Mojave. I have
just tried removing the environment and reinstalling using Conda again, but
ran into the same issue. What should I do to troubleshoot this?
Thank you so much and best wishes,
Josh
On Thu, Mar 26, 2020 at 2:52 AM Hans Ekkehard Plesser <
hans.ekkehard.plesser(a)nmbu.no> wrote:
>
> Hi Josh,
>
> Thanks for your report! This does not look like a memory issue but may
> point to some internal inconsistency in NEST.
>
> A few questions:
> - Which version of NEST are you using?
> - How did you install NEST (looks like you used conda)?
> - Which operating system are you using?
>
> Best,
> Hans Ekkehard
>
> On 25 Mar 2020, at 18:29, sternj(a)college.harvard.edu wrote:
>
> Hello all,
>
> Hope everyone is staying safe and well in these difficult times.
>
> I am an undergrad who is just getting started with this library, so I
> want to apologize in advance for the basic question. I am having issues I
> believe are memory-related when I call GetConnections on rather small
> networks. Here is my script:
>
> import nest
> # memory testing
> nest.ResetKernel()
> n = 5 # number of neurons
> epop1 = nest.Create("iaf_psc_alpha",n)
> epop2 = nest.Create("iaf_psc_alpha",n)
> nest.Connect(epop1,epop2,{'rule': 'all_to_all'})
>
> # we can now query the synapses using GetConnections
> conns = nest.GetConnections(epop1,target = epop2)
> nest.GetStatus(conns,["target","weight"])
>
> This runs fine for n < 5, but I get the following error with n >=5:
>
> Assertion failed: (source_lid < MAX_LID), function set_source_lid, file
>
/usr/local/miniconda/conda-bld/nest-simulator_1583214474797/work/nestkernel/target_data.h,
> line 264.
> Abort trap: 6
>
> I have run some of the example scripts like brunel_alpha_numpy with a few
> thousand neurons and they work just fine.
>
> Am I making an improper call to GetConnections here? And if so, what is a
> better way to dynamically check connectivity?
> Alternatively, might there be something wrong with my Nest environment?
> And if so, what should I look at to troubleshoot this?
>
> Thank you so much for your help.
>
> Best wishes,
> Josh
> _______________________________________________
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>
>
> --
>
> Prof. Dr. Hans Ekkehard Plesser
> Head, Data Science Section
>
> Faculty of Science and Technology
> Norwegian University of Life Sciences
> PO Box 5003, 1432 Aas, Norway
>
> Phone +47 6723 1560
> Email hans.ekkehard.plesser(a)nmbu.no
> Home
http://arken.nmbu.no/~plesser
>
> _______________________________________________
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> To unsubscribe send an email to users-leave(a)nest-simulator.org
>
_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
To unsubscribe send an email to users-leave(a)nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser
Head, Data Science Section
Faculty of Science and Technology
Norwegian University of Life Sciences
PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560
Email hans.ekkehard.plesser(a)nmbu.no
Home
http://arken.nmbu.no/~plesser
_______________________________________________
NEST Users mailing list -- users(a)nest-simulator.org
To unsubscribe send an email to users-leave(a)nest-simulator.org
--
Prof. Dr. Hans Ekkehard Plesser
Head, Data Science Section
Faculty of Science and Technology
Norwegian University of Life Sciences
PO Box 5003, 1432 Aas, Norway
Phone +47 6723 1560
Email hans.ekkehard.plesser(a)nmbu.no
Home
http://arken.nmbu.no/~plesser
_______________________________________________
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To unsubscribe send an email to users-leave(a)nest-simulator.org