29 Nov
2021
29 Nov
'21
10:24 p.m.
Dear Maryada,
I have just played a bit with your example (see attachment for a slightly extended and
reformatted version) and as far as I can see, NEST behaves exactly as expected (and
documented).
Please let me explain:
* When using the recording backend
ascii<https://nest-simulator.readthedocs.io/en/v3.1/models/recording_backend_ascii.html>
with the kernel attribute
overwrite_files<https://nest-simulator.readthedocs.io/en/v3.1/ref_material/pynest_apis.html#nest.NestModule.overwrite_files>
set to True, you have to move files away at the location in your script saying do
something, otherwise the data files get overwritten by each new call to Simulate() and you
consequently get to see only the results from the last run (which is what you report).
* If you set overwrite_files to False, and did not move the file away, you will get an
error upon repeated calls to Simulate(), as the file to be created by the backend already
exists.
* When using the recording backend
memory<https://nest-simulator.readthedocs.io/en/v3.1/models/recording_backend_memory.html>,
overwrite_files is not even considered, as that does not actually write files.
* Data just accumulates in the recording backend memory until it is explicitly cleared
by running Input_SD.n_events = 0.
See the linked backend documentation pages for more information.
I hope this helps to clear up things.
Cheers,
Jochen!
On 29.11.21 18:32, Maryada Maryada wrote:
Dear NEST users,
I am trying to debug my network and I found that my spike_recorder with ascii option
isn't working as expected.
I am simulating a network for a few milliseconds (say 1000. ms) and then do some structure
changes and then re-run for another phase of a few ms (say 4000. ms)
In the compact version, I am trying to see how this sample code would work.
import nest
nest.ResetKernel()
nest.SetKernelStatus({
"overwrite_files": True,
"data_path": './Debug-Log',
"data_prefix": 'DEBUG-SPIKE-REC',
})
noise_device = nest.Create("poisson_generator",params={'start':
0.,'rate' : 100.})
sd_params = {
"record_to": 'ascii',
"label": "Input_spike_recorder"
}
Input_SD = nest.Create("spike_recorder",1, params=sd_params)
nest.Connect(noise_device,Input_SD)
nest.Simulate(100.)
# do something here
nest.Simulate(100.)
Issue: I only get the data recorded from 100th millisecond but for memory, I get all the
data from 0-200 ms.
This behavior is consistent for both overwrite_files as True and False.
In the previous version (v2.20) I also used the same approach and had no issues. Is there
a newer way to do such a simulation paradigm?
I didn't find anything on this on the comparison page of NESTv2.x and NESTv3.x
Am I missing something? It's really important for my work, I hope I could find a
solution.
--
Thanks and Regards
Maryada
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--
Dr. Jochen Martin Eppler
Phone: +49(2461)61-96653
----------------------------------
Simulation Laboratory Neuroscience
Jülich Supercomputing Centre
Institute for Advanced Simulation
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Forschungszentrum Juelich GmbH
52425 Juelich
Sitz der Gesellschaft: Juelich
Eingetragen im Handelsregister des Amtsgerichts Dueren Nr. HR B 3498
Vorsitzender des Aufsichtsrats: MinDir Volker Rieke
Geschaeftsfuehrung: Prof. Dr.-Ing. Wolfgang Marquardt (Vorsitzender),
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Prof. Dr. Frauke Melchior
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