feat(neuroml): enable non-1 weights in electrical connections#865
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sanjayankur31 wants to merge 28 commits intosuny-downstate-medical-center:osbv2from
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feat(neuroml): enable non-1 weights in electrical connections#865sanjayankur31 wants to merge 28 commits intosuny-downstate-medical-center:osbv2from
sanjayankur31 wants to merge 28 commits intosuny-downstate-medical-center:osbv2from
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…r/netpyne into development
…r/netpyne into development
…r/netpyne into development
…r/netpyne into development
…ate-medical-center/development Merge latest development to nml branch
…r/netpyne into development
…ate-medical-center/development Merge latest development to neuroml branch
…mplates (suny-downstate-medical-center#831) see netpyne.batchtools esp. submits.py and search.py slurm job submission: search() now supports job_type='slurm' with associated 'ifs' and 'socket' communication modes the run_config for these submission scripts should specify the following arguments: 'allocation' (allocation for the job) 'walltime' (time limit before job termination) 'nodes' (# nodes for job) 'coresPerNode' (number of cores per job--i.e. the mpiexec -n value) 'email' (user email) 'custom' (any custom commands to execute prior to sourcing ~/.bashrc) 'command' (execution of script, command to be run from the project directory to run the script) update to see submission: run_config for the submission now includes the following argument 'realtime' (time limit before job termination)
…downstate-medical-center#832) note, there is new #TODO to check references in sim.clearAll calling sim.close() will run pc.barrier() then terminate with sys.exit()
updated import and variable namespace to fix bug.
…-center#834) feedback for expanse scripts, moved {env} {res} {custom}, removed the source ./bashrc since that can be handled in {custom} also note-- new test for 3.7 failing d/t external error "functools" import
…y-downstate-medical-center#837) * quickfix -- runners validation now referring to mapping rather than collection to avoid improper references to lists.
Implementation of extracellular stimulation (option: without compiling any associated .mod file). Minor bug in plotShape.py and alternative linesize in shapeplot in morphology.py (commented)
Solved conflict between diversity and segment coordinates (per population), used in LFP setups
Fixed typo for test failing
conflict when plotting a colobar with "tightLayout"
Added the extracellular stimulation based on xtra.mod, useful for large networks. The xtra.mod should be added in some repository
* development: (49 commits) Extracellular stimulation via .mod small correction in plotter.py Conflict diversity and LFP Conflict between diversity and LFP for unit tests, rolled back to 3.12 so far test with python 3.9-3.13 drop python 3.7 for unit-tests plotCSD: time slicing on pre-loaded data (credit: Nikita Novikov) extracellular stimulation quick fix to `update` method that allows for working with lists. (suny-downstate-medical-center#837) d/w expanse setup, moved {env} {res} {custom} (suny-downstate-medical-center#834) hot fix (submits.py) (suny-downstate-medical-center#833) code adjustments to internal sim.clearAll(), added sim.close() (suny-downstate-medical-center#832) file cleanup, slurm scripts and timeout added to batchtools submit templates (suny-downstate-medical-center#831) updated upload instructions to exclude downtime fixed sbi deprecation error. fixes in docs formatting minor correction to CHANGES.md VERSION 1.0.7 Revert "Exlude tests from discovery / installation" - due to issue that has emerged with spack installation (EBRAINS platform). Will re-visit later.. merge of batchtools into the development repository. (suny-downstate-medical-center#829) ...
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@pgleeson : neuron and netpyne show identical results for the example |
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