Update Arbor backend to work with Arbor 0.10.0#841
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Arbor 0.10.0 introduced breaking changes to its Python bindings that prevented the backend from importing/running. Update the backend and version pins accordingly: - Units at the user interface: physical quantities passed to decor.set_property/set_ion, threshold_detector, iclamp, the spike schedules and simulation.run must now be unit-typed (arbor.units). - Morphology loaders now return a bundle; use load_swc_neuron(f).segment_tree instead of the removed raw=True argument. - Probes now require a tag string and sampling is addressed by (gid, tag) instead of the removed cell_member index. Also fixes a latent frequency-unit bug in SpikeSourcePoisson: rate (Hz) was passed into Arbor's kHz frequency slot; it is now tagged with U.Hz, matching PyNN's Hz semantics and the NEURON/NEST backends.
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coverage: 71.072%. first build — apdavison:update-arbor-0.10.0 into NeuralEnsemble:master |
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replaced by #842, which supports versions 0.10.0 to 0.12.2 |
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Arbor 0.10.0 introduced breaking changes to its Python bindings that prevented the backend from importing/running. Update the backend and version pins accordingly:
Also fixes a latent frequency-unit bug in SpikeSourcePoisson: rate (Hz) was passed into Arbor's kHz frequency slot; it is now tagged with U.Hz, matching PyNN's Hz semantics and the NEURON/NEST backends.
(note that Arbor is currently at version 0.12.2, but 0.10.0 is the version currently in the EBRAINS Software Distribution)