Arbor cable cell exporter and backend support in BluePyOpt (#1959)
* Support for exporting models with parameters optimized in BluePyOpt to a mixed JSON/ACC-format that can be loaded in Arbor (with faithful axon-replacement modelling) * A tutorial and examples on how to run simulations with such models including a neocortical layer-5 pyramidal cell exported from BluePyOpt * Support for using Arbor as a backend for single cell optimization in BluePyOpt
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- arbor/include/arbor/morph/morphology.hpp 5 additions, 0 deletionsarbor/include/arbor/morph/morphology.hpp
- arbor/include/arbor/morph/segment_tree.hpp 5 additions, 1 deletionarbor/include/arbor/morph/segment_tree.hpp
- arbor/morph/morphology.cpp 23 additions, 0 deletionsarbor/morph/morphology.cpp
- arbor/morph/segment_tree.cpp 69 additions, 21 deletionsarbor/morph/segment_tree.cpp
- doc/concepts/decor.rst 7 additions, 7 deletionsdoc/concepts/decor.rst
- doc/concepts/interconnectivity.rst 1 addition, 1 deletiondoc/concepts/interconnectivity.rst
- doc/concepts/labels.rst 3 additions, 3 deletionsdoc/concepts/labels.rst
- doc/concepts/morphology.rst 8 additions, 1 deletiondoc/concepts/morphology.rst
- doc/cpp/hardware.rst 1 addition, 1 deletiondoc/cpp/hardware.rst
- doc/cpp/morphology.rst 5 additions, 0 deletionsdoc/cpp/morphology.rst
- doc/dev/simd_api.rst 1 addition, 1 deletiondoc/dev/simd_api.rst
- doc/python/morphology.rst 6 additions, 0 deletionsdoc/python/morphology.rst
- doc/tutorial/index.rst 1 addition, 0 deletionsdoc/tutorial/index.rst
- doc/tutorial/network_ring_gpu.rst 1 addition, 1 deletiondoc/tutorial/network_ring_gpu.rst
- doc/tutorial/network_ring_mpi.rst 1 addition, 1 deletiondoc/tutorial/network_ring_mpi.rst
- doc/tutorial/probe_lfpykit.rst 1 addition, 1 deletiondoc/tutorial/probe_lfpykit.rst
- doc/tutorial/single_cell_bluepyopt.rst 305 additions, 0 deletionsdoc/tutorial/single_cell_bluepyopt.rst
- doc/tutorial/single_cell_bluepyopt_gui_l5pc_bAP_attempt.png 0 additions, 0 deletionsdoc/tutorial/single_cell_bluepyopt_gui_l5pc_bAP_attempt.png
- doc/tutorial/single_cell_bluepyopt_gui_l5pc_bAP_final.png 0 additions, 0 deletionsdoc/tutorial/single_cell_bluepyopt_gui_l5pc_bAP_final.png
- doc/tutorial/single_cell_bluepyopt_gui_l5pc_overview.png 0 additions, 0 deletionsdoc/tutorial/single_cell_bluepyopt_gui_l5pc_overview.png
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