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1,982 changes: 1,982 additions & 0 deletions doc/images/external-fields-implicit-field.svg
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6,952 changes: 6,952 additions & 0 deletions doc/images/external-fields-morph.svg
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1,499 changes: 1,499 additions & 0 deletions doc/images/external-fields-single-cell.svg
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8 changes: 4 additions & 4 deletions doc/python/morphology.rst
Original file line number Diff line number Diff line change
Expand Up @@ -606,19 +606,19 @@ region.

.. py:class:: loaded_morphology

.. py:attr:: segment_tree
.. py:attribute:: segment_tree

Raw segment tree, identical to morphology.

.. py:attr:: morphology
.. py:attribute:: morphology

Morphology constructed from description.

.. py:attr:: labels
.. py:attribute:: labels

Regions and locsets defined in the description as ``label_dict``

.. py:attr:: metadata
.. py:attribute:: metadata

Loader specific metadata, see below in the individual sections.

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2 changes: 1 addition & 1 deletion doc/tutorial/cosim.rst
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Expand Up @@ -12,7 +12,7 @@ tutorial, we are assuming you are comfortable with the basics of Arbor (cells,
recipes, and networks), Python package management, and MPI, as wells as
installing software on your system. All source code for all intermediate steps
can be in the directory
`python/example/cosim <https://github.com/arbor-sim/arbor/tree/master/python/example/brunel>`__
`python/example/cosim <https://github.com/arbor-sim/arbor/tree/master/python/example/cosim>`__
of the Arbor source tree.

Setup
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8 changes: 4 additions & 4 deletions doc/tutorial/index.rst
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@@ -1,10 +1,9 @@

.. _tutorial:

Tutorials
=========

Grouped loosely by primary (but not exclusive!) focus, we have a set of tutorials to help you learn by doing.
Grouped loosely by primary (but not exclusive!) focus, we have a set of tutorials to help you learn by doing.

You can find some examples of full Arbor simulations in the ``python/examples`` directory of the
`Arbor repository <https://github.com/arbor-sim/arbor>`_.
Expand Down Expand Up @@ -33,7 +32,7 @@ Recipes

.. toctree::
:maxdepth: 1

single_cell_recipe
single_cell_detailed_recipe

Expand All @@ -47,7 +46,7 @@ Networks
network_two_cells_gap_junctions
brunel


Probes
------

Expand Down Expand Up @@ -84,6 +83,7 @@ Advanced
connectivity
full-feature-diffusion
cosim
reading_external_fields

Demonstrations
--------------
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