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Ben Cumming's avatar
Benjamin Cumming authored
This PR removes the requirement that all cover points are included in a region.
The motivation is to allow more flexible definion of regions, particularly the proximal and distal sets thereof.
The other motivation is that the author finds it much simpler to reason about, however others find the existing approach easier to reason about.

The changes:
 * `mextent` does not always include points on the cover at fork points.
   * it still enforces that its constituent cables have no intersections and are ordered.
 * a `super` region expression adds the cover points to a region.
 * update `most_proximal` to return the `minset` of the proximal points in a region's cables.
 * fix some cut and paste errors in comments and printing of locset expressions.
21c400b2

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Arbor Library

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Arbor is a library for implementing performance portable network simulations of multi-compartment neuron models.

An installation guide and library documentation are available online at Read the Docs.

Submit a ticket if you have any questions or want help.

Citing Arbor

The Arbor software can be cited via Zenodo: DOI.

Previous versions of Arbor can be cited specifically:

  • Version 0.2: DOI
  • Version 0.1: DOI

The following BibTeX entry can be used to cite Arbor:

@INPROCEEDINGS{
    paper:arbor2019,
    author={N. A. {Akar} and B. {Cumming} and V. {Karakasis} and A. {Küsters} and W. {Klijn} and A. {Peyser} and S. {Yates}},
    booktitle={2019 27th Euromicro International Conference on Parallel, Distributed and Network-Based Processing (PDP)},
    title={{Arbor --- A Morphologically-Detailed Neural Network Simulation Library for Contemporary High-Performance Computing Architectures}},
    year={2019}, month={feb}, volume={}, number={},
    pages={274--282},
    doi={10.1109/EMPDP.2019.8671560},
    ISSN={2377-5750}}

Alternative citation formats for the paper can be downloaded here, and a preprint is available at arXiv.