Metadata-Version: 2.1
Name: bluepysnap
Version: 0.5.2
Summary: Simulation and Neural network Analysis Productivity layer
Home-page: https://github.com/BlueBrain/snap
Author: Blue Brain Project, EPFL
License: LGPLv3
Description: |banner|
        
        |build_status| |license| |coverage| |docs|
        
        Blue Brain SNAP
        ===============
        
        Blue Brain Simulation and Neural network Analysis Productivity layer (Blue Brain SNAP).
        
        Blue Brain SNAP is a Python library for accessing BlueBrain circuit models represented in
        `SONATA <https://github.com/AllenInstitute/sonata/blob/master/docs/SONATA_DEVELOPER_GUIDE.md>`__ format.
        
        Installation
        ------------
        
        Blue Brain SNAP can be installed using ``pip``::
        
           pip install bluepysnap
        
        Usage
        -----
        
        There are two main interface classes provided by Blue Brain SNAP:
        
        |circuit| corresponds to the *static* structure of a neural network, that is:
        
        - node positions and properties,
        - edge positions and properties, and,
        - detailed morphologies.
        
        |simulation| corresponds to the *dynamic* data for a neural network simulation, including:
        
        - spike reports,
        - soma reports, and,
        - compartment reports.
        
        Most of Blue Brain SNAP methods return `pandas <https://pandas.pydata.org>`__ Series or DataFrames,
        indexed in a way to facilitate combining data from different sources (that is, by node or edge IDs).
        
        Among other dependencies, Blue Brain SNAP relies on Blue Brain Project provided libraries:
        
        - `libsonata <https://github.com/BlueBrain/libsonata>`__, for accessing SONATA files
        - `NeuroM <https://github.com/BlueBrain/NeuroM>`__, for accessing detailed morphologies
        
        Tools
        -----
        
        Blue Brain SNAP also provides a SONATA circuit validator for verifying circuits.
        
        The validation includes:
        
        - integrity of the circuit config file.
        - existence of the different node/edges files and ``components`` directories.
        - presence of the "sonata required" field for node/edges files.
        - the correctness of the edge to node population/ids bindings.
        - existence of the morphology files for the nodes.
        
        This functionality is provided by either the cli function:
        
        .. code-block:: shell
        
            bluepysnap validate my/circuit/path/circuit_config.json
        
        
        Or a python free function:
        
        .. code-block:: python3
        
            from bluepysnap.circuit_validation import validate
            errors = validate("my/circuit/path/circuit_config.json")
        
        Acknowledgements
        ----------------
        
        This project/research has received funding from the European Union’s Horizon 2020 Framework Programme for Research and Innovation under the Specific Grant Agreement No. 785907 (Human Brain Project SGA2).
        
        The Blue Brain Project would like to thank `Dr Eilif Muller <https://github.com/markovg>`_, the author of the precursor to Blue Brain SNAP, for his invaluable insights and contributions
        
        License
        -------
        
        Blue Brain SNAP is licensed under the terms of the GNU Lesser General Public License version 3,
        unless noted otherwise, for example, external dependencies.
        Refer to `COPYING.LESSER <https://github.com/BlueBrain/snap/blob/master/COPYING.LESSER>`__ and
        `COPYING <https://github.com/BlueBrain/snap/blob/master/COPYING>`__ for details.
        
        Copyright (C) 2019-2020, Blue Brain Project/EPFL and contributors.
        
        This program is free software: you can redistribute it and/or modify
        it under the terms of the GNU Lesser General Public License version 3
        as published by the Free Software Foundation.
        
        This program is distributed in the hope that it will be useful,
        but WITHOUT ANY WARRANTY; without even the implied warranty of
        MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.  See the
        GNU Lesser General Public License for more details.
        
        You should have received a copy of the GNU Lesser General Public License
        along with this program.  If not, see <https://www.gnu.org/licenses/>.
        
        
        .. |build_status| image:: https://travis-ci.com/BlueBrain/snap.svg?branch=master
           :target: https://travis-ci.com/BlueBrain/snap
           :alt: Build Status
        
        .. |license| image:: https://img.shields.io/pypi/l/bluepysnap
                        :target: https://github.com/BlueBrain/snap/blob/master/COPYING.LESSER
        
        .. |coverage| image:: https://codecov.io/github/BlueBrain/snap/coverage.svg?branch=master
           :target: https://codecov.io/github/BlueBrain/snap?branch=master
           :alt: codecov.io
        
        .. |docs| image:: https://readthedocs.org/projects/bluebrainsnap/badge/?version=latest
                     :target: https://bluebrainsnap.readthedocs.io/
                     :alt: documentation status
        
        .. substitutions
        .. |banner| image:: doc/source/_images/BlueBrainSNAP.jpg
        .. |circuit| replace:: **Circuit**
        .. |simulation| replace:: **Simulation**
        
Keywords: SONATA,BlueBrainProject
Platform: UNKNOWN
Classifier: Development Status :: 3 - Alpha
Classifier: Programming Language :: Python :: 2.7
Classifier: Programming Language :: Python :: 3.6
Classifier: Operating System :: POSIX
Classifier: Topic :: Scientific/Engineering
Classifier: Topic :: Utilities
Classifier: License :: OSI Approved :: GNU Lesser General Public License v3 (LGPLv3)
Description-Content-Type: text/x-rst
Provides-Extra: docs
Provides-Extra: plots
