Restructured directories. Removed most extraneous files

sagastra · Oct 24, 2019 · 689d843 · 689d843
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diff --git a/.gitignore b/.gitignore
@@ -15,4 +15,6 @@ docs/_build
 .ipynb_checkpoints
 */.ipynb_checkpoints/*
 .DS_Store
-.vscode
+.vscode
+
+*.pyc
diff --git a/LICENSE b/LICENSE
@@ -1,6 +1,6 @@
 MIT License
 
-Copyright (c) 2018 Markus Quade
+Copyright (c) 2019 Markus Quade
 
 Permission is hereby granted, free of charge, to any person obtaining a copy
 of this software and associated documentation files (the "Software"), to deal

diff --git a/MANIFEST.in b/MANIFEST.in
diff --git a/README.rst b/README.rst
@@ -1,58 +1,20 @@
-sparsereg
+sindy
 =========
 
-|travis| |pypi| |codecov| |zenodo|
-
-**sparsereg** is a collection of modern sparse (regularized) regression
-algorithms.
+**sindy** is a sparse regression package with several implementations for Sparse Identification of Nonlinear Dynamical systems (SINDy).
 
 Installation
 ------------
 
-``pip install sparsereg``
-
-Citation
---------
-
-If you use sparsereg please consider a citation:
-
-::
+``pip install sindy``
 
-    @misc{markus_quade_sparsereg,
-      author       = {Markus Quade},
-      title        = {sparsereg - collection of modern sparse regression algorithms},
-      month        = feb,
-      year         = 2018,
-      doi          = {10.5281/zenodo.1173754},
-      url          = {https://github.com/ohjeah/sparsereg}
-    }
 
 Implemented algorithms
 ----------------------
 
--  Mcconaghy, T. (2011). FFX: Fast, Scalable, Deterministic Symbolic
-   Regression Technology. Genetic Programming Theory and Practice IX,
-   235-260. `DOI:
-   10.1007/978-1-4614-1770-5_13 <http://dx.doi.org/10.1007/978-1-4614-1770-5_13>`__
 -  Brunton, Steven L., Joshua L. Proctor, and J. Nathan Kutz.
    “Discovering governing equations from data by sparse identification
    of nonlinear dynamical systems.” Proceedings of the National Academy
    of Sciences 113.15 (2016): 3932-3937. `DOI:
    10.1073/pnas.1517384113 <http://dx.doi.org/10.1073/pnas.1517384113>`__
--  Bouchard, Kristofer E. “Bootstrapped Adaptive Threshold Selection for
-   Statistical Model Selection and Estimation.” arXiv preprint
-   arXiv:1505.03511 (2015).
--  Ignacio Arnaldo, Una-May O’Reilly, and Kalyan Veeramachaneni.
-   “Building Predictive Models via Feature Synthesis.” In Proceedings of
-   the 2015 Annual Conference on Genetic and Evolutionary Computation
-   (GECCO ’15), Sara Silva (Ed.). ACM, New York, NY, USA, 983-990. `DOI:
-   10.1145/2739480.2754693 <http://dx.doi.org/10.1145/2739480.2754693>`__
 
-.. |travis| image:: https://travis-ci.org/Ohjeah/sparsereg.svg?branch=master
-   :target: https://travis-ci.org/Ohjeah/sparsereg
-.. |pypi| image:: https://badge.fury.io/py/sparsereg.svg
-   :target: https://badge.fury.io/py/sparsereg
-.. |codecov| image:: https://codecov.io/gh/Ohjeah/sparsereg/branch/master/graph/badge.svg
-   :target: https://codecov.io/gh/Ohjeah/sparsereg
-.. |zenodo| image:: https://zenodo.org/badge/80389199.svg
-   :target: https://zenodo.org/badge/latestdoi/80389199
diff --git a/docs/conf.py b/docs/conf.py
diff --git a/docs/index.rst b/docs/index.rst
diff --git a/docs/templates/hacks.html b/docs/templates/hacks.html
diff --git a/docs/templates/sidebarintro.html b/docs/templates/sidebarintro.html
diff --git a/example/abrupt-sindy/.gitignore b/example/abrupt-sindy/.gitignore
diff --git a/example/abrupt-sindy/README.md b/example/abrupt-sindy/README.md
diff --git a/example/abrupt-sindy/code/Lorenz.ipynb b/example/abrupt-sindy/code/Lorenz.ipynb
diff --git a/example/abrupt-sindy/code/Noise_Sampling_Rate.ipynb b/example/abrupt-sindy/code/Noise_Sampling_Rate.ipynb
diff --git a/example/abrupt-sindy/code/VanderPol.ipynb b/example/abrupt-sindy/code/VanderPol.ipynb