Merge remote-tracking branch 'origin/main' into main

Author: Evolutionary-Intelligence

README.md

@@ -1,6 +1,6 @@
 # PyPop7: a Pure-PYthon open-source library of POPulation-based (evolution / swarm / pattern search) black-box OPtimization
 
-[![Python](https://img.shields.io/badge/Python-3-yellow.svg)](https://www.python.org/) [![GNU General Public License v3.0](https://img.shields.io/badge/license-GNU%20GPL--v3.0-green.svg)](https://github.com/Evolutionary-Intelligence/pypop/blob/main/LICENSE) [![PyPI for PyPop7](https://img.shields.io/badge/PyPI-pypop7-yellowgreen.svg)](https://pypi.org/project/pypop7/) [![Documentation Status](https://readthedocs.org/projects/pypop/badge/?version=latest)](https://pypop.readthedocs.io/en/latest/?badge=latest) [![arxiv](https://img.shields.io/badge/arxiv-2212.05652-red)](https://arxiv.org/abs/2212.05652) [![Downloads](https://static.pepy.tech/badge/pypop7)](https://pepy.tech/project/pypop7) [![Downloads](https://static.pepy.tech/badge/pypop7/month)](https://pepy.tech/project/pypop7)
+[![GNU General Public License v3.0](https://img.shields.io/badge/license-GNU%20GPL--v3.0-green.svg)](https://github.com/Evolutionary-Intelligence/pypop/blob/main/LICENSE) [![PyPI for PyPop7](https://img.shields.io/badge/PyPI-pypop7-yellowgreen.svg)](https://pypi.org/project/pypop7/) [![Documentation Status](https://readthedocs.org/projects/pypop/badge/?version=latest)](https://pypop.readthedocs.io/en/latest/?badge=latest) [![arxiv](https://img.shields.io/badge/arxiv-2212.05652-red)](https://arxiv.org/abs/2212.05652) [![Downloads](https://static.pepy.tech/badge/pypop7)](https://pepy.tech/project/pypop7) [![Downloads](https://static.pepy.tech/badge/pypop7/month)](https://pepy.tech/project/pypop7) [![WeChat-Group](https://img.shields.io/badge/WeChat-green)](docs/logo/WeChatGroupTo20240710.jpg)
 
 ```PyPop7``` is a *Pure-PYthon* open-source library of **POPulation-based OPtimization** for single-objective, real-parameter, black-box problems (*currently actively maintained*). Its goal is to provide a *unified* interface and a set of *elegant* algorithmic implementations (e.g., evolutionary algorithms, swarm-based optimizers, pattern search, etc.) for **Black-Box Optimization (BBO)**, *particularly population-based optimizers*, in order to facilitate research repeatability, benchmarking of BBO, and especially real-world applications.
 
@@ -165,6 +165,8 @@ The basic folder structrue of this open-source library is presented below:
 
 * `.circleci`: for automatic testing based on [pytest](https://docs.pytest.org/en/8.2.x/).
   * `config.yml`: configuration file in [CircleCI](https://circleci.com/).
+* `.github`: all configuration files for GitHub.
+  * `workflows`": for [https://github.com/Evolutionary-Intelligence/pypop/actions](https://github.com/Evolutionary-Intelligence/pypop/actions).
 * `docs`: for [online](https://pypop.readthedocs.io/) documentations.
 * `pypop7`: all [Python](https://www.python.org/) source code of BBO. 
 * `tutorials`: a set of tutorials.
@@ -358,8 +360,7 @@ For each algorithm family, we try to provide several *representative* applicatio
   * Spang, III, H.A., 1962. [A review of minimization techniques for nonlinear functions](https://epubs.siam.org/doi/abs/10.1137/1004089). SIAM Review, 4(4), pp.343-365.
   * Hooke, R. and Jeeves, T.A., 1961. [“Direct search” solution of numerical and statistical problems](https://dl.acm.org/doi/10.1145/321062.321069). Journal of the ACM, 8(2), pp.212-229. [ [Python - pymoo](https://pymoo.org/algorithms/soo/pattern.html) | [This Week's Citation Classic](http://garfield.library.upenn.edu/classics1980/A1980JK10100001.pdf) ]
   * Box, G.E., 1957. [Evolutionary operation: A method for increasing industrial productivity](https://rss.onlinelibrary.wiley.com/doi/abs/10.2307/2985505). Journal of the Royal Statistical Society: Series C (Applied Statistics), 6(2), pp.81-101.
-  * Fermi, E. and Metropolis N., 1952. [Numerical solution of a minimum problem](https://www.osti.gov/servlets/purl/4377177). Los Alamos Scientific Lab., Los Alamos, NM.
-    * Anderson, H.L., Davidon, W.C., Glicksman, M. and Kruse, U.E., 1955. [Scattering of positive pions by hydrogen at 189 MeV](https://journals.aps.org/pr/abstract/10.1103/PhysRev.100.279). Physical Review, 100(1), p.279.
+  * Fermi, E. and Metropolis N., 1952. [Numerical solution of a minimum problem](https://www.osti.gov/servlets/purl/4377177). Technical Report, Los Alamos Scientific Lab.
   * Applications: e.g., [NM: [Gokhale et al., 2023, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.2207595120); [Hayashi, 2022, Bernoulli](https://doi.org/10.3150/21-BEJ1344); [Vanunu et al., 2021, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.2025646118); [Williams et al., 2021, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.2106237118); [Fleishman et al., Science, 2020](https://www.science.org/doi/abs/10.1126/science.aax6874); [Nanni et al., 2020, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.2023757118); [Steinrücken et al., 2019, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1905060116); [Omran et al., 2019, Science](https://www.science.org/doi/10.1126/science.aax9743); [Sparrow et al., 2018, Nature](https://www.nature.com/articles/s41586-018-0152-9); [Prochazka&Vogl, 2017, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1617252114); [Murphy&Brincke, 2017, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.2016.2591); [Gillon et al., 2017, Nature](https://www.nature.com/articles/nature21360); [Aghaeepour et al., 2017, Science Immunol.](https://www.science.org/doi/full/10.1126/sciimmunol.aan2946); [Sayegh et al., 2017, TS](https://pubsonline.informs.org/doi/10.1287/trsc.2017.0787); [Landis&Schraiber, 2017, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1710920114); [Kim et al., 2016, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1618883114); [Chan et al., 2014, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.2013.1840); [Chan et al., 2014, MKSC](https://pubsonline.informs.org/doi/abs/10.1287/mksc.2013.0831); [Bajikar et al., 2014, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1311647111); [Lee et al., 2014, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1313039111); [Wang et al., 2012, PRL](https://journals.aps.org/prl/abstract/10.1103/PhysRevLett.109.175502); [Lau&Rubinstein, Nature, 2012](https://www.nature.com/articles/nature10699); [Brown et al., 2012, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.1120.1563); [Contreras et al., 2012, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1216953109); [Morlon et al., 2011, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1102543108); [Forstmann et al., 2010, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1004932107); [Balachander et al., 2009, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.1090.1056); [Jayanthi et al., 2009, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.1090.1002); [Farrell et al., 2009, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.0906845107); [Forstmann et al., 2008, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.0805903105); [Rouder et al., 2008, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.0711295105); [Sapir et al., 2005, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.0504678102); [Amonlirdviman et al., 2005, Science](https://www.science.org/doi/abs/10.1126/science.1105471); [Cowan et al., 2004, PS](https://journals.sagepub.com/doi/abs/10.1111/j.0956-7976.2004.00732.x); [Zhou et al., 2004, PS](https://journals.sagepub.com/doi/abs/10.1111/j.0963-7214.2004.01502007.x); [Draganska&Jain, 2004, MS](https://pubsonline.informs.org/doi/abs/10.1287/mnsc.1040.0227); [Fain&Levitt, 2003, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.1732312100); [Dennis et al., 2002, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.062398499); [Sudhir, 2001, MKSC](https://pubsonline.informs.org/doi/abs/10.1287/mksc.20.1.42.10196); [Rouder, 2001, PS](https://journals.sagepub.com/doi/abs/10.1111/1467-9280.00358); [Wolszczan, 1994, Science](https://www.science.org/doi/abs/10.1126/science.264.5158.538); [Polvani et al., 1990, Science](https://www.science.org/doi/abs/10.1126/science.249.4975.1393); [Lee et al., 1987, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.84.9.2590); [Sabath et al., 1986, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.83.13.4739); [Burch et al., 1985, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.82.21.7434); [Regoeczi et al., 1982, PNAS](https://www.pnas.org/doi/abs/10.1073/pnas.79.7.2226); [Brasseur et al., 1982, PNAS](); [Korn et al., 1981, Science](https://www.science.org/doi/abs/10.1126/science.6266015); [Dean et al., 1975, Science](https://www.science.org/doi/10.1126/science.189.4205.805)]; [HJ: [Kalita et al., 2023, Nature](https://www.nature.com/articles/s41586-023-06283-2); [Washington et al, 2023](https://arxiv.org/pdf/2301.07822.pdf); [Huynh et al., 2023](https://arxiv.org/ftp/arxiv/papers/2304/2304.05603.pdf); [Kucher et al., 2022, SPLC](https://dl.acm.org/doi/abs/10.1145/3503229.3547041); [Pepe et al., 2021, IEEE-TASLP](https://ieeexplore.ieee.org/abstract/document/9729497); [Khaledian et al., 2018, IEEE-TMTT](https://ieeexplore.ieee.org/abstract/document/8335770); [Luhar et al., 2015, JFM](https://www.cambridge.org/core/journals/journal-of-fluid-mechanics/article/framework-for-studying-the-effect-of-compliant-surfaces-on-wall-turbulence/47B8C79442109015690B6B16F891DF09); [Paxton et al., 2013, ApJS](https://iopscience.iop.org/article/10.1088/0067-0049/208/1/4); [Schneider&Excoffier, 1999, Genetics](https://academic.oup.com/genetics/article/152/3/1079/6034947); [Ditchfield et al., 1971, JCP](https://aip.scitation.org/doi/10.1063/1.1674902)].
 * Random Search (RS)
   * Stich, S.U., 2014. [On low complexity acceleration techniques for randomized optimization](https://link.springer.com/chapter/10.1007/978-3-319-10762-2_13). In PPSN (pp. 130-140). Springer.