prep for v3.3 (#163)

* Update changelog and add citing section. 

Co-authored-by: William Pringle <[email protected]>

README.md

@@ -89,7 +89,7 @@ All pull requests are tested with Jenkins on a local host. However, to ensure th
 References!
 ==============
 
-If you make use of `OceanMesh2D` please include a reference to [1], and to any of [2]-[5] if pertinent:
+If you make use of `OceanMesh2D` please include a reference to [1], and to any of [2]-[5] if pertinent ([latex .bib file](https://github.com/CHLNDDEV/OceanMesh2D/tree/Projection/UserGuide/OceanMesh2D_library.bib)). We would also appreciate using our [logo](https://github.com/CHLNDDEV/OceanMesh2D/tree/Projection/imgs) in a presentation featuring `OceanMesh2D`.
 ```
 
 [1] - Roberts, K. J., Pringle, W. J., and Westerink, J. J., 2019. 
@@ -108,6 +108,11 @@ If you make use of `OceanMesh2D` please include a reference to [1], and to any o
       Geoscientific Model Development Discussions. https://doi.org/10.5194/gmd-2020-123.
       
 ```
+In addition, best practice when using software in a scientific publication is to cite the permanent doi corresponding to the version used (e.g., for reproducibility). All our releases are archived at the following `Zenodo` repository doi [link](https://doi.org/10.5281/zenodo.1341384). 
+```
+Authors (202X). CHLNDDEV/OceanMesh2D: OceanMesh2D VX.X. Zenodo. https://doi.org/10.5281/zenodo.1341384
+```
+Please fill in the version (VX.X), author list and year corresponding to the version used.
 
 ## `DISCLAIMER: `
 The boundary of the meshing domain must be a polygon (first point equals the last and non-self intersecting) but it does not need to be simplified. Read the user guide for more information about the inputs.
@@ -128,16 +133,17 @@ Changelog
 
 The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 
-## Unreleased 
+### Unreleased 
 
-### Fixed
+### [3.3.0] - 2020-12-21
+## Fixed
 - Users without mapping toolbox could not read in shapefiles because of a bug that 
   made them required to have a 3d shapefiles.
 - plotting `gdat` with no shoreline. 
 - plotting a mesh's bathymetry with a non-zero datum using cmocean.
 - cell-averaging interpolation method in msh.interp fixed for unequal lon-lat DEM grid spacings
 
-### Added
+## Added
 - Mesh patch smoother
 - Ability to remesh abritary patches of elements within the domain while respecting user-defined mesh sizes and the patches boundaries. 
 - Ability to use the TPXO9 Atlas for the tidal bcs and sponge (inside tidal_data_to_ob.m and Calc_Sponge.m) by using '**' wildcards in place of the constituent name within the tidal atlas filename (the atlas has an individual file for each constituent).
@@ -146,7 +152,7 @@ The format is based on [Keep a Changelog](https://keepachangelog.com/en/1.0.0/)
 - "mapMeshProperties" msh method ports over mesh properties for a mesh subset
 - 'invert' option in the msh.interp method to turn off the DEM value inversion typically performed
 
-### Changed
+## Changed
 - for the make_bc msh method 'auto'/'auto_outer' options, allowing for the 'depth' method of classification to use the interpolated depths on the mesh if gdat is empty. 
 - improving help for make_bc msh method, Make_f15.m and Calc_Sponge.m
 - renamed "ExtractSubDomain.m" to "extract_subdomain.m"

UserGuide/OceanMesh2D_library.bib

@@ -0,0 +1,54 @@
+@article{Pringle2020,
+author = {Pringle, William J. and Wirasaet, Damrongsak and Roberts, Keith J. and Westerink, J.},
+doi = {10.5194/gmd-2020-123},
+journal = {Geoscientific Model Development Discussions},
+pages = {in review},
+title = {{Global Storm Tide Modeling with ADCIRC v55: Unstructured Mesh Design and Performance}},
+year = {2020}
+}
+@phdthesis{Roberts2019b,
+author = {Roberts, Keith J.},
+pages = {229},
+school = {University of Notre Dame},
+title = {{Unstructured Mesh Generation and Dynamic Load Balancing for Coastal Ocean Hydrodynamic Simulation}},
+url = {https://curate.nd.edu/show/4q77fr0022c},
+year = {2019}
+}
+@misc{OM_latest_version,
+author = {Roberts, Keith J. and Pringle, William J.},
+doi = {10.5281/zenodo.1341384},
+publisher = {Zenodo},
+title = {{CHLNDDEV/OceanMesh2D: OceanMesh2D VX.X}},
+year = {2020}
+}
+@article{Roberts2019,
+author = {Roberts, Keith J. and Pringle, William J. and Westerink, Joannes J.},
+doi = {10.5194/gmd-12-1847-2019},
+journal = {Geoscientific Model Development},
+pages = {1847--1868},
+title = {{OceanMesh2D 1.0: MATLAB-based software for two-dimensional unstructured mesh generation in coastal ocean modeling}},
+volume = {12},
+year = {2019}
+}
+@article{Roberts2019a,
+archivePrefix = {arXiv},
+arxivId = {10.31223/osf.io/nwde7},
+author = {Roberts, Keith J. and Pringle, William J. and Westerink, Joannes J. and Contreras, Maria Teresa and Wirasaet, Damrongsak},
+doi = {10.1016/j.ocemod.2019.101509},
+eprint = {osf.io/nwde7},
+journal = {Ocean Modelling},
+pages = {101509},
+primaryClass = {10.31223},
+title = {{On the automatic and a priori design of unstructured mesh resolution for coastal ocean circulation models}},
+volume = {144},
+year = {2019}
+}
+@techreport{Roberts2018a,
+author = {Roberts, Keith J. and Pringle, William James},
+doi = {10.13140/RG.2.2.21840.61446/1},
+institution = {University of Notre Dame},
+number = {June},
+pages = {39},
+title = {{OceanMesh2D: User guide - Precise distance-based two-dimensional automated mesh generation}},
+year = {2018}
+}