tidy up readme links

README.Rmd

@@ -19,7 +19,7 @@ knitr::opts_chunk$set(
 
 <!-- badges: start -->
 [![R-CMD-check](https://github.com/pboesu/rucrdtw/workflows/R-CMD-check/badge.svg)](https://github.com/pboesu/rucrdtw/actions)
-[![codecov](https://codecov.io/gh/pboesu/rucrdtw/branch/master/graph/badge.svg)](https://codecov.io/gh/pboesu/rucrdtw)
+[![codecov](https://codecov.io/gh/pboesu/rucrdtw/branch/master/graph/badge.svg)](https://app.codecov.io/gh/pboesu/rucrdtw)
 [![CRAN_Status_Badge](http://www.r-pkg.org/badges/version/rucrdtw)](https://cran.r-project.org/package=rucrdtw)
 [![Peer_Reviewed_Software](https://img.shields.io/badge/Peer%20Reviewed-%E2%9C%93-green.svg)](http://doi.org/10.21105/joss.00100)
 [![DOI:10.21105/joss.00100](https://img.shields.io/badge/DOI-10.21105%2Fjoss.00100-blue.svg)](http://doi.org/10.21105/joss.00100)
@@ -102,6 +102,6 @@ COPYRIGHT 2016: Philipp Boersch-Supan (R bindings)
 
 Licensed under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at
 
-http://www.apache.org/licenses/LICENSE-2.0
+https://www.apache.org/licenses/LICENSE-2.0
 
 Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License.

README.md

@@ -1,12 +1,11 @@
-rucrdtw - R Bindings for the UCR Suite
-======================================
+# rucrdtw - R Bindings for the UCR Suite
 
 <!-- badges: start -->
 
 [![R-CMD-check](https://github.com/pboesu/rucrdtw/workflows/R-CMD-check/badge.svg)](https://github.com/pboesu/rucrdtw/actions)
-[![codecov](https://codecov.io/gh/pboesu/rucrdtw/branch/master/graph/badge.svg)](https://codecov.io/gh/pboesu/rucrdtw)
-[![CRAN\_Status\_Badge](http://www.r-pkg.org/badges/version/rucrdtw)](https://cran.r-project.org/package=rucrdtw)
-[![Peer\_Reviewed\_Software](https://img.shields.io/badge/Peer%20Reviewed-%E2%9C%93-green.svg)](http://doi.org/10.21105/joss.00100)
+[![codecov](https://codecov.io/gh/pboesu/rucrdtw/branch/master/graph/badge.svg)](https://app.codecov.io/gh/pboesu/rucrdtw)
+[![CRAN_Status_Badge](http://www.r-pkg.org/badges/version/rucrdtw)](https://cran.r-project.org/package=rucrdtw)
+[![Peer_Reviewed_Software](https://img.shields.io/badge/Peer%20Reviewed-%E2%9C%93-green.svg)](http://doi.org/10.21105/joss.00100)
 [![DOI:10.21105/joss.00100](https://img.shields.io/badge/DOI-10.21105%2Fjoss.00100-blue.svg)](http://doi.org/10.21105/joss.00100)
 <!-- badges: end -->
 
@@ -18,8 +17,7 @@ is several orders of magnitudes faster than naive DTW searches.
 
 ![](inst/img/dtw-comparison-1.png)
 
-Installation
-------------
+## Installation
 
 Install `rucrdtw` from GitHub:
 
@@ -28,8 +26,7 @@ install.packages("devtools")
 devtools::install_github("pboesu/rucrdtw")
 ```
 
-Examples
---------
+## Examples
 
 Examples are contained in the vignette `rucrdtw`:
 
@@ -38,33 +35,28 @@ library("rucrdtw")
 vignette("using_rucrdtw")
 ```
 
-Citation
---------
+## Citation
 
 To cite rucrdtw in publications, please use:
 
 Boersch-Supan (2016). rucrdtw: Fast time series subsequence search in R.
-The Journal of Open Source Software
-<a href="http://doi.org/10.21105/joss.00100" class="uri">http://doi.org/10.21105/joss.00100</a>
+The Journal of Open Source Software <http://doi.org/10.21105/joss.00100>
 
 Rakthanmanon et al. (2012). Searching and mining trillions of time
 series subsequences under dynamic time warping. SIGKDD
-<a href="http://doi.org/10.1145/2339530.2339576" class="uri">http://doi.org/10.1145/2339530.2339576</a>
+<http://doi.org/10.1145/2339530.2339576>
 
-Bug reports and contributions
------------------------------
+## Bug reports and contributions
 
-Please file a github issue at
-<a href="https://github.com/pboesu/rucrdtw/issues" class="uri">https://github.com/pboesu/rucrdtw/issues</a>
+Please file a github issue at <https://github.com/pboesu/rucrdtw/issues>
 if you find any problems or have feature suggestions. Contributions (via
 pull requests or otherwise) are welcome. Read more about how to
 contribute and the code of conduct for contributions
 [here](https://github.com/pboesu/rucrdtw/blob/master/CONTRIBUTING.md).
 If you don’t like github you can contact the package maintainer at
-<a href="mailto:[email protected]" class="email">[email protected]</a>.
+<[email protected]>.
 
-License
--------
+## License
 
 COPYRIGHT 2012: Thanawin Rakthanmanon, Bilson Campana, Abdullah Mueen,
 Gustavo Batista and Eamonn Keogh. (UCR Suite source code)
@@ -75,7 +67,7 @@ Licensed under the Apache License, Version 2.0 (the “License”); you may
 not use this file except in compliance with the License. You may obtain
 a copy of the License at
 
-<a href="http://www.apache.org/licenses/LICENSE-2.0" class="uri">http://www.apache.org/licenses/LICENSE-2.0</a>
+<https://www.apache.org/licenses/LICENSE-2.0>
 
 Unless required by applicable law or agreed to in writing, software
 distributed under the License is distributed on an “AS IS” BASIS,

vignettes/rucrdtw.bib

@@ -17,7 +17,7 @@ @inproceedings{berndt1994using
   pages={359--370},
   year={1994},
   organization={AAAI},
-  url={http://www.aaai.org/Library/Workshops/1994/ws94-03-031.php}
+  url={https://www.aaai.org/Library/Workshops/1994/ws94-03-031.php}
 }
 
 @article{Rcpp,