Merge pull request #231 from spedygiorgio/codex/fix-invalid-urls-in-package-documentation

Fix vignette and CITATION URLs to canonical HTTPS and archived links

Author: spedygiorgio

inst/CITATION

@@ -9,5 +9,5 @@ bibentry(
   volume   = "9",
   number   = "2",
   pages    = "84--104",
-  url      = "https://journal.r-project.org/archive/2017/RJ-2017-036/index.html"
-)
+  url      = "https://journal.r-project.org/articles/RJ-2017-036/index.html"
+)

vignettes/markovchainBiblio.bib

@@ -86,7 +86,7 @@ @manual{pkg:RcppParallel
                   {Intel}},
   year =         {2016},
   note =         {R package version 4.3.19},
-  url =          {http://rcppcore.github.io/RcppParallel/}
+  url =          {https://rcppcore.github.io/RcppParallel/}
 }
 
 @manual{pkg:MultinomialCI,
@@ -96,7 +96,7 @@ @manual{pkg:MultinomialCI
   author =       {Pablo J. Villacorta},
   year =         {2012},
   note =         {R package version 1.0},
-  url =          {http://CRAN.R-project.org/package=MultinomialCI}
+  url =          {https://CRAN.R-project.org/package=MultinomialCI}
 }
 
 @article{sison1995simultaneous,
@@ -134,7 +134,7 @@ @misc{bardPpt
                   Discrete-Time Markov Chains},
   month =        {April},
   year =         {2000},
-  url ={http://www.me.utexas.edu/~jensen%20/ORMM/instruction/powerpoint/or_models_09/12.5_dtmc2.ppt}
+  url =          {https://www.me.utexas.edu/~jensen%20/ORMM/instruction/powerpoint/or_models_09/12.5_dtmc2.ppt}
 }
 
 @incollection{bremaud1999discrete,
@@ -176,7 +176,7 @@ @article{pkg:igraph
   year =         {2006},
   volume =       {Complex Systems},
   pages =        {1695},
-  url =          {http://igraph.sf.net}
+  url =          {https://igraph.sourceforge.net/}
 }
 
 @book{denuit2007actuarial,
@@ -214,15 +214,15 @@ @misc{renaldoMatlab
   title =        {Notes for Math 450 \proglang{MATLAB} Listings for
                   Markov Chains},
   year =         {2007},
-  url =          {http://www.math.wustl.edu/~feres/Math450Lect04.pdf}
+  url =          {https://www.math.wustl.edu/~feres/Math450Lect04.pdf}
 }
 
 @manual{mcmcR,
   title =        {mcmc: Markov Chain Monte Carlo},
   author =       {Charles J. Geyer and Leif T. Johnson},
   year =         {2013},
   note =         {\proglang{R} package version 0.9-2},
-  url =          {http://CRAN.R-project.org/package=mcmc}
+  url =          {https://CRAN.R-project.org/package=mcmc}
 }
 
 @incollection{glassHall,
@@ -242,7 +242,7 @@ @manual{expmR
                   {[email protected]}},
   year =         {2013},
   note =         {R package version 0.99-1},
-  url =          {http://CRAN.R-project.org/package=expm}
+  url =          {https://CRAN.R-project.org/package=expm}
 }
 
 @manual{hmmR,
@@ -251,7 +251,7 @@ @manual{hmmR
                   and {www.linhi.com}},
   year =         {2010},
   note =         {\proglang{R} package version 1.0},
-  url =          {http://CRAN.R-project.org/package=HMM}
+  url =          {https://CRAN.R-project.org/package=HMM}
 }
 
 @book{landOfOz,
@@ -271,7 +271,7 @@ @article{msmR
   volume =       {38},
   pages =        {1--29},
   number =       {8},
-  url =          {http://www.jstatsoft.org/v38/i08/}
+  url =          {https://www.jstatsoft.org/v38/i08/}
 }
 
 @misc{manchesterR,
@@ -283,7 +283,7 @@ @misc{manchesterR
   howpublished = {Electronic},
   organization = {Manchester Centre for Health Economics},
   note =         {Presented on Manchester R Meeting},
-  url ={http://www.rmanchester.org/Presentations/Ian%20Jacob%20-%20Is%20R%20Cost%20Effective.pdf}
+  url =          {https://web.archive.org/web/20140912221035/http://www.rmanchester.org/Presentations/Ian%20Jacob%20-%20Is%20R%20Cost%20Effective.pdf}
 }
 
 @TECHREPORT{blandenEtAlii,
@@ -294,21 +294,21 @@ @TECHREPORT{blandenEtAlii
   year =         {2005},
   owner =        {Giorgio Copia},
   timestamp =    {2014.01.01},
-  url ={http://cep.lse.ac.uk/about/news/IntergenerationalMobility.pdf}
+  url =          {https://cep.lse.ac.uk/about/news/IntergenerationalMobility.pdf}
 }
 
 @misc{Konstantopoulos2009,
   author =       {Konstantopoulos, Takis},
   title =        {Markov Chains and Random Walks},
   year =         {2009},
-  url ={http://www2.math.uu.se/~takis/public_html/McRw/mcrw.pdf}
+  url =          {https://www2.math.uu.se/~takis/public_html/McRw/mcrw.pdf}
 }
 
 @misc{montgomery,
   author =       {James Montgomery},
   title =        {Communication Classes},
   year =         {2009},
-  url =          {http://www.ssc.wisc.edu/~jmontgom/commclasses.pdf}
+  url =          {https://www.ssc.wisc.edu/~jmontgom/commclasses.pdf}
 }
 
 @manual{DTMCPackR,
@@ -317,7 +317,7 @@ @manual{DTMCPackR
   author =       {William Nicholson},
   year =         {2013},
   note =         {R package version 0.1-2},
-  url =          {http://CRAN.R-project.org/package=DTMCPack}
+  url =          {https://CRAN.R-project.org/package=DTMCPack}
 }
 
 @article{averyHenderson,
@@ -338,22 +338,22 @@ @manual{rSoftware
   organization = {R Foundation for Statistical Computing},
   address =      {Vienna, Austria},
   year =         {2013},
-  url =          {http://www.R-project.org/}
+  url =          {https://www.R-project.org/}
 }
 
 @manual{pkg:matlab,
   title =        {\pkg{matlab}: \proglang{MATLAB} emulation package},
   author =       {P. Roebuck},
   year =         {2011},
   note =         {R package version 0.8.9},
-  url =          {http://CRAN.R-project.org/package=matlab}
+  url =          {https://CRAN.R-project.org/package=matlab}
 }
 
 @misc{probBook,
   author =       {Laurie Snell},
   title =        {Probability Book: chapter 11},
   year =         {1999},
-  url ={http://www.dartmouth.edu/~chance/teaching_aids/books_articles/probability_book/Chapter11.pdf}
+  url =          {https://web.archive.org/web/20150721052835/http://www.dartmouth.edu/~chance/teaching_aids/books_articles/probability_book/Chapter11.pdf}
 }
 
 @article{pkg:markovchain,
@@ -362,7 +362,7 @@ @article{pkg:markovchain
   year =         {2017},
   journal =      {{The R Journal}},
   url =
-                  {https://journal.r-project.org/archive/2017/RJ-2017-036/index.html}
+                 {https://journal.r-project.org/articles/RJ-2017-036/index.html}
 }
 
 
@@ -381,7 +381,7 @@ @misc{wiki:markov
   year =         {2013},
   note =         {[Online; accessed 23-August-2013]},
   url =
-                  {http://en.wikipedia.org/w/index.php?title=Markov_chain&oldid=568910294}
+                 {https://en.wikipedia.org/w/index.php?title=Markov_chain&oldid=568910294}
 }
 
 @manual{CreditMetricsR,
@@ -405,7 +405,7 @@ @misc{mathematica9MarkovChain
   author =       {Wolfram Research, Inc.},
   year =         {2013},
   organization = {Wolfram Research, Inc.},
-  url ={http://www.wolfram.com/mathematica/new-in-9/markov-chains-and-queues/structural-properties-of-finite-markov-processes.html}
+  url =          {https://www.wolfram.com/mathematica/new-in-9/markov-chains-and-queues/structural-properties-of-finite-markov-processes.html}
 }
 
 @article{sch,
@@ -415,7 +415,7 @@ @article{sch
                   Comparison, Entropy Rate, and Out-of-class Modeling},
   journal =      {Sante Fe Working Papers},
   year =         {2007},
-  url =          {http://arxiv.org/abs/math/0703715/}
+  url =          {https://arxiv.org/abs/math/0703715/}
 }
 
 @article{mstateR,
@@ -428,7 +428,7 @@ @article{mstateR
   volume =       {38},
   pages =        {1--30},
   number =       {7},
-  url =          {http://www.jstatsoft.org/v38/i07/}
+  url =          {https://www.jstatsoft.org/v38/i07/}
 }
 
 @mastersthesis{MSkuriat,
@@ -560,7 +560,7 @@ @book{GrinsteadSnell
     edition = {Version dated 4 July 2006},
     publisher = {American Mathematical Society},
     title = {{Grinstead and Snell's Introduction to Probability}},
-    url = {http://math.dartmouth.edu/\~{}prob/prob/prob.pdf},
+    url = {https://math.dartmouth.edu/~%7B%7Dprob/prob/prob.pdf},
     year = {2006}
 }
 
@@ -595,4 +595,4 @@ @article{Tarjan
   author = {Robert Tarjan},
   title = {Depth-First Search and Linear Graph Algorithms},
   journal = {{SIAM} Journal on Computing}
-}
+}