rstudio · yihui · Mar 15, 2019 · Mar 15, 2019 · Mar 15, 2019 · Mar 15, 2019
diff --git a/.Rbuildignore b/.Rbuildignore
@@ -1,3 +1,4 @@
+^appveyor\.yml$
 ^.*\.Rproj$
 ^\.Rproj\.user$
 ^\.travis\.yml$

diff --git a/DESCRIPTION b/DESCRIPTION
@@ -31,7 +31,8 @@ Authors@R: c(
   person("Dalton", "Hance", role = c("aut"), email = "dhance@usgs.gov"),
   person("Daniel", "Nüst", role = c("aut", "cph"), email = "daniel.nuest@uni-muenster.de", comment = c(ORCID = "0000-0002-0024-5046")),
   person("Petter", "Uvesten", role = c("aut", "cph"), email = "petter.uvesten.7362@student.lu.se"),
-  person("Elio", "Campitelli", role = c("aut", "cph"), email = "elio.campitelli@cima.fcen.uba.ar", comment = c(ORCID = "0000-0002-7742-9230"))
+  person("Elio", "Campitelli", role = c("aut", "cph"), email = "elio.campitelli@cima.fcen.uba.ar", comment = c(ORCID = "0000-0002-7742-9230")),
+  person("John", "Muschelli", role = c("aut", "cph"), email = "muschellij2@gmail.com", comment = c(ORCID = "0000-0001-6469-1750"))
   )
 Description: A suite of custom R Markdown formats and templates for
   authoring journal articles and conference submissions.

diff --git a/NAMESPACE b/NAMESPACE
@@ -13,6 +13,7 @@ export(copernicus_journal_abbreviations)
 export(ctex)
 export(ctex_template)
 export(elsevier_article)
+export(frontiers_article)
 export(ieee_article)
 export(jss_article)
 export(mdpi_article)

diff --git a/NEWS b/NEWS
@@ -1,6 +1,8 @@
 rticles 0.7
 ---------------------------------------------------------------------
 
+- Added the template for the Frontiers Journals (@muschellij2, @zkamvar, #209).
+
 - Added the template for the AGU Journals (thanks, @eliocamp, #199).
 
 - Updated the template for PLOS to version 3.5 (thanks, @uvesten, #196).

diff --git a/R/frontiers_article.R b/R/frontiers_article.R
@@ -0,0 +1,19 @@
+#' Frontiers open access journal format.
+#'
+#' Format for creating Frontiers journal articles. Adapted from
+#' \href{http://home.frontiersin.org/about/author-guidelines}{http://home.frontiersin.org/about/author-guidelines}.
+#'
+#' @inheritParams rmarkdown::pdf_document
+#' @param ... Additional arguments to \code{rmarkdown::pdf_document}
+#'
+#' @return R Markdown output format to pass to
+#'   \code{\link[rmarkdown:render]{render}}
+#'
+#' @export
+frontiers_article <- function(...,
+                              keep_tex = TRUE) {
+
+  inherit_pdf_document(...,
+                       template = find_resource("frontiers_article", "template.tex"),
+                       keep_tex = keep_tex)
+}
diff --git a/README.md b/README.md
@@ -60,6 +60,8 @@ The **rticles** package provides a suite of custom [R Markdown](http://rmarkdown
 
 - [The R Journal](https://journal.r-project.org/) articles
 
+- [Frontiers](https://www.frontiersin.org/) articles
+
 Under the hood, LaTeX templates are used to ensure that documents conform precisely to submission standards. At the same time, composition and formatting can be done using lightweight [markdown](https://rmarkdown.rstudio.com/authoring_basics.html) syntax, and R code and its output can be seamlessly included using [knitr](https://yihui.name/knitr/).
 
 Using **rticles** requires the prerequisites described below. You can get most of these automatically by installing the latest release of RStudio (instructions for using **rticles** without RStudio are also provided).

diff --git a/inst/rmarkdown/templates/frontiers_article/resources/template.tex b/inst/rmarkdown/templates/frontiers_article/resources/template.tex
@@ -0,0 +1,120 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+% This is just an example/guide for you to refer to when submitting manuscripts to Frontiers, it is not mandatory to use Frontiers .cls files nor frontiers.tex  %
+% This will only generate the Manuscript, the final article will be typeset by Frontiers after acceptance.   
+%                                              %
+%                                                                                                                                                         %
+% When submitting your files, remember to upload this *tex file, the pdf generated with it, the *bib file (if bibliography is not within the *tex) and all the figures.
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+%%% Version 3.4 Generated 2018/06/15 %%%
+%%% You will need to have the following packages installed: datetime, fmtcount, etoolbox, fcprefix, which are normally inlcuded in WinEdt. %%%
+%%% In http://www.ctan.org/ you can find the packages and how to install them, if necessary. %%%
+%%%  NB logo1.jpg is required in the path in order to correctly compile front page header %%%
+
+\documentclass[utf8]{frontiersSCNS} % for Science, Engineering and Humanities and Social Sciences articles
+%\documentclass[utf8]{frontiersHLTH} % for Health articles
+%\documentclass[utf8]{frontiersFPHY} % for Physics and Applied Mathematics and Statistics articles
+
+%\setcitestyle{square} % for Physics and Applied Mathematics and Statistics articles
+\usepackage{url,hyperref,lineno,microtype,subcaption}
+\usepackage[onehalfspacing]{setspace}
+
+\linenumbers
+
+
+% BELOW TAKEN FROM rticles plos template
+%
+% amsmath package, useful for mathematical formulas
+\usepackage{amsmath}
+% amssymb package, useful for mathematical symbols
+\usepackage{amssymb}
+
+% hyperref package, useful for hyperlinks
+\usepackage{hyperref}
+
+% graphicx package, useful for including eps and pdf graphics
+% include graphics with the command \includegraphics
+\usepackage{graphicx}
+
+% Sweave(-like)
+\usepackage{fancyvrb}
+\DefineVerbatimEnvironment{Sinput}{Verbatim}{fontshape=sl}
+\DefineVerbatimEnvironment{Soutput}{Verbatim}{}
+\DefineVerbatimEnvironment{Scode}{Verbatim}{fontshape=sl}
+\newenvironment{Schunk}{}{}
+\DefineVerbatimEnvironment{Code}{Verbatim}{}
+\DefineVerbatimEnvironment{CodeInput}{Verbatim}{fontshape=sl}
+\DefineVerbatimEnvironment{CodeOutput}{Verbatim}{}
+\newenvironment{CodeChunk}{}{}
+
+% cite package, to clean up citations in the main text. Do not remove.
+\usepackage{cite}
+
+\usepackage{color}
+
+\providecommand{\tightlist}{%
+  \setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}
+
+% Below is from frontiers
+%
+\bibliographystyle{frontiersinSCNS}
+% Use doublespacing - comment out for single spacing
+%\usepackage{setspace}
+%\doublespacing
+
+
+% Leave a blank line between paragraphs instead of using \\
+
+
+\def\keyFont{\fontsize{8}{11}\helveticabold }
+
+
+%% ** EDIT HERE **
+%% PLEASE INCLUDE ALL MACROS BELOW
+
+%% END MACROS SECTION
+
+$for(header-includes)$
+$header-includes$
+$endfor$
+
+$if(highlighting-macros)$
+$highlighting-macros$
+$endif$
+
+\def\Authors{
+$for(author)$
+  $author.name$\,\textsuperscript{$author.affiliation$$if(author.email)$*$endif$}$sep$,
+$endfor$
+}
+
+\def\Address{
+$for(affiliation)$
+
+  \textsuperscript{$affiliation.id$} $if(affiliation.department)$$affiliation.department$, $endif$$if(affiliation.institution)$$affiliation.institution$, $endif$ $if(affiliation.city)$$affiliation.city$, $endif$ $if(affiliation.state)$$affiliation.state$, $endif$ $if(affiliation.country)$$affiliation.country$$endif$
+  $endfor$}
+
+$for(author)$
+  $if(author.email)$\def\corrAuthor{$author.name$}\def\corrAddress{$if(author.institution)$$author.institution$\\$endif$$if(author.street)$$author.street$\\$endif$$author.city$, $if(author.state)$$author.state$, $endif$$author.zip$ $if(author.country)$$author.country$$endif$}\def\corrEmail{$author.email$}$endif$
+  $if(author.etal)$\def\firstAuthorLast{$author.etal$ {et~al.}}$endif$
+$endfor$
+
+
+\begin{document}
+\onecolumn
+\firstpage{1}
+
+\title[$runtitle$]{$title$}
+\author[\firstAuthorLast]{\Authors}
+\address{} %This field will be automatically populated
+\correspondance{} %This field will be automatically populated
+
+\extraAuth{}% If there are more than 1 corresponding author, comment this line and uncomment the next one.
+%\extraAuth{corresponding Author2 \\ Laboratory X2, Institute X2, Department X2, Organization X2, Street X2, City X2 , State XX2 (only USA, Canada and Australia), Zip Code2, X2 Country X2, email2@uni2.edu}
+
+
+\maketitle
+
+$body$
+
+\end{document}
diff --git a/inst/rmarkdown/templates/frontiers_article/skeleton/frontiers.csl b/inst/rmarkdown/templates/frontiers_article/skeleton/frontiers.csl
@@ -0,0 +1,160 @@
+<?xml version="1.0" encoding="utf-8"?>
+<style xmlns="http://purl.org/net/xbiblio/csl" class="in-text" version="1.0" demote-non-dropping-particle="sort-only" default-locale="en-US">
+  <info>
+    <title>Frontiers journals</title>
+    <id>http://www.zotero.org/styles/frontiers</id>
+    <link href="http://www.zotero.org/styles/frontiers" rel="self"/>
+    <link href="http://www.frontiersin.org/about/AuthorGuidelines" rel="documentation"/>
+    <author>
+      <name>Sebastian Karcher</name>
+    </author>
+    <contributor>
+      <name>Julian Onions</name>
+      <email>julian.onions@gmail.com</email>
+    </contributor>
+    <category citation-format="author-date"/>
+    <category field="generic-base"/>
+    <summary>Style for the Open Access Frontiers in ... Journals</summary>
+    <updated>2012-09-27T22:06:38+00:00</updated>
+    <rights license="http://creativecommons.org/licenses/by-sa/3.0/">This work is licensed under a Creative Commons Attribution-ShareAlike 3.0 License</rights>
+  </info>
+  <macro name="editor">
+    <names variable="editor" delimiter=", ">
+      <label form="short" prefix=", "/>
+      <name and="text" initialize-with=". " delimiter=", " prefix=" "/>
+    </names>
+  </macro>
+  <macro name="author">
+    <names variable="author">
+      <name name-as-sort-order="all" and="text" sort-separator=", " initialize-with=". " delimiter=", " delimiter-precedes-last="always"/>
+      <label form="short" prefix=" "/>
+      <substitute>
+        <names variable="editor"/>
+        <text variable="title"/>
+      </substitute>
+    </names>
+  </macro>
+  <macro name="author-short">
+    <names variable="author">
+      <name form="short" and="text" delimiter=", " initialize-with=". "/>
+      <substitute>
+        <names variable="editor"/>
+        <names variable="translator"/>
+        <text variable="title"/>
+      </substitute>
+    </names>
+  </macro>
+  <macro name="access">
+    <choose>
+      <if variable="DOI">
+        <text variable="DOI" prefix="doi:"/>
+      </if>
+      <else-if variable="URL">
+        <text value="Available at:" suffix=" "/>
+        <text variable="URL"/>
+        <group prefix=" [" suffix="]">
+          <text term="accessed" text-case="capitalize-first" suffix=" "/>
+          <date variable="accessed">
+            <date-part name="month" suffix=" "/>
+            <date-part name="day" suffix=", "/>
+            <date-part name="year"/>
+          </date>
+        </group>
+      </else-if>
+    </choose>
+  </macro>
+  <macro name="title">
+    <choose>
+      <if type="book">
+        <text variable="title" font-style="italic" suffix="."/>
+      </if>
+      <else-if type="chapter">
+        <text variable="title" quotes="true" suffix=","/>
+      </else-if>
+      <else>
+        <text variable="title" suffix="."/>
+      </else>
+    </choose>
+  </macro>
+  <macro name="publisher">
+    <group delimiter=": ">
+      <text variable="publisher-place"/>
+      <text variable="publisher"/>
+    </group>
+  </macro>
+  <macro name="year-date">
+    <date variable="issued">
+      <date-part name="year"/>
+    </date>
+  </macro>
+  <macro name="edition">
+    <choose>
+      <if is-numeric="edition">
+        <group delimiter=" ">
+          <number variable="edition" form="ordinal"/>
+          <text term="edition" form="short"/>
+        </group>
+      </if>
+      <else>
+        <text variable="edition" suffix="."/>
+      </else>
+    </choose>
+  </macro>
+  <citation et-al-min="3" et-al-use-first="1" disambiguate-add-year-suffix="true" collapse="year">
+    <layout prefix="(" suffix=")" delimiter="; ">
+      <group delimiter=", ">
+        <text macro="author-short"/>
+        <text macro="year-date"/>
+        <text variable="locator"/>
+      </group>
+    </layout>
+  </citation>
+  <bibliography hanging-indent="true" et-al-min="11" et-al-use-first="10">
+    <sort>
+      <key macro="author"/>
+      <key variable="title"/>
+    </sort>
+    <layout suffix=".">
+      <text macro="author"/>
+      <date variable="issued" prefix=" (" suffix=").">
+        <date-part name="year"/>
+      </date>
+      <choose>
+        <if type="bill book graphic legal_case legislation motion_picture report song" match="any">
+          <group delimiter=" " prefix=" ">
+            <text macro="title"/>
+            <text macro="edition"/>
+            <text macro="editor"/>
+            <text macro="publisher"/>
+          </group>
+        </if>
+        <else-if type="chapter paper-conference" match="any">
+          <group delimiter=" " prefix=" ">
+            <text macro="title"/>
+            <text term="in"/>
+            <text variable="container-title" font-style="italic"/>
+            <text variable="collection-title" suffix="."/>
+          </group>
+          <text macro="editor"/>
+          <group suffix=".">
+            <text macro="publisher" prefix=" (" suffix=")"/>
+            <group prefix=", ">
+              <text variable="page"/>
+            </group>
+          </group>
+        </else-if>
+        <else>
+          <text macro="title" prefix=" " suffix="."/>
+          <group delimiter=", " prefix=" " suffix=".">
+            <group delimiter=" ">
+              <text variable="container-title" form="short" font-style="italic"/>
+              <text variable="volume"/>
+            </group>
+            <text variable="page"/>
+          </group>
+        </else>
+      </choose>
+      <text prefix=" " macro="access"/>
+    </layout>
+  </bibliography>
+</style>