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Ming Su
2024-03-21 00:29:18 +08:00
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280
_extensions/inst/tex/american-chemical-society.csl Normal file
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<?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" page-range-format="expanded" default-locale="en-US">
<info>
<title>American Chemical Society</title>
<title-short>ACS</title-short>
<id>http://www.zotero.org/styles/american-chemical-society</id>
<link href="http://www.zotero.org/styles/american-chemical-society" rel="self"/>
<link href="https://pubs.acs.org/doi/full/10.1021/acsguide.40303" rel="documentation"/>
<link href="https://pubs.acs.org/doi/book/10.1021/acsguide" rel="documentation"/>
<author>
<name>Julian Onions</name>
<email>julian.onions@gmail.com</email>
</author>
<contributor>
<name>Ivan Bushmarinov</name>
<email>ib@ineos.ac.ru</email>
</contributor>
<contributor>
<name>Sebastian Karcher</name>
</contributor>
<category citation-format="numeric"/>
<category field="chemistry"/>
<summary>The American Chemical Society style</summary>
<updated>2021-06-04T03:27:50+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>
<locale xml:lang="en">
<terms>
<term name="editortranslator" form="short">
<single>ed. and translator</single>
<multiple>eds. and translators</multiple>
</term>
<term name="translator" form="short">
<single>translator</single>
<multiple>translators</multiple>
</term>
<term name="collection-editor" form="short">
<single>series ed.</single>
<multiple>series eds.</multiple>
</term>
</terms>
</locale>
<macro name="editor">
<group delimiter="; ">
<names variable="editor translator" delimiter="; ">
<name sort-separator=", " initialize-with=". " name-as-sort-order="all" delimiter=", " delimiter-precedes-last="always"/>
<label form="short" prefix=", " text-case="title"/>
</names>
<names variable="collection-editor">
<name sort-separator=", " initialize-with=". " name-as-sort-order="all" delimiter=", " delimiter-precedes-last="always"/>
<label form="short" prefix=", " text-case="title"/>
</names>
</group>
</macro>
<macro name="author">
<names variable="author" suffix=".">
<name sort-separator=", " initialize-with=". " name-as-sort-order="all" delimiter="; " delimiter-precedes-last="always"/>
<label form="short" prefix=", " text-case="capitalize-first"/>
</names>
</macro>
<macro name="publisher">
<choose>
<if type="thesis" match="any">
<group delimiter=", ">
<text variable="publisher"/>
<text variable="publisher-place"/>
</group>
</if>
<else>
<group delimiter=": ">
<text variable="publisher"/>
<text variable="publisher-place"/>
</group>
</else>
</choose>
</macro>
<macro name="title">
<choose>
<if type="bill book graphic legal_case legislation motion_picture report song" match="any">
<text variable="title" text-case="title" font-style="italic"/>
</if>
<else>
<text variable="title" text-case="title"/>
</else>
</choose>
</macro>
<macro name="volume">
<group delimiter=" ">
<text term="volume" form="short" text-case="capitalize-first"/>
<text variable="volume"/>
</group>
</macro>
<macro name="series">
<text variable="collection-title"/>
</macro>
<macro name="pages">
<label variable="page" form="short" suffix=" " strip-periods="true"/>
<text variable="page"/>
</macro>
<macro name="book-container">
<group delimiter=". ">
<text macro="title"/>
<choose>
<if type="entry-dictionary entry-encyclopedia" match="none">
<group delimiter=" ">
<text term="in" text-case="capitalize-first"/>
<text variable="container-title" font-style="italic"/>
</group>
</if>
<else>
<text variable="container-title" font-style="italic"/>
</else>
</choose>
</group>
</macro>
<macro name="issued">
<date variable="issued" delimiter=" ">
<date-part name="year"/>
</date>
</macro>
<macro name="full-issued">
<date variable="issued" delimiter=" ">
<date-part name="month" form="long" suffix=" "/>
<date-part name="day" suffix=", "/>
<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 collapse="citation-number">
<sort>
<key variable="citation-number"/>
</sort>
<layout delimiter="," vertical-align="sup">
<text variable="citation-number"/>
</layout>
</citation>
<bibliography second-field-align="flush" entry-spacing="0">
<layout suffix=".">
<text variable="citation-number" prefix="(" suffix=") "/>
<text macro="author" suffix=" "/>
<choose>
<if type="article-journal review" match="any">
<group delimiter=" ">
<text macro="title" suffix="."/>
<text variable="container-title" font-style="italic" form="short"/>
<group delimiter=", ">
<text macro="issued" font-weight="bold"/>
<choose>
<if variable="volume">
<group delimiter=" ">
<text variable="volume" font-style="italic"/>
<text variable="issue" prefix="(" suffix=")"/>
</group>
</if>
<else>
<group delimiter=" ">
<text term="issue" form="short" text-case="capitalize-first"/>
<text variable="issue"/>
</group>
</else>
</choose>
<text variable="page"/>
</group>
</group>
</if>
<else-if type="article-magazine article-newspaper article" match="any">
<group delimiter=" ">
<text macro="title" suffix="."/>
<text variable="container-title" font-style="italic" suffix="."/>
<text macro="edition"/>
<text macro="publisher"/>
<group delimiter=", ">
<text macro="full-issued"/>
<text macro="pages"/>
</group>
</group>
</else-if>
<else-if type="thesis">
<group delimiter=", ">
<group delimiter=". ">
<text macro="title"/>
<text variable="genre"/>
</group>
<text macro="publisher"/>
<text macro="issued"/>
<text macro="volume"/>
<text macro="pages"/>
</group>
</else-if>
<else-if type="bill book graphic legal_case legislation motion_picture report song" match="any">
<group delimiter="; ">
<group delimiter=", ">
<text macro="title"/>
<text macro="edition"/>
</group>
<text macro="editor" prefix=" "/>
<text macro="series"/>
<choose>
<if type="report">
<group delimiter=" ">
<text variable="genre"/>
<text variable="number"/>
</group>
</if>
</choose>
<group delimiter=", ">
<text macro="publisher"/>
<text macro="issued"/>
</group>
<group delimiter=", ">
<text macro="volume"/>
<text macro="pages"/>
</group>
</group>
</else-if>
<else-if type="patent">
<group delimiter=", ">
<group delimiter=". ">
<text macro="title"/>
<text variable="number"/>
</group>
<date variable="issued" form="text"/>
</group>
</else-if>
<else-if type="chapter paper-conference entry-dictionary entry-encyclopedia" match="any">
<group delimiter="; ">
<text macro="book-container"/>
<text macro="editor"/>
<text macro="series"/>
<group delimiter=", ">
<text macro="publisher"/>
<text macro="issued"/>
</group>
<group delimiter=", ">
<text macro="volume"/>
<text macro="pages"/>
</group>
</group>
</else-if>
<else-if type="webpage">
<group delimiter=" ">
<text variable="title"/>
<text variable="URL"/>
<date variable="accessed" prefix="(accessed " suffix=")" delimiter=" ">
<date-part name="year"/>
<date-part name="month" prefix="-" form="numeric-leading-zeros"/>
<date-part name="day" prefix="-" form="numeric-leading-zeros"/>
</date>
</group>
</else-if>
<else>
<group delimiter=", ">
<group delimiter=". ">
<text macro="title"/>
<text variable="container-title" font-style="italic"/>
</group>
<group delimiter=", ">
<text macro="issued"/>
<text variable="volume" font-style="italic"/>
<text variable="page"/>
</group>
</group>
</else>
</choose>
<text variable="DOI" prefix=". https://doi.org/"/>
</layout>
</bibliography>
</style>

435
_extensions/inst/tex/china-national-standard-gb-t-7714-2015-numeric.csl Normal file
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<?xml version="1.0" encoding="utf-8"?>
<style xmlns="http://purl.org/net/xbiblio/csl" version="1.0" class="in-text" names-delimiter=". " name-as-sort-order="all" sort-separator=" " demote-non-dropping-particle="never" initialize-with=" " initialize-with-hyphen="false" page-range-format="expanded" default-locale="zh-CN">
<info>
<title>China National Standard GB/T 7714-2015 (numeric, 中文)</title>
<id>http://www.zotero.org/styles/china-national-standard-gb-t-7714-2015-numeric</id>
<link href="http://www.zotero.org/styles/china-national-standard-gb-t-7714-2015-numeric" rel="self"/>
<link href="http://std.samr.gov.cn/gb/search/gbDetailed?id=71F772D8055ED3A7E05397BE0A0AB82A" rel="documentation"/>
<author>
<name>牛耕田</name>
<email>buffalo_d@163.com</email>
</author>
<contributor>
<name>Zeping Lee</name>
<email>zepinglee@gmail.com</email>
</contributor>
<category citation-format="numeric"/>
<category field="generic-base"/>
<summary>The Chinese GB/T 7714-2015 numeric style</summary>
<updated>2022-02-23T10:44:01+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>
<locale xml:lang="zh-CN">
<date form="text">
<date-part name="year" suffix="年" range-delimiter="&#8212;"/>
<date-part name="month" form="numeric" suffix="月" range-delimiter="&#8212;"/>
<date-part name="day" suffix="日" range-delimiter="&#8212;"/>
</date>
<terms>
<term name="edition" form="short">版</term>
<term name="open-quote">“</term>
<term name="close-quote">”</term>
<term name="open-inner-quote">‘</term>
<term name="close-inner-quote">’</term>
</terms>
</locale>
<locale>
<date form="numeric">
<date-part name="year" range-delimiter="/"/>
<date-part name="month" form="numeric-leading-zeros" prefix="-" range-delimiter="/"/>
<date-part name="day" form="numeric-leading-zeros" prefix="-" range-delimiter="/"/>
</date>
<terms>
<term name="page-range-delimiter">-</term>
</terms>
</locale>
<!-- 引用日期 -->
<macro name="accessed-date">
<date variable="accessed" form="numeric" prefix="[" suffix="]"/>
</macro>
<!-- 主要责任者 -->
<macro name="author">
<names variable="author">
<name>
<name-part name="family" text-case="uppercase"/>
<name-part name="given"/>
</name>
<substitute>
<names variable="composer"/>
<names variable="illustrator"/>
<names variable="director"/>
<choose>
<if variable="container-title" match="none">
<names variable="editor"/>
</if>
</choose>
</substitute>
</names>
</macro>
<!-- 书籍的卷号（“第 x 卷”或“第 x 册”） -->
<macro name="book-volume">
<choose>
<if type="article article-journal article-magazine article-newspaper periodical" match="none">
<choose>
<if is-numeric="volume">
<group delimiter=" ">
<label variable="volume" form="short" text-case="capitalize-first"/>
<text variable="volume"/>
</group>
</if>
<else>
<text variable="volume"/>
</else>
</choose>
</if>
</choose>
</macro>
<!-- 专著主要责任者 -->
<macro name="container-author">
<names variable="editor">
<name>
<name-part name="family" text-case="uppercase"/>
<name-part name="given"/>
</name>
<substitute>
<names variable="editorial-director"/>
<names variable="collection-editor"/>
<names variable="container-author"/>
</substitute>
</names>
</macro>
<!-- 专著题名 -->
<macro name="container-title">
<group delimiter=", ">
<group delimiter=": ">
<choose>
<if variable="container-title">
<text variable="container-title"/>
</if>
<else>
<text variable="event"/>
</else>
</choose>
<text macro="book-volume"/>
</group>
<choose>
<if variable="event-date">
<date variable="event-date" form="text"/>
<text variable="event-place"/>
</if>
</choose>
</group>
</macro>
<!-- 版本项 -->
<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"/>
</else>
</choose>
</macro>
<!-- 电子资源的更新或修改日期 -->
<macro name="issued-date">
<date variable="issued" form="numeric"/>
</macro>
<!-- 出版年 -->
<macro name="issued-year">
<choose>
<if is-uncertain-date="issued">
<date variable="issued" prefix="[" suffix="]">
<date-part name="year" range-delimiter="-"/>
</date>
</if>
<else>
<date variable="issued">
<date-part name="year" range-delimiter="-"/>
</date>
</else>
</choose>
</macro>
<!-- 专著的出版项 -->
<macro name="publishing">
<group delimiter=": ">
<group delimiter=", ">
<group delimiter=": ">
<text variable="publisher-place"/>
<text variable="publisher"/>
</group>
<!-- 非电子资源显示“出版年” -->
<choose>
<if variable="publisher page" type="book chapter paper-conference thesis" match="any">
<text macro="issued-year"/>
</if>
<else-if variable="URL DOI" match="none">
<text macro="issued-year"/>
</else-if>
</choose>
</group>
<text variable="page"/>
</group>
<choose>
<!-- 纯电子资源显示“更新或修改日期” -->
<if variable="publisher page" type="book chapter paper-conference thesis" match="none">
<choose>
<if variable="URL DOI" match="any">
<text macro="issued-date" prefix="(" suffix=")"/>
</if>
</choose>
</if>
</choose>
<text macro="accessed-date"/>
</macro>
<!-- 其他责任者 -->
<macro name="secondary-contributor">
<names variable="translator">
<name>
<name-part name="family" text-case="uppercase"/>
<name-part name="given"/>
</name>
<label form="short" prefix=", "/>
</names>
</macro>
<!-- 连续出版物中的析出文献的出处项（年、卷、期等信息） -->
<macro name="periodical-publishing">
<group>
<group delimiter=": ">
<group>
<group delimiter=", ">
<text macro="container-title" text-case="title"/>
<choose>
<if type="article-newspaper">
<text macro="issued-date"/>
</if>
<else>
<text macro="issued-year"/>
</else>
</choose>
<text variable="volume"/>
</group>
<text variable="issue" prefix="(" suffix=")"/>
</group>
<text variable="page"/>
</group>
<text macro="accessed-date"/>
</group>
</macro>
<!-- 题名 -->
<macro name="title">
<group delimiter=", ">
<group delimiter=": ">
<text variable="title"/>
<group delimiter="&#8195;">
<choose>
<if variable="container-title" type="paper-conference" match="none">
<text macro="book-volume"/>
</if>
</choose>
<choose>
<if type="bill legal_case legislation patent regulation report standard" match="any">
<text variable="number"/>
</if>
</choose>
</group>
</group>
<choose>
<if variable="container-title" type="paper-conference" match="none">
<choose>
<if variable="event-date">
<text variable="event-place"/>
<date variable="event-date" form="text"/>
</if>
</choose>
</if>
</choose>
</group>
<text macro="type-code" prefix="[" suffix="]"/>
</macro>
<!-- 文献类型标识 -->
<macro name="type-code">
<group delimiter="/">
<choose>
<if type="article">
<choose>
<if variable="archive">
<text value="A"/>
</if>
<else>
<text value="M"/>
</else>
</choose>
</if>
<else-if type="article-journal article-magazine periodical" match="any">
<text value="J"/>
</else-if>
<else-if type="article-newspaper">
<text value="N"/>
</else-if>
<else-if type="bill collection legal_case legislation regulation" match="any">
<text value="A"/>
</else-if>
<else-if type="book chapter" match="any">
<text value="M"/>
</else-if>
<else-if type="dataset">
<text value="DS"/>
</else-if>
<else-if type="map">
<text value="CM"/>
</else-if>
<else-if type="paper-conference">
<text value="C"/>
</else-if>
<else-if type="patent">
<text value="P"/>
</else-if>
<else-if type="post post-weblog webpage" match="any">
<text value="EB"/>
</else-if>
<else-if type="report">
<text value="R"/>
</else-if>
<else-if type="software">
<text value="CP"/>
</else-if>
<else-if type="standard">
<text value="S"/>
</else-if>
<else-if type="thesis">
<text value="D"/>
</else-if>
<else>
<text value="Z"/>
</else>
</choose>
<choose>
<if variable="URL DOI" match="any">
<text value="OL"/>
</if>
</choose>
</group>
</macro>
<!-- 获取和访问路径以及 DOI -->
<macro name="url-doi">
<group delimiter=". ">
<text variable="URL"/>
<text variable="DOI" prefix="DOI:"/>
</group>
</macro>
<!-- 连续出版物的年卷期 -->
<macro name="year-volume-issue">
<group>
<group delimiter=", ">
<text macro="issued-year"/>
<text variable="volume"/>
</group>
<text variable="issue" prefix="(" suffix=")"/>
</group>
</macro>
<!-- 专著和电子资源 -->
<macro name="monograph-layout">
<group delimiter=". " suffix=".">
<text macro="author"/>
<text macro="title"/>
<text macro="secondary-contributor"/>
<text macro="edition"/>
<text macro="publishing"/>
<text macro="url-doi"/>
</group>
</macro>
<!-- 专著中的析出文献 -->
<macro name="chapter-in-book-layout">
<group delimiter=". " suffix=".">
<text macro="author"/>
<group delimiter="//">
<group delimiter=". ">
<text macro="title"/>
<text macro="secondary-contributor"/>
</group>
<group delimiter=". ">
<text macro="container-author"/>
<text macro="container-title"/>
</group>
</group>
<text macro="edition"/>
<text macro="publishing"/>
<text macro="url-doi"/>
</group>
</macro>
<!-- 连续出版物 -->
<macro name="serial-layout">
<group delimiter=". " suffix=".">
<text macro="author"/>
<text macro="title"/>
<text macro="year-volume-issue"/>
<text macro="publishing"/>
<text variable="URL"/>
<text variable="DOI" prefix="DOI:"/>
</group>
</macro>
<!-- 连续出版物中的析出文献 -->
<macro name="article-in-periodical-layout">
<group delimiter=". " suffix=".">
<text macro="author"/>
<text macro="title"/>
<text macro="periodical-publishing"/>
<text macro="url-doi"/>
</group>
</macro>
<!-- 专利文献 -->
<macro name="patent-layout">
<group delimiter=". " suffix=".">
<text macro="author"/>
<text macro="title"/>
<group>
<text macro="issued-date"/>
<text macro="accessed-date"/>
</group>
<text macro="url-doi"/>
</group>
</macro>
<!-- 正文中引用的文献标注格式 -->
<macro name="citation-layout">
<group>
<text variable="citation-number"/>
</group>
</macro>
<!-- 参考文献表格式 -->
<macro name="entry-layout">
<choose>
<if type="article-journal article-magazine article-newspaper" match="any">
<text macro="article-in-periodical-layout"/>
</if>
<else-if type="periodical">
<text macro="serial-layout"/>
</else-if>
<else-if type="patent">
<text macro="patent-layout"/>
</else-if>
<else-if type="paper-conference" variable="container-title" match="any">
<text macro="chapter-in-book-layout"/>
</else-if>
<else>
<text macro="monograph-layout"/>
</else>
</choose>
</macro>
<citation collapse="citation-number" after-collapse-delimiter=",">
<layout vertical-align="sup" delimiter="," prefix="[" suffix="]">
<text macro="citation-layout"/>
</layout>
</citation>
<bibliography entry-spacing="0" et-al-min="4" et-al-use-first="3" second-field-align="flush">
<!-- 取消这部分注释可以使用 CSL-M 的功能支持双语 -->
<!-- <layout locale="en"><text variable="citation-number" prefix="[" suffix="]"/><text macro="entry-layout"/></layout> -->
<layout>
<text variable="citation-number" prefix="[" suffix="]"/>
<text macro="entry-layout"/>
</layout>
</bibliography>
</style>

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_extensions/inst/tex/cv.tex Normal file
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%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Academic Letter LaTeX and RMarkdown Structure %
% Author: Pedro Henrique Pereira Braga %
% %
% License: %
% CC BY-NC-SA 3.0 (http://creativecommons.org/licenses/by-nc-sa/3.0/) %
% %
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
% Set the font size (11pt, for now) and paper size (e.g. letterpaper, a4paper)
\documentclass[11pt, letterpaper]{letter}
%----------------------------------------------------------------------
% PACKAGES AND OTHER DOCUMENT CONFIGURATIONS
%----------------------------------------------------------------------
\usepackage{graphicx} % Required for including pictures
\usepackage{fancyhdr} % Allows the use of fancy headers and footers
\usepackage{microtype} % For typography improvement
\usepackage{url} % Allows the use of hyperlinks
\urlstyle{same} % Allows hyperlink fonts to be the same as the mainfont
\usepackage[hidelinks]{hyperref} % Allows the use of hyperlinks and
% removes the blue boxes around the link
\pagestyle{empty} % Removes headers and footers
\usepackage{setspace} % Allows the use of double spacing in the letter body
\setlength\parindent{1cm} % Paragraph indentation
% Create a new command for the horizontal rule in the document which allows
% thickness specification
\makeatletter
\def\@texttop{} % force the address to start above
\renewcommand*{\opening}[1]{\ifx\@empty\fromaddress
\thispagestyle{firstpage}%
{\raggedleft\@date\par}%
\else % home address
\thispagestyle{empty}%
{\raggedleft\begin{tabular}{l@{}}\ignorespaces
\fromaddress \\*[2\parskip]%
\@date \end{tabular}\par}%
\fi
%\vspace{2\parskip}% <-- Removed
%{\raggedright \toname \\ \toaddress \par}% <-- Removed
%\vspace{2\parskip}% <-- Removed
#1\par\nobreak}
\let\ps@empty\ps@plain
\let\ps@firstpage\ps@plain
\makeatother
%--------------------------------------------------------------------------
% FONTS
%--------------------------------------------------------------------------
\usepackage[T1]{fontenc} % Output font encoding for international characters
% \usepackage[utf8]{inputenc} % Required for inputting international characters
\usepackage[quiet]{fontspec} % Allows the use of fontspec
\setmainfont{Calibri}
% \usepackage{txfonts} % Allows the use of Lato fonts
%----------------------------------------------------------------------------
% DOCUMENT MARGINS
%----------------------------------------------------------------------------
\usepackage{geometry} % Required for adjusting page dimensions
\geometry{
headheight = 0.7in, % Header height
top=1.5in, % Top margin
bottom=1.5cm, % Bottom margin
left=3cm, % Left margin
right=3cm, % Right margin
% showframe, % Uncomment to show how the type block is set on the page
}
%-----------------------------------------------------------------------------
% AUTHOR AND RECIPIENTS NEW COMMANDS AND DETAILS STRUCTURE
%-----------------------------------------------------------------------------
\newcommand{\authordetails}[1]{\renewcommand{\authordetails}{#1}}
\newcommand{\recipientdetails}[1]{\renewcommand{\recipientdetails}{#1}}
%-----------------------------------------------------------------------------
% HEADER STRUCTURE
%-----------------------------------------------------------------------------
\address{
% Include the author's details on the right side of the page under the line
\raggedleft{
\footnotesize{ % Use a smaller font size
$author$\\ % Author name
\authordetails\\
\hspace{1mm}
}
}
\vspace{-0.05\textheight} % Move the date and letter content up
}
%------------------------------------------------------------------------------
% COMPOSE THE ENTIRE HEADER
%------------------------------------------------------------------------------
\renewcommand{\opening}[1]{
{\fromaddress
\vspace{0.05\textheight}\\ % Print the sender's address here and add some whitespace to allow the printing of the date
\raggedleft{$date$} % Include the date, aligned to the right
\par % par
}
{\raggedright
\toname\\
\toaddress
\par} % Print the recipient's name and adress
\vspace{0.25cm} % White vertical space after recipient's address
\noindent #1 % Following this, insert the opening info
}
%------------------------------------------------------------------------------
% SIGNATURE STRUCTURE
%------------------------------------------------------------------------------
% The signature is a combination of the author's name, title and institution
\signature{$author$, on behalf of all authors\\
Email: $from_email$}
% I will later combine the option of inserting a signature within it
\renewcommand{\closing}[1]{
\vspace{2.5mm} % Some whitespace after the letter content and before the signature
\noindent % Stop paragraph indentation
% \hspace*{\longindentation} % Move the signature right to the value of \longindentation
\parbox{\indentedwidth}{
\raggedright
#1 % Print the signature text
% \vskip 1.65cm % Whitespace between the closing text and author's name for a physical signature
\\\includegraphics[height=0.6in, keepaspectratio=true]{$from_sign$}\\
\fromsig % Prints the value of \signature{}, i.e. author name and title
}
}
%-------------------------------------------------------------------------------
% AUTHOR'S INFORMATION
%-------------------------------------------------------------------------------
\authordetails{
$from_position$\\
$from_department$\\ % Sender's department/institution
$from_institution$\\
$from_address$ % Sender's address
% $from_city$, $from_state_province$\\ % Sender's city, state or province,
% $from_postalcode$\\ % postal code
% $from_country$
}
%------------------------------------------------------------------------------
% RECIPIENT'S INFORMATION
%------------------------------------------------------------------------------
\recipientdetails{
$to_professional_title$ $to_name$\\
$if(to_journal)$
\textit{$to_journal$}
$endif$
}
%------------------------------------------------------------------------------
% HEADER CONTENTS
%------------------------------------------------------------------------------
\fancypagestyle{firstpage}{
\fancyhf{}
\fancyhead[L]{
\includegraphics[height=0.6in, keepaspectratio=true]{$from_institution_logo$}
}
\fancyhead[R]{$author$\\
\footnotesize{
$from_email$\\ % Sender's email address
% $from_personal_website$ \\ % Sender's URL
$from_phone$ % Sender's phone number
}
}
}
\fancypagestyle{plain}{
\fancyhf{}
\fancyhead[L]{
\includegraphics[height=0.6in, keepaspectratio=true]{$from_institution_logo$}
}
\fancyhead[R]{$author$\\
\footnotesize{
$from_email$\\ % Sender's email address
% $from_personal_website$ \\ % Sender's URL
$from_phone$ % Sender's phone number
}
}
}
\fancypagestyle{empty}{
\fancyhf{}
\fancyhead[L]{
\includegraphics[height=0.6in, keepaspectratio=true]{$from_institution_logo$}
}
\fancyhead[R]{$author$\\
\footnotesize{
$from_email$\\ % Sender's email address
% $from_personal_website$ \\ % Sender's URL
$from_phone$ % Sender's phone number
}
}
}
%------------------------------------------------------------------------------
\pagestyle{plain}
\begin{document}
%------------------------------------------------------------------------------
% TO ADDRESS
%------------------------------------------------------------------------------
\begin{letter}{\recipientdetails}
%------------------------------------------------------------------------------
% LETTER CONTENT
%------------------------------------------------------------------------------
\opening{$opening_greeting$}
% \begin{doublespacing}
$body$
% \end{doublespacing}
\closing{$closing_greeting$}
%------------------------------------------------------------------------------
\end{letter}
\end{document}

426
_extensions/inst/tex/els.tex Normal file
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@@ -0,0 +1,426 @@
$-- Keeping in template layout for backward compatibility
\documentclass[$if(layout)$$layout$$else$$for(classoption)$$classoption$$sep$,$endfor$$endif$]{elsarticle} %review=doublespace preprint=single 5p=2 column
%%% Begin My package additions %%%%%%%%%%%%%%%%%%%
\usepackage[hyphens]{url}
$if(journal)$
\journal{$journal$} % Sets Journal name
$endif$
\usepackage{lineno} % add
$if(linenumbers)$
\linenumbers % turns line numbering on
$endif$
\usepackage{graphicx}
\usepackage{xstring}
\usepackage[table]{xcolor}
%%%%%%%%%%%%%%%% end my additions to header
\usepackage[T1]{fontenc}
\usepackage{lmodern}
\usepackage{amssymb,amsmath}
\usepackage{ifxetex,ifluatex}
\usepackage{fixltx2e} % provides \textsubscript
% use upquote if available, for straight quotes in verbatim environments
\IfFileExists{upquote.sty}{\usepackage{upquote}}{}
\ifnum 0\ifxetex 1\fi\ifluatex 1\fi=0 % if pdftex
\usepackage[utf8]{inputenc}
$if(euro)$
\usepackage{eurosym}
$endif$
\else % if luatex or xelatex
\usepackage{fontspec}
\ifxetex
\usepackage{xltxtra,xunicode}
\fi
\defaultfontfeatures{Mapping=tex-text,Scale=MatchLowercase}
\newcommand{\euro}{€}
$if(mainfont)$
\setmainfont{$mainfont$}
$endif$
$if(sansfont)$
\setsansfont{$sansfont$}
$endif$
$if(monofont)$
\setmonofont{$monofont$}
$endif$
$if(mathfont)$
\setmathfont{$mathfont$}
$endif$
\fi
% use microtype if available
\IfFileExists{microtype.sty}{\usepackage{microtype}}{}
$if(geometry)$
\usepackage[$for(geometry)$$geometry$$sep$,$endfor$]{geometry}
$endif$
$if(natbib)$
\usepackage{natbib}
\setcitestyle{$natbiboptions$}
\bibliographystyle{$if(biblio-style)$$biblio-style$$else$plainnat$endif$}
$endif$
$if(listings)$
\usepackage{listings}
$endif$
$if(lhs)$
\lstnewenvironment{code}{\lstset{language=Haskell,basicstyle=\small\ttfamily}}{}
$endif$
$if(verbatim-in-note)$
\usepackage{fancyvrb}
$endif$
$if(graphics)$
\usepackage{graphicx}
$endif$
\ifxetex
\usepackage[setpagesize=false, % page size defined by xetex
unicode=false, % unicode breaks when used with xetex
xetex]{hyperref}
\else
\usepackage[unicode=true]{hyperref}
\fi
\hypersetup{breaklinks=true,
bookmarks=true,
pdfauthor={$author-meta$},
pdftitle={$title-meta$},
colorlinks=$if(colorlinks)$true$else$false$endif$,
urlcolor=$if(urlcolor)$$urlcolor$$else$blue$endif$,
linkcolor=$if(linkcolor)$$linkcolor$$else$magenta$endif$,
pdfborder={0 0 0}}
\urlstyle{same} % don't use monospace font for urls
$if(links-as-notes)$
% Make links footnotes instead of hotlinks:
\renewcommand{\href}[2]{#2\footnote{\url{#1}}}
$endif$
$if(strikeout)$
\usepackage[normalem]{ulem}
% avoid problems with \sout in headers with hyperref:
\pdfstringdefDisableCommands{\renewcommand{\sout}{}}
$endif$
$if(numbersections)$
\setcounter{secnumdepth}{5}
$else$
\setcounter{secnumdepth}{0}
$endif$
$if(verbatim-in-note)$
\VerbatimFootnotes % allows verbatim text in footnotes
$endif$
$if(lang)$
\ifxetex
\usepackage{polyglossia}
\setmainlanguage{$mainlang$}
\else
\usepackage[$lang$]{babel}
\fi
$endif$
% Pandoc toggle for numbering sections (defaults to be off)
$if(numbersections)$
$else$
\setcounter{secnumdepth}{0}
$endif$
$if(highlighting-macros)$
% Pandoc syntax highlighting
$highlighting-macros$
$endif$
% tightlist command for lists without linebreak
\providecommand{\tightlist}{%
\setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}
$if(tables)$
% From pandoc table feature
\usepackage{longtable,booktabs,array}
$if(multirow)$
\usepackage{multirow}
$endif$
\usepackage{calc} % for calculating minipage widths
% Correct order of tables after \paragraph or \subparagraph
\usepackage{etoolbox}
\makeatletter
\patchcmd\longtable{\par}{\if@noskipsec\mbox{}\fi\par}{}{}
\makeatother
% Allow footnotes in longtable head/foot
\IfFileExists{footnotehyper.sty}{\usepackage{footnotehyper}}{\usepackage{footnote}}
\makesavenoteenv{longtable}
$endif$
$if(csl-refs)$
% Pandoc citation processing
\newlength{\cslhangindent}
\setlength{\cslhangindent}{1.5em}
\newlength{\csllabelwidth}
\setlength{\csllabelwidth}{3em}
\newlength{\cslentryspacingunit} % times entry-spacing
\setlength{\cslentryspacingunit}{\parskip}
% for Pandoc 2.8 to 2.10.1
\newenvironment{cslreferences}%
{$if(csl-hanging-indent)$\setlength{\parindent}{0pt}%
\everypar{\setlength{\hangindent}{\cslhangindent}}\ignorespaces$endif$}%
{\par}
% For Pandoc 2.11+
\newenvironment{CSLReferences}[2] % #1 hanging-ident, #2 entry spacing
{% don't indent paragraphs
\setlength{\parindent}{0pt}
% turn on hanging indent if param 1 is 1
\ifodd #1
\let\oldpar\par
\def\par{\hangindent=\cslhangindent\oldpar}
\fi
% set entry spacing
\setlength{\parskip}{#2\cslentryspacingunit}
}%
{}
\usepackage{calc}
\newcommand{\CSLBlock}[1]{#1\hfill\break}
\newcommand{\CSLLeftMargin}[1]{\parbox[t]{\csllabelwidth}{#1}}
\newcommand{\CSLRightInline}[1]{\parbox[t]{\linewidth - \csllabelwidth}{#1}\break}
\newcommand{\CSLIndent}[1]{\hspace{\cslhangindent}#1}
$endif$
$for(header-includes)$
$header-includes$
$endfor$
\usepackage{xifthen}
% set special color for EST
\ifthenelse{\equal{$journal$}{Environmental Science \& Technology}}
{\definecolor{seccol}{RGB}{56, 95, 66}}
{\definecolor{seccol}{RGB}{0, 0, 0}}
$if(uppersections)$
\usepackage{titlesec}
\titleformat{\section}
{\color{seccol}\large\bfseries\MakeUppercase}{\thesection}{1em}{}
$endif$
$if(sectiononnewpage)$
\AddToHook{cmd/section/before}{\clearpage}
$endif$
\usepackage{enumitem}
\usepackage{fontspec}
\usepackage{float}
\setmainfont{Helvetica}
\usepackage[normalem]{ulem}
\usepackage{hyperref}
\usepackage{nameref} %needed by zref-xr
\usepackage{zref-xr,zref-hyperref,zref-user}
\usepackage{xr-hyper}
% force to use \zref
$if(msname)$
\def\msname{$msname$}
\zexternaldocument*{\msname}
\renewcommand{\ref}{\zref}
$endif$
$if(smname)$
\def\smname{$smname$}
\zexternaldocument*{\smname}
$endif$
\zxrsetup{toltxlabel=true}
{\catcode`\#=12 \gdef\hashchar{#1}}
\makeatletter
\newcommand\hzref[1]{\edef\next{%
\noexpand\href{%
\zref@extractdefault{#1}{url}{}%
\zref@ifrefcontainsprop{#1}{anchor}{%
\hashchar\zref@extract{#1}{anchor}}{}}%
{\noexpand\zref{#1}}}\next}
\makeatother
$if(revision)$
% \usepackage{xcolor}
\usepackage{adjustbox}
\usepackage{mdframed}
\newmdenv[topline=false,
leftline=true,
bottomline=false,
rightline=false,
linewidth=3pt,
%backgroundcolor=lightgray,
linecolor=gray!30,
backgroundcolor=gray!5,
skipabove=\topsep,
skipbelow=\topsep,
leftmargin=0pt,
rightmargin=0pt,
innertopmargin=0pt,
innerbottommargin=0pt
]{refquote}
\newmdenv[topline=false,
leftline=true,
bottomline=false,
rightline=false,
linewidth=3pt,
%backgroundcolor=lightgray,
backgroundcolor=red!3!white,
linecolor=red!30!white,
skipabove=\topsep,
skipbelow=\topsep,
leftmargin=0pt,
rightmargin=0pt,
innertopmargin=10pt,
innerbottommargin=10pt
]{question}
\setenumerate{labelsep=*, leftmargin=1.0pc}
% setup hyperlink for page and line number
\def\msname{$if(msname)$$msname$$else$MS$endif$}
\def\smname{$if(smname)$$smname$$else$SM$endif$}
\setenumerate{labelsep=*, leftmargin=1.0pc}
%\zexternaldocument*{ManuscriptNew\veraa}
\zexternaldocument*{\msname}
\zexternaldocument*{\smname}
\newcommand{\hlabel}[1]{\label{#1}\hypertarget{#1}{
\linelabel{line:#1}}}
%\externaldocument[si-]{\smname\veraa}[\smname\veraa.pdf]
\makeatletter
\newcommand{\clab}[2]{%
\protected@write\@auxout{\let\clab\@secondoftwo}{
\string\newlabel{r:#1}{{#2}{}}}%
\hlabel{#1}#2\hlabel{#1end}}
\makeatother
\newcommand{\zhypera}[1]{\href[pdfnewwindow]{\msname.pdf\##1}{\\[1ex]\textbf{Page \zpageref{#1}, Line
\zref{line:#1}--\zref{line:#1end}:}\\}}
\newcommand{\cref}[1]{\begin{refquote}\zhypera{#1}{\zref{r:#1}}\\[-0.5ex]\end{refquote}}
% \newenvironment{ra}[1][\unskip]{\par \noindent \\[-1ex] \textbf{Response/Action:}\par\bf}{\ \\}
\renewenvironment{quote}{\begin{question}}{\end{question}}
% \renewenvironment{verbatim}{\begin{ra}}{\end{ra}}
$endif$
% def default corresponding authors and equal contributing authors variables
\def\hascorr{0}
\def\haseqc{0}
% check if corresponding author(s) and equal contributing authors are available
$for(author)$$if(author.correspondence)$\def\hascorr{1}$endif$$if(author.equalcontribution)$\def\haseqc{1}$endif$ $endfor$
\newcommand{\getcorrauthinfo}{
\subsection{Corresponding Author(s)}
\def\a{} \def\b{} \def\c{}
\hspace{-2.2em}
$for(author)$
$if(author.correspondence)$
\textbf{$author.name$:}
\vspace{-1em}
\begin{enumerate}[labelindent=-12pt,label=\arabic*.,itemindent=0em,leftmargin=!, itemsep = -10pt]
$for(author.institute)$ \def\a{$author.institute$}
$for(institute)$ \def\b{$institute.id$} \def\c{$institute.name$}
\ifx \a\b \item \c; \fi
$endfor$
$endfor$
$if(author.email)$\item email: $author.email$;$endif$
$if(author.orcid)$\item orcid: $author.orcid$;$endif$
$if(author.tel)$\item Tel: $author.tel$;$endif$
$if(author.fax)$\item Fax: $author.fax$$endif$
\end{enumerate}
$endif$
$endfor$
}
\newcommand{\getotherauthinfo}{
\subsection{Author(s)}
\def\a{} \def\b{} \def\c{}
\hspace{-2.2em}
$for(author)$
$if(author.correspondence)$
$else$
\textbf{$author.name$:}
\vspace{-1em}
\begin{enumerate}[labelindent=-12pt,label=\arabic*.,itemindent=0em,leftmargin=!, itemsep = -10pt]
$for(author.institute)$ \def\a{$author.institute$} $for(institute)$ \def\b{$institute.id$} \def\c{$institute.name$}
\ifx \a\b \item \c; \fi
$endfor$
$endfor$
$if(author.email)$\item email: $author.email$;$endif$
$if(author.orcid)$\item orcid: $author.orcid$;$endif$
$if(author.tel)$\item Tel: $author.tel$;$endif$
$if(author.fax)$\item Fax: $author.fax$$endif$
\end{enumerate}
$endif$
$endfor$
}
$preamble$
% remove the two line around Abstract
$if(abstract)$
$else$
\makeatletter
\renewcommand{\MaketitleBox}{%
\resetTitleCounters
\def\baselinestretch{1}%
\begin{center}
\def\baselinestretch{1}%
\large \@title \par
\vskip 18pt
\normalsize\elsauthors \par
\vskip 30pt
\footnotesize \itshape \elsaddress \par
\end{center}
\vskip 12pt
}
\makeatother
$endif$
\begin{document}
$for(include-before)$
$include-before$
$endfor$
\begin{frontmatter}
\title{$title$$if(subtitle)$\\\Large{$subtitle$}$endif$}
$for(author)$\author$if(authorwithinstitute)$[$for(author.institute)$$author.institute$$sep$,$endfor$]$endif${$author.name$$if(author.correspondence)$\corref{corrauth}$endif$$if(author.equalcontribution)$\corref{eqcon}$endif$ $if(author.footnote)$\fnref{$author.footnote$}$endif$}$if(author.email)$\ead{$author.email$}$endif$$endfor$
$if(authorwithinstitute)$ $for(institute)$ \address[$institute.id$]{$institute.name$} $endfor$ $endif$
% generate corresponding authors.
% \StrBehind is from xstring package
\ifnum \hascorr=1
\def\corrauths{
$for(author)$$if(author.correspondence)$and $author.name$ ($author.email$) $endif$$endfor$}
\cortext[corrauth]{Corresponding to \StrBehind*{\corrauths}{and }.}
\fi
% generate equal contributing authors.
\ifnum \haseqc=1
\def\eqa{$for(author)$$if(author.equalcontribution)$and $author.name$ $endif$$endfor$}
\cortext[eqcon]{\StrBehind*{\eqa}{and } are equally contributed to this work.}
\fi
$for(footnote)$
\fntext[$footnote.id$]{$footnote.text$}
$endfor$
$if(abstract)$
\begin{abstract}
$abstract$
\end{abstract}
$if(keywords)$
\begin{keyword}
$for(keywords/allbutlast)$$keywords$ \sep $endfor$
$for(keywords/last)$$keywords$$endfor$
\end{keyword}
$endif$
$endif$
\end{frontmatter}
$body$
$if(authorwithinstitute)$
$else$
\section{Author Information}
\getcorrauthinfo{}
\getotherauthinfo{}
$endif$
$if(natbib)$
$if(bibliography)$
$if(biblio-title)$
$if(book-class)$
\renewcommand\bibname{$biblio-title$}
$else$
\renewcommand\refname{$biblio-title$}
$endif$
$endif$
\bibliography{$bibliography$}
$endif$
$endif$
$for(include-after)$
$include-after$
$endfor$
\end{document}

239
_extensions/inst/tex/elsevier-harvard.csl Normal file
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@@ -0,0 +1,239 @@
<?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="never" default-locale="en-US">
<info>
<title>Elsevier - Harvard (with titles)</title>
<id>http://www.zotero.org/styles/elsevier-harvard</id>
<link href="http://www.zotero.org/styles/elsevier-harvard" rel="self"/>
<link href="http://www.zotero.org/styles/ecology-letters" rel="template"/>
<link href="http://www.elsevier.com/journals/biological-conservation/0006-3207/guide-for-authors#68000" rel="documentation"/>
<author>
<name>David Kaplan</name>
<email>david.kaplan@ird.fr</email>
</author>
<contributor>
<name>Simon Kornblith</name>
<email>simon@simonster.com</email>
</contributor>
<contributor>
<name>Bruce D'Arcus</name>
</contributor>
<contributor>
<name>Curtis M. Humphrey</name>
</contributor>
<contributor>
<name>Richard Karnesky</name>
<email>karnesky+zotero@gmail.com</email>
<uri>http://arc.nucapt.northwestern.edu/Richard_Karnesky</uri>
</contributor>
<contributor>
<name>Sebastian Karcher</name>
</contributor>
<category citation-format="author-date"/>
<category field="biology"/>
<category field="generic-base"/>
<updated>2014-03-04T00:09:00+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="container">
<choose>
<if type="chapter paper-conference" match="any">
<text term="in" prefix=", " suffix=": "/>
<names variable="editor translator" delimiter=", " suffix=", ">
<name name-as-sort-order="all" sort-separator=", " initialize-with="." delimiter=", " delimiter-precedes-last="always"/>
<label form="short" text-case="capitalize-first" prefix=" (" suffix=")"/>
</names>
<group delimiter=", ">
<text variable="container-title" text-case="title"/>
<text variable="collection-title" text-case="title"/>
</group>
</if>
<else-if type="bill book graphic legal_case legislation motion_picture report song" match="any">
<group prefix=", " delimiter=", ">
<text variable="container-title"/>
<text variable="collection-title"/>
</group>
</else-if>
<else>
<group prefix=". " delimiter=", ">
<text variable="container-title" form="short"/>
<text variable="collection-title"/>
</group>
</else>
</choose>
</macro>
<macro name="author">
<names variable="author">
<name name-as-sort-order="all" sort-separator=", " initialize-with="." delimiter=", " delimiter-precedes-last="always"/>
<label form="short" prefix=" (" suffix=")" text-case="capitalize-first"/>
<substitute>
<names variable="editor"/>
<names variable="translator"/>
<text macro="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"/>
<choose>
<if type="bill book graphic legal_case legislation motion_picture report song" match="any">
<text variable="title" form="short" font-style="italic"/>
</if>
<else>
<text variable="title" form="short" quotes="true"/>
</else>
</choose>
</substitute>
</names>
</macro>
<macro name="access">
<choose>
<if variable="DOI">
<text variable="DOI" prefix="https://doi.org/"/>
</if>
<else-if type="webpage post-weblog" match="any">
<group delimiter=" ">
<text value="URL"/>
<text variable="URL"/>
<group prefix="(" suffix=").">
<text term="accessed" suffix=" "/>
<date variable="accessed">
<date-part name="month" form="numeric" suffix="."/>
<date-part name="day" suffix="."/>
<date-part name="year" form="short"/>
</date>
</group>
</group>
</else-if>
</choose>
</macro>
<macro name="title">
<choose>
<if type="report thesis" match="any">
<text variable="title"/>
<group prefix=" (" suffix=")" delimiter=" ">
<text variable="genre"/>
<text variable="number" prefix="No. "/>
</group>
</if>
<else-if type="bill book graphic legal_case legislation motion_picture report song speech" match="any">
<text variable="title"/>
<text macro="edition" prefix=", "/>
</else-if>
<else-if type="webpage">
<text variable="title"/>
<text value="WWW Document" prefix=" [" suffix="]"/>
</else-if>
<else>
<text variable="title"/>
</else>
</choose>
</macro>
<macro name="publisher">
<group delimiter=", ">
<text variable="publisher"/>
<text variable="publisher-place"/>
</group>
</macro>
<macro name="event">
<choose>
<if variable="event">
<text term="presented at" text-case="capitalize-first" suffix=" "/>
<text variable="event"/>
</if>
</choose>
</macro>
<macro name="issued">
<choose>
<if variable="issued">
<date variable="issued">
<date-part name="year"/>
</date>
</if>
<else>
<text term="no date" form="short"/>
</else>
</choose>
</macro>
<macro name="edition">
<group delimiter=" ">
<choose>
<if is-numeric="edition">
<number variable="edition" form="ordinal"/>
</if>
<else>
<text variable="edition" suffix="."/>
</else>
</choose>
<text value="ed"/>
</group>
</macro>
<macro name="locators">
<choose>
<if type="article-journal article-magazine article-newspaper" match="any">
<group prefix=" " delimiter=", ">
<group>
<text variable="volume"/>
</group>
<text variable="page"/>
</group>
</if>
<else-if type="bill book graphic legal_case legislation motion_picture report song thesis" match="any">
<group delimiter=", " prefix=". ">
<text macro="event"/>
<text macro="publisher"/>
</group>
</else-if>
<else-if type="chapter paper-conference" match="any">
<group delimiter=", " prefix=". ">
<text macro="event"/>
<text macro="publisher"/>
<group>
<label variable="page" form="short" suffix=" "/>
<text variable="page"/>
</group>
</group>
</else-if>
<else-if type="patent">
<text variable="number" prefix=". "/>
</else-if>
</choose>
</macro>
<citation et-al-min="3" et-al-use-first="1" disambiguate-add-givenname="true" disambiguate-add-year-suffix="true" collapse="year" cite-group-delimiter=", ">
<sort>
<key macro="author"/>
<key macro="issued" sort="descending"/>
</sort>
<layout prefix="(" suffix=")" delimiter="; ">
<group delimiter=", ">
<text macro="author-short"/>
<text macro="issued"/>
<group delimiter=" ">
<label variable="locator" form="short"/>
<text variable="locator"/>
</group>
</group>
</layout>
</citation>
<bibliography hanging-indent="true" entry-spacing="0" line-spacing="1">
<sort>
<key macro="author"/>
<key macro="issued" sort="descending"/>
</sort>
<layout>
<group suffix=".">
<text macro="author" suffix=","/>
<text macro="issued" prefix=" "/>
<group prefix=". ">
<text macro="title"/>
<text macro="container"/>
<text macro="locators"/>
</group>
</group>
<text macro="access" prefix=". "/>
</layout>
</bibliography>
</style>

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<?xml version="1.0" encoding="utf-8"?>
<style xmlns="http://purl.org/net/xbiblio/csl" version="1.0" default-locale="en-GB">
<!-- Generated with https://github.com/citation-style-language/utilities/tree/master/generate_dependent_styles/data/npg -->
<info>
<title>Nature Biotechnology</title>
<id>http://www.zotero.org/styles/nature-biotechnology</id>
<link href="http://www.zotero.org/styles/nature-biotechnology" rel="self"/>
<link href="http://www.zotero.org/styles/nature" rel="independent-parent"/>
<link href="http://www.nature.com/nbt/pdf/gta.pdf" rel="documentation"/>
<category citation-format="numeric"/>
<category field="biology"/>
<issn>1087-0156</issn>
<eissn>1546-1696</eissn>
<updated>2014-06-17T02:29:16+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>
</style>

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<?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-GB">
<info>
<title>Nature</title>
<id>http://www.zotero.org/styles/nature</id>
<link href="http://www.zotero.org/styles/nature" rel="self"/>
<link href="http://www.nature.com/nature/authors/gta/index.html#a5.4" rel="documentation"/>
<link href="http://www.nature.com/srep/publish/guidelines#references" rel="documentation"/>
<author>
<name>Michael Berkowitz</name>
<email>mberkowi@gmu.edu</email>
</author>
<category citation-format="numeric"/>
<category field="science"/>
<category field="generic-base"/>
<issn>0028-0836</issn>
<eissn>1476-4687</eissn>
<updated>2022-07-02T13:18:26+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="title">
<choose>
<if type="bill book graphic legal_case legislation motion_picture report song" match="any">
<text variable="title" font-style="italic"/>
</if>
<else>
<text variable="title"/>
</else>
</choose>
</macro>
<macro name="author">
<names variable="author">
<name sort-separator=", " delimiter=", " and="symbol" initialize-with=". " delimiter-precedes-last="never" name-as-sort-order="all"/>
<label form="short" prefix=", "/>
<et-al font-style="italic"/>
</names>
</macro>
<macro name="access">
<choose>
<if variable="volume" type="article" match="any"/>
<else-if variable="DOI">
<text variable="DOI" prefix="doi:"/>
</else-if>
</choose>
</macro>
<macro name="issuance">
<choose>
<if type="bill book graphic legal_case legislation motion_picture song thesis chapter paper-conference" match="any">
<group delimiter="; " suffix=".">
<group delimiter=", " prefix="(" suffix=")">
<text variable="publisher" form="long"/>
<date variable="issued">
<date-part name="year"/>
</date>
</group>
</group>
</if>
<else-if type="article">
<group delimiter=" ">
<choose>
<if variable="genre" match="any">
<text variable="genre" text-case="capitalize-first"/>
</if>
<else>
<text term="article" text-case="capitalize-first"/>
</else>
</choose>
<text term="at"/>
<choose>
<if variable="DOI" match="any">
<text variable="DOI" prefix="https://doi.org/"/>
</if>
<else>
<text variable="URL"/>
</else>
</choose>
<date date-parts="year" form="text" variable="issued" prefix="(" suffix=")"/>
</group>
</else-if>
<else-if type="report webpage post post-weblog" match="any">
<group delimiter=" ">
<text variable="URL"/>
<date date-parts="year" form="text" variable="issued" prefix="(" suffix=")"/>
</group>
</else-if>
<else>
<date variable="issued" prefix="(" suffix=")">
<date-part name="year"/>
</date>
</else>
</choose>
</macro>
<macro name="container-title">
<choose>
<if type="article-journal">
<text variable="container-title" font-style="italic" form="short"/>
</if>
<else>
<text variable="container-title" font-style="italic"/>
</else>
</choose>
</macro>
<macro name="editor">
<choose>
<if type="chapter paper-conference" match="any">
<names variable="editor" prefix="(" suffix=")">
<label form="short" suffix=" "/>
<name and="symbol" delimiter-precedes-last="never" initialize-with=". " name-as-sort-order="all"/>
</names>
</if>
</choose>
</macro>
<macro name="volume">
<choose>
<if type="article-journal" match="any">
<text variable="volume" font-weight="bold" suffix=","/>
</if>
<else>
<group delimiter=" ">
<label variable="volume" form="short"/>
<text variable="volume"/>
</group>
</else>
</choose>
</macro>
<citation collapse="citation-number">
<sort>
<key variable="citation-number"/>
</sort>
<layout vertical-align="sup" delimiter=",">
<text variable="citation-number"/>
</layout>
</citation>
<bibliography et-al-min="6" et-al-use-first="1" second-field-align="flush" entry-spacing="0" line-spacing="2">
<layout suffix=".">
<text variable="citation-number" suffix="."/>
<group delimiter=" ">
<text macro="author" suffix="."/>
<text macro="title" suffix="."/>
<choose>
<if type="chapter paper-conference" match="any">
<text term="in"/>
</if>
</choose>
<text macro="container-title"/>
<text macro="editor"/>
<text macro="volume"/>
<text variable="page"/>
<text macro="issuance"/>
<text macro="access"/>
</group>
</layout>
</bibliography>
</style>

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_extensions/inst/tex/supp.cls Normal file
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_extensions/inst/tex/supp.tex Normal file
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$-- Keeping in template layout for backward compatibility
\documentclass[$if(layout)$$layout$$else$$for(classoption)$$classoption$$sep$,$endfor$$endif$]{_extensions/inst/tex/supp} %review=doublespace preprint=single 5p=2 column
%%% Begin My package additions %%%%%%%%%%%%%%%%%%%
\usepackage[hyphens]{url}
$if(journal)$
\journal{$journal$} % Sets Journal name
$endif$
\usepackage{lineno} % add
$if(linenumbers)$
\linenumbers % turns line numbering on
$endif$
\usepackage{graphicx}
\usepackage{xstring}
\usepackage{xcolor}
%%%%%%%%%%%%%%%% end my additions to header
\usepackage[T1]{fontenc}
\usepackage{lmodern}
\usepackage{amssymb,amsmath}
\usepackage{ifxetex,ifluatex}
\usepackage{fixltx2e} % provides \textsubscript
% use upquote if available, for straight quotes in verbatim environments
\IfFileExists{upquote.sty}{\usepackage{upquote}}{}
\ifnum 0\ifxetex 1\fi\ifluatex 1\fi=0 % if pdftex
\usepackage[utf8]{inputenc}
$if(euro)$
\usepackage{eurosym}
$endif$
\else % if luatex or xelatex
\usepackage{fontspec}
\ifxetex
\usepackage{xltxtra,xunicode}
\fi
\defaultfontfeatures{Mapping=tex-text,Scale=MatchLowercase}
\newcommand{\euro}{€}
$if(mainfont)$
\setmainfont{$mainfont$}
$endif$
$if(sansfont)$
\setsansfont{$sansfont$}
$endif$
$if(monofont)$
\setmonofont{$monofont$}
$endif$
$if(mathfont)$
\setmathfont{$mathfont$}
$endif$
\fi
% use microtype if available
\IfFileExists{microtype.sty}{\usepackage{microtype}}{}
$if(geometry)$
\usepackage[$for(geometry)$$geometry$$sep$,$endfor$]{geometry}
$endif$
$if(natbib)$
\usepackage{natbib}
\setcitestyle{$natbiboptions$}
\bibliographystyle{$if(biblio-style)$$biblio-style$$else$plainnat$endif$}
$endif$
$if(listings)$
\usepackage{listings}
$endif$
$if(lhs)$
\lstnewenvironment{code}{\lstset{language=Haskell,basicstyle=\small\ttfamily}}{}
$endif$
$if(verbatim-in-note)$
\usepackage{fancyvrb}
$endif$
$if(graphics)$
\usepackage{graphicx}
$endif$
\ifxetex
\usepackage[setpagesize=false, % page size defined by xetex
unicode=false, % unicode breaks when used with xetex
xetex]{hyperref}
\else
\usepackage[unicode=true]{hyperref}
\fi
\hypersetup{breaklinks=true,
bookmarks=true,
pdfauthor={$author-meta$},
pdftitle={$title-meta$},
colorlinks=$if(colorlinks)$true$else$false$endif$,
urlcolor=$if(urlcolor)$$urlcolor$$else$blue$endif$,
linkcolor=$if(linkcolor)$$linkcolor$$else$magenta$endif$,
pdfborder={0 0 0}}
\urlstyle{same} % don't use monospace font for urls
$if(links-as-notes)$
% Make links footnotes instead of hotlinks:
\renewcommand{\href}[2]{#2\footnote{\url{#1}}}
$endif$
$if(strikeout)$
\usepackage[normalem]{ulem}
% avoid problems with \sout in headers with hyperref:
\pdfstringdefDisableCommands{\renewcommand{\sout}{}}
$endif$
$if(numbersections)$
\setcounter{secnumdepth}{5}
$else$
\setcounter{secnumdepth}{0}
$endif$
$if(verbatim-in-note)$
\VerbatimFootnotes % allows verbatim text in footnotes
$endif$
$if(lang)$
\ifxetex
\usepackage{polyglossia}
\setmainlanguage{$mainlang$}
\else
\usepackage[$lang$]{babel}
\fi
$endif$
% Pandoc toggle for numbering sections (defaults to be off)
$if(numbersections)$
$else$
\setcounter{secnumdepth}{0}
$endif$
$if(highlighting-macros)$
% Pandoc syntax highlighting
$highlighting-macros$
$endif$
% tightlist command for lists without linebreak
\providecommand{\tightlist}{%
\setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}
$if(tables)$
% From pandoc table feature
\usepackage{longtable,booktabs,array}
$if(multirow)$
\usepackage{multirow}
$endif$
\usepackage{calc} % for calculating minipage widths
% Correct order of tables after \paragraph or \subparagraph
\usepackage{etoolbox}
\makeatletter
\patchcmd\longtable{\par}{\if@noskipsec\mbox{}\fi\par}{}{}
\makeatother
% Allow footnotes in longtable head/foot
\IfFileExists{footnotehyper.sty}{\usepackage{footnotehyper}}{\usepackage{footnote}}
\makesavenoteenv{longtable}
$endif$
$if(csl-refs)$
% Pandoc citation processing
\newlength{\cslhangindent}
\setlength{\cslhangindent}{1.5em}
\newlength{\csllabelwidth}
\setlength{\csllabelwidth}{3em}
\newlength{\cslentryspacingunit} % times entry-spacing
\setlength{\cslentryspacingunit}{\parskip}
% for Pandoc 2.8 to 2.10.1
\newenvironment{cslreferences}%
{$if(csl-hanging-indent)$\setlength{\parindent}{0pt}%
\everypar{\setlength{\hangindent}{\cslhangindent}}\ignorespaces$endif$}%
{\par}
% For Pandoc 2.11+
\newenvironment{CSLReferences}[2] % #1 hanging-ident, #2 entry spacing
{% don't indent paragraphs
\setlength{\parindent}{0pt}
% turn on hanging indent if param 1 is 1
\ifodd #1
\let\oldpar\par
\def\par{\hangindent=\cslhangindent\oldpar}
\fi
% set entry spacing
\setlength{\parskip}{#2\cslentryspacingunit}
}%
{}
\usepackage{calc}
\newcommand{\CSLBlock}[1]{#1\hfill\break}
\newcommand{\CSLLeftMargin}[1]{\parbox[t]{\csllabelwidth}{#1}}
\newcommand{\CSLRightInline}[1]{\parbox[t]{\linewidth - \csllabelwidth}{#1}\break}
\newcommand{\CSLIndent}[1]{\hspace{\cslhangindent}#1}
$endif$
$for(header-includes)$
$header-includes$
$endfor$
\usepackage{xifthen}
% set special color for EST
\ifthenelse{\equal{$journal$}{Environmental Science \& Technology}}
{\definecolor{seccol}{RGB}{56, 95, 66}}
{\definecolor{seccol}{RGB}{0, 0, 0}}
$if(uppersections)$
\usepackage{titlesec}
\titleformat{\section}
{\color{seccol}\large\bfseries\MakeUppercase}{\thesection}{1em}{}
$endif$
$if(sectiononnewpage)$
\AddToHook{cmd/section/before}{\clearpage}
$endif$
\usepackage{enumitem}
\usepackage{fontspec}
\usepackage{float}
\setmainfont{Helvetica}
\usepackage[normalem]{ulem}
\usepackage{hyperref}
\usepackage{nameref} %needed by zref-xr
\usepackage{zref-xr,zref-hyperref,zref-user}
\usepackage{xr-hyper}
% force to use \zref
$if(msname)$
\def\msname{$msname$}
\zexternaldocument*{\msname}
\renewcommand{\ref}{\zref}
$endif$
$if(smname)$
\def\smname{$smname$}
\zexternaldocument*{\smname}
$endif$
\zxrsetup{toltxlabel=true}
{\catcode`\#=12 \gdef\hashchar{#1}}
\makeatletter
\newcommand\hzref[1]{\edef\next{%
\noexpand\href{%
\zref@extractdefault{#1}{url}{}%
\zref@ifrefcontainsprop{#1}{anchor}{%
\hashchar\zref@extract{#1}{anchor}}{}}%
{\noexpand\zref{#1}}}\next}
\makeatother
$if(revision)$
% \usepackage{xcolor}
\usepackage{adjustbox}
\usepackage{mdframed}
\newmdenv[topline=false,
leftline=true,
bottomline=false,
rightline=false,
linewidth=3pt,
%backgroundcolor=lightgray,
linecolor=gray!30,
backgroundcolor=gray!5,
skipabove=\topsep,
skipbelow=\topsep,
leftmargin=0pt,
rightmargin=0pt,
innertopmargin=0pt,
innerbottommargin=0pt
]{refquote}
\newmdenv[topline=false,
leftline=true,
bottomline=false,
rightline=false,
linewidth=3pt,
%backgroundcolor=lightgray,
backgroundcolor=red!3!white,
linecolor=red!30!white,
skipabove=\topsep,
skipbelow=\topsep,
leftmargin=0pt,
rightmargin=0pt,
innertopmargin=10pt,
innerbottommargin=10pt
]{question}
\setenumerate{labelsep=*, leftmargin=1.0pc}
% setup hyperlink for page and line number
\def\msname{$if(msname)$$msname$$else$MS$endif$}
\def\smname{$if(smname)$$smname$$else$SM$endif$}
\setenumerate{labelsep=*, leftmargin=1.0pc}
%\zexternaldocument*{ManuscriptNew\veraa}
\zexternaldocument*{\msname}
\zexternaldocument*{\smname}
\newcommand{\hlabel}[1]{\label{#1}\hypertarget{#1}{
\linelabel{line:#1}}}
%\externaldocument[si-]{\smname\veraa}[\smname\veraa.pdf]
\makeatletter
\newcommand{\clab}[2]{%
\protected@write\@auxout{\let\clab\@secondoftwo}{
\string\newlabel{r:#1}{{#2}{}}}%
\hlabel{#1}#2\hlabel{#1end}}
\makeatother
\newcommand{\zhypera}[1]{\href[pdfnewwindow]{\msname.pdf\##1}{\\[1ex]\textbf{Page \zpageref{#1}, Line
\zref{line:#1}--\zref{line:#1end}:}\\}}
\newcommand{\cref}[1]{\begin{refquote}\zhypera{#1}{\zref{r:#1}}\\[-0.5ex]\end{refquote}}
% \newenvironment{ra}[1][\unskip]{\par \noindent \\[-1ex] \textbf{Response/Action:}\par\bf}{\ \\}
\renewenvironment{quote}{\begin{question}}{\end{question}}
% \renewenvironment{verbatim}{\begin{ra}}{\end{ra}}
$endif$
% def default corresponding authors and equal contributing authors variables
\def\hascorr{0}
\def\haseqc{0}
% check if corresponding author(s) and equal contributing authors are available
$for(author)$$if(author.correspondence)$\def\hascorr{1}$endif$$if(author.equalcontribution)$\def\haseqc{1}$endif$ $endfor$
\newcommand{\getcorrauthinfo}{
\subsection{Corresponding Author(s)}
\def\a{} \def\b{} \def\c{}
\hspace{-2.2em}
$for(author)$
$if(author.correspondence)$
\textbf{$author.name$:}
\vspace{-1em}
\begin{enumerate}[labelindent=-12pt,label=\arabic*.,itemindent=0em,leftmargin=!, itemsep = -10pt]
$for(author.institute)$ \def\a{$author.institute$}
$for(institute)$ \def\b{$institute.id$} \def\c{$institute.name$}
\ifx \a\b \item \c; \fi
$endfor$
$endfor$
$if(author.email)$\item email: $author.email$;$endif$
$if(author.orcid)$\item orcid: $author.orcid$;$endif$
$if(author.tel)$\item Tel: $author.tel$;$endif$
$if(author.fax)$\item Fax: $author.fax$$endif$
\end{enumerate}
$endif$
$endfor$
}
\newcommand{\getotherauthinfo}{
\subsection{Author(s)}
\def\a{} \def\b{} \def\c{}
\hspace{-2.2em}
$for(author)$
$if(author.correspondence)$
$else$
\textbf{$author.name$:}
\vspace{-1em}
\begin{enumerate}[labelindent=-12pt,label=\arabic*.,itemindent=0em,leftmargin=!, itemsep = -10pt]
$for(author.institute)$ \def\a{$author.institute$} $for(institute)$ \def\b{$institute.id$} \def\c{$institute.name$}
\ifx \a\b \item \c; \fi
$endfor$
$endfor$
$if(author.email)$\item email: $author.email$;$endif$
$if(author.orcid)$\item orcid: $author.orcid$;$endif$
$if(author.tel)$\item Tel: $author.tel$;$endif$
$if(author.fax)$\item Fax: $author.fax$$endif$
\end{enumerate}
$endif$
$endfor$
}
$preamble$
% remove the two line around Abstract
$if(abstract)$
$else$
\makeatletter
\renewcommand{\MaketitleBox}{%
\resetTitleCounters
\def\baselinestretch{1}%
\begin{center}
\def\baselinestretch{1}%
\large \@title \par
\vskip 18pt
\normalsize\elsauthors \par
\vskip 30pt
\footnotesize \itshape \elsaddress \par
\end{center}
\vskip 12pt
}
\makeatother
$endif$
\begin{document}
$for(include-before)$
$include-before$
$endfor$
\begin{frontmatter}
\title{$title$$if(subtitle)$\\\Large{$subtitle$}$endif$}
$for(author)$\author$if(authorwithinstitute)$[$for(author.institute)$$author.institute$$sep$,$endfor$]$endif${$author.name$$if(author.correspondence)$\corref{corrauth}$endif$$if(author.equalcontribution)$\corref{eqcon}$endif$ $if(author.footnote)$\fnref{$author.footnote$}$endif$}$if(author.email)$\ead{$author.email$}$endif$$endfor$
$if(authorwithinstitute)$ $for(institute)$ \address[$institute.id$]{$institute.name$} $endfor$ $endif$
% generate corresponding authors.
% \StrBehind is from xstring package
\ifnum \hascorr=1
\def\corrauths{
$for(author)$$if(author.correspondence)$and $author.name$ ($author.email$) $endif$$endfor$}
\cortext[corrauth]{Corresponding to \StrBehind*{\corrauths}{and }.}
\fi
% generate equal contributing authors.
\ifnum \haseqc=1
\def\eqa{$for(author)$$if(author.equalcontribution)$and $author.name$ $endif$$endfor$}
\cortext[eqcon]{\StrBehind*{\eqa}{and } are equally contributed to this work.}
\fi
$for(footnote)$
\fntext[$footnote.id$]{$footnote.text$}
$endfor$
$if(abstract)$
\begin{abstract}
$abstract$
\end{abstract}
$if(keywords)$
\begin{keyword}
$for(keywords/allbutlast)$$keywords$ \sep $endfor$
$for(keywords/last)$$keywords$$endfor$
\end{keyword}
$endif$
$endif$
\end{frontmatter}
$body$
$if(authorwithinstitute)$
$else$
\section{Author Information}
\getcorrauthinfo{}
\getotherauthinfo{}
\section{Notes}
The authors declare no competing financial interest.
$endif$
$if(natbib)$
$if(bibliography)$
$if(biblio-title)$
$if(book-class)$
\renewcommand\bibname{$biblio-title$}
$else$
\renewcommand\refname{$biblio-title$}
$endif$
$endif$
\bibliography{$bibliography$}
$endif$
$endif$
$for(include-after)$
$include-after$
$endfor$
\end{document}

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<?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-GB">
<info>
<title>The ISME Journal</title>
<id>http://www.zotero.org/styles/the-isme-journal</id>
<link href="http://www.zotero.org/styles/the-isme-journal" rel="self"/>
<link href="http://www.zotero.org/styles/journal-of-frailty-and-aging" rel="template"/>
<link href="http://www.nature.com/ismej/ismej_new_gta.pdf" rel="documentation"/>
<author>
<name>Patrick O'Brien</name>
<email>obrienpat86@gmail.com</email>
</author>
<category citation-format="numeric"/>
<category field="biology"/>
<issn>1751-7362</issn>
<eissn>1751-7370</eissn>
<summary>The ISME Journal style, which is not the same as for Nature</summary>
<updated>2018-03-19T15:30:26+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="author">
<names variable="author">
<name sort-separator=" " initialize-with="" name-as-sort-order="all" delimiter=", " delimiter-precedes-last="always"/>
<label form="short" strip-periods="true" prefix=" (" suffix=")"/>
<substitute>
<names variable="editor"/>
<names variable="translator"/>
</substitute>
</names>
</macro>
<macro name="editor">
<text term="in" text-case="capitalize-first" suffix=": "/>
<names variable="editor">
<name sort-separator=" " initialize-with="" name-as-sort-order="all" delimiter=", " delimiter-precedes-last="always"/>
<label form="short" strip-periods="true" prefix=" (" suffix=")."/>
</names>
</macro>
<macro name="edition">
<choose>
<if is-numeric="edition">
<group delimiter=" ">
<number variable="edition" form="ordinal"/>
<text term="edition" form="short" strip-periods="true"/>
</group>
</if>
<else>
<text variable="edition"/>
</else>
</choose>
</macro>
<macro name="title">
<choose>
<if type="book">
<group delimiter=", " suffix=". ">
<text variable="title"/>
<text macro="edition"/>
</group>
</if>
<else>
<text variable="title" suffix=". "/>
</else>
</choose>
</macro>
<macro name="publisher">
<group delimiter=", ">
<text variable="publisher"/>
<text variable="publisher-place"/>
</group>
</macro>
<macro name="year-date">
<date variable="issued">
<date-part name="year"/>
</date>
</macro>
<citation collapse="citation-number">
<sort>
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<date-part name="year"/>
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