tidy all extensions

This commit is contained in:
Ming Su 2025-07-28 19:35:21 +08:00
parent 979eaff1a2
commit 2d1cdd4951
21 changed files with 18 additions and 1335 deletions

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@ -8,6 +8,10 @@ resources:
- dwcl.tex
contributes:
formats:
html:
css: _extensions/drwater/dwcl/inst/drwater.css
docx:
reference-doc: _extensions/drwater/dwcl/inst/CL.docx
pdf:
latex_engine: xelatex
template: dwcl.tex

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@ -0,0 +1 @@
../../../../../dwinst/CL.docx

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@ -0,0 +1 @@
../../../../../dwinst/drwater.css

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@ -6,4 +6,4 @@ contributes:
formats:
html:
toc: true
css: _extensions/drwater/dwhm/inst/dwhm.css
css: inst/drwater.css

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@ -0,0 +1 @@
../../../../../dwinst/drwater.css

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@ -1,495 +0,0 @@
<!DOCTYPE html>
<html xmlns="http://www.w3.org/1999/xhtml" lang="en" xml:lang="en"><head>
<meta charset="utf-8">
<meta name="generator" content="quarto-1.7.29">
<meta name="viewport" content="width=device-width, initial-scale=1.0, user-scalable=yes">
<meta name="author" content="Ming Su">
<meta name="dcterms.date" content="2025-07-27">
<title>Untitled</title>
<style>
code{white-space: pre-wrap;}
span.smallcaps{font-variant: small-caps;}
div.columns{display: flex; gap: min(4vw, 1.5em);}
div.column{flex: auto; overflow-x: auto;}
div.hanging-indent{margin-left: 1.5em; text-indent: -1.5em;}
ul.task-list{list-style: none;}
ul.task-list li input[type="checkbox"] {
width: 0.8em;
margin: 0 0.8em 0.2em -1em; /* quarto-specific, see https://github.com/quarto-dev/quarto-cli/issues/4556 */
vertical-align: middle;
}
</style>
<script src="template_files/libs/clipboard/clipboard.min.js"></script>
<script src="template_files/libs/quarto-html/quarto.js" type="module"></script>
<script src="template_files/libs/quarto-html/tabsets/tabsets.js" type="module"></script>
<script src="template_files/libs/quarto-html/popper.min.js"></script>
<script src="template_files/libs/quarto-html/tippy.umd.min.js"></script>
<script src="template_files/libs/quarto-html/anchor.min.js"></script>
<link href="template_files/libs/quarto-html/tippy.css" rel="stylesheet">
<link href="template_files/libs/quarto-html/quarto-syntax-highlighting-0815c480559380816a4d1ea211a47e91.css" rel="stylesheet" id="quarto-text-highlighting-styles">
<script src="template_files/libs/bootstrap/bootstrap.min.js"></script>
<link href="template_files/libs/bootstrap/bootstrap-icons.css" rel="stylesheet">
<link href="template_files/libs/bootstrap/bootstrap-81267100e462c21b3d6c0d5bf76a3417.min.css" rel="stylesheet" append-hash="true" id="quarto-bootstrap" data-mode="light">
</head>
<body class="fullcontent quarto-light">
<div id="quarto-content" class="page-columns page-rows-contents page-layout-article">
<main class="content" id="quarto-document-content">
<header id="title-block-header" class="quarto-title-block default">
<div class="quarto-title">
<h1 class="title">Untitled</h1>
</div>
<div class="quarto-title-meta">
<div>
<div class="quarto-title-meta-heading">Author</div>
<div class="quarto-title-meta-contents">
<p>Ming Su </p>
</div>
</div>
<div>
<div class="quarto-title-meta-heading">Published</div>
<div class="quarto-title-meta-contents">
<p class="date">July 27, 2025</p>
</div>
</div>
</div>
</header>
<section id="introduction" class="level2">
<h2 class="anchored" data-anchor-id="introduction">Introduction</h2>
<p><em>TODO</em> Create an example file that demonstrates the formatting and features of your format.</p>
</section>
<section id="more-information" class="level2">
<h2 class="anchored" data-anchor-id="more-information">More Information</h2>
<p>You can learn more about controlling the appearance of HTML output here: <a href="https://quarto.org/docs/output-formats/html-basics.html" class="uri">https://quarto.org/docs/output-formats/html-basics.html</a></p>
</section>
</main>
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button.setAttribute("data-bs-toggle", "tooltip");
button.setAttribute("data-bs-placement", "left");
button.setAttribute("data-bs-title", "Copied!");
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{ trigger: "manual",
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link.href = link.dataset.originalHref;
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fetch(url)
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return selector;
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}
};
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const div = window.document.getElementById(elId);
if (div) {
div.remove();
}
});
selectedAnnoteEl = undefined;
};
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window.addEventListener(
"resize",
throttle(() => {
elRect = undefined;
if (selectedAnnoteEl) {
selectCodeLines(selectedAnnoteEl);
}
}, 10)
);
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let timer;
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} else { // all the others get throttled
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const clickedEl = event.target;
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unselectCodeLines();
const activeEl = window.document.querySelector('dt[data-target-cell].code-annotation-active');
if (activeEl) {
activeEl.classList.remove('code-annotation-active');
}
selectCodeLines(clickedEl);
clickedEl.classList.add('code-annotation-active');
} else {
// Unselect the line
unselectCodeLines();
clickedEl.classList.remove('code-annotation-active');
}
});
}
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const parentEl = el.parentElement;
if (parentEl) {
const cites = parentEl.dataset.cites;
if (cites) {
return {
el,
cites: cites.split(' ')
};
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return findCites(el.parentElement)
}
} else {
return undefined;
}
};
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var popup = window.document.createElement('div');
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citeDiv.classList.add('hanging-indent');
citeDiv.classList.add('csl-entry');
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});
</script>
</div> <!-- /content -->
</body></html>

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@ -1,405 +0,0 @@
% Options for packages loaded elsewhere
% Options for packages loaded elsewhere
\PassOptionsToPackage{unicode}{hyperref}
\PassOptionsToPackage{hyphens}{url}
\PassOptionsToPackage{dvipsnames,svgnames,x11names}{xcolor}
\PassOptionsToPackage{space}{xeCJK}
%
\documentclass[
english,
12pt,
letterpaper,
]{scrartcl}
\usepackage{xcolor}
\usepackage[margin=1in]{geometry}
\usepackage{amsmath,amssymb}
\setcounter{secnumdepth}{-\maxdimen} % remove section numbering
\usepackage{iftex}
\ifPDFTeX
\usepackage[T1]{fontenc}
\usepackage[utf8]{inputenc}
\usepackage{textcomp} % provide euro and other symbols
\else % if luatex or xetex
\usepackage{unicode-math} % this also loads fontspec
\defaultfontfeatures{Scale=MatchLowercase}
\defaultfontfeatures[\rmfamily]{Ligatures=TeX,Scale=1}
\fi
\usepackage{lmodern}
\ifPDFTeX\else
% xetex/luatex font selection
\setmainfont[]{Source Sans 3}
\setsansfont[Color=39729E]{Gill Sans}
\setmonofont[]{JetBrains Mono}
\setmathfont[]{Cambria Math}
\ifXeTeX
\usepackage{xeCJK}
\setCJKmainfont[]{SimHei}
\fi
\ifLuaTeX
\usepackage[]{luatexja-fontspec}
\setmainjfont[]{SimHei}
\fi
\fi
% Use upquote if available, for straight quotes in verbatim environments
\IfFileExists{upquote.sty}{\usepackage{upquote}}{}
\IfFileExists{microtype.sty}{% use microtype if available
\usepackage[]{microtype}
\UseMicrotypeSet[protrusion]{basicmath} % disable protrusion for tt fonts
}{}
\makeatletter
\@ifundefined{KOMAClassName}{% if non-KOMA class
\IfFileExists{parskip.sty}{%
\usepackage{parskip}
}{% else
\setlength{\parindent}{0pt}
\setlength{\parskip}{6pt plus 2pt minus 1pt}}
}{% if KOMA class
\KOMAoptions{parskip=half}}
\makeatother
\usepackage{longtable,booktabs,array}
\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}
\usepackage{graphicx}
\makeatletter
\newsavebox\pandoc@box
\newcommand*\pandocbounded[1]{% scales image to fit in text height/width
\sbox\pandoc@box{#1}%
\Gscale@div\@tempa{\textheight}{\dimexpr\ht\pandoc@box+\dp\pandoc@box\relax}%
\Gscale@div\@tempb{\linewidth}{\wd\pandoc@box}%
\ifdim\@tempb\p@<\@tempa\p@\let\@tempa\@tempb\fi% select the smaller of both
\ifdim\@tempa\p@<\p@\scalebox{\@tempa}{\usebox\pandoc@box}%
\else\usebox{\pandoc@box}%
\fi%
}
% Set default figure placement to htbp
\def\fps@figure{htbp}
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\usepackage[bidi=basic]{babel}
\else
\usepackage[bidi=default]{babel}
\fi
\ifPDFTeX
\else
\babelfont{rm}[]{Source Sans 3}
\fi
% get rid of language-specific shorthands (see #6817):
\let\LanguageShortHands\languageshorthands
\def\languageshorthands#1{}
\ifLuaTeX
\usepackage[english]{selnolig} % disable illegal ligatures
\fi
\setlength{\emergencystretch}{3em} % prevent overfull lines
\providecommand{\tightlist}{%
\setlength{\itemsep}{0pt}\setlength{\parskip}{0pt}}
% -----------------------
% CUSTOM PREAMBLE STUFF
% -----------------------
\usepackage{enumitem}
\usepackage{fontspec}
\usepackage{float}
\usepackage[normalem]{ulem}
\usepackage{hyperref}
\usepackage{nameref} %needed by zref-xr
\usepackage{zref-xr,zref-hyperref,zref-user}
\usepackage{xr-hyper}
\usepackage[normalem]{ulem}
\usepackage{setspace}
\usepackage{lineno}
\usepackage{caption}
\captionsetup{singlelinecheck=off}
\usepackage[UTF8, scheme=plain]{ctex}
\usepackage{orcidlink}
% \setkomafont{author}{\normalsize}
% for revision
\usepackage{adjustbox}
% \usepackage{xcolor}
\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}
% setup hyperlink for page and line number
\def\msname{MS}
\def\smname{SM}
\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}}
% -----------------
% Title block stuff
% -----------------
% Title
\makeatletter
\renewcommand{\title}[1]{\gdef\@title{\large\textbf{#1}}} % Adjust \Huge or other font commands
\makeatother
% ------------------
% Section headings
% ------------------
\usepackage{titlesec}
\titleformat*{\section}{\Large\sffamily\bfseries\raggedright}
\titleformat*{\subsection}{\large\sffamily\bfseries\raggedright}
\titleformat*{\subsubsection}{\normalsize\sffamily\bfseries\raggedright}
\titleformat*{\paragraph}{\small\sffamily\bfseries\raggedright}
%\titlespacing{<command>}{<left>}{<before-sep>}{<after-sep>}
% Starred version removes indentation in following paragraph
\titlespacing*{\section}{0em}{2em}{0.1em}
\titlespacing*{\subsection}{0em}{1.25em}{0.1em}
\titlespacing*{\subsubsection}{0em}{0.75em}{0em}
% ------------------
% Headers/Footers
% ------------------
% \usepackage{fancyhdr}
% \pagestyle{fancy}
% \fancyhf{}
% \fancyhead[L,C,R]{}
% \fancyfoot[L,C]{}
% \fancyfoot[R]{\thepage}
% \renewcommand{\headrulewidth}{1pt}
% \fancypagestyle{plain}{%
% \renewcommand{\headrulewidth}{0pt}%
% \fancyhf{}%
% \fancyfoot[R]{\thepage}%
% }
% \renewcommand\footnoterule{\rule{\linewidth}{0.1pt}\vspace{5pt}}
% ------------------
% Captions
% ------------------
\usepackage[labelfont=bf,labelsep=period]{caption}
\captionsetup[figure]{font=footnotesize,justification=raggedright,singlelinecheck=false,format=hang}
% ---------------------------
% END CUSTOM PREAMBLE STUFF
% ---------------------------
\usepackage{endfloat}
\doublespacing
\linenumbers
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{sfg}{h}{lost}}{\newfloat{sfg}{h}{lost}[chapter]}
\floatname{sfg}{Supplementary Fig.}
\newcommand*\listofsfgs{\listof{sfg}{List of Supplementary Figures}}
\makeatother
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{stb}{h}{lost}}{\newfloat{stb}{h}{lost}[chapter]}
\floatname{stb}{Supplementary Table}
\newcommand*\listofstbs{\listof{stb}{List of Supplementary Tables}}
\makeatother
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{seq}{h}{lost}}{\newfloat{seq}{h}{lost}[chapter]}
\floatname{seq}{Supplementary Eq.}
\newcommand*\listofseqs{\listof{seq}{List of Supplementary Equations}}
\makeatother
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{rfg}{h}{lost}}{\newfloat{rfg}{h}{lost}[chapter]}
\floatname{rfg}{Fig. R}
\newcommand*\quartorfgref[1]{Fig. \hyperref[#1]{R\ref{#1}}}
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\DeclareCaptionLabelFormat{quartorfgreflabelformat}{#1#2}
\captionsetup[rfg]{labelformat=quartorfgreflabelformat}
\newcommand*\listofrfgs{\listof{rfg}{List of Revision Figures}}
\makeatother
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{rtb}{h}{lost}}{\newfloat{rtb}{h}{lost}[chapter]}
\floatname{rtb}{Table R}
\newcommand*\quartortbref[1]{Table \hyperref[#1]{R\ref{#1}}}
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\DeclareCaptionLabelFormat{quartortbreflabelformat}{#1#2}
\captionsetup[rtb]{labelformat=quartortbreflabelformat}
\newcommand*\listofrtbs{\listof{rtb}{List of Revision Tables}}
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\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
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\floatname{req}{Eq R}
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\captionsetup[req]{labelformat=quartoreqreflabelformat}
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\else
\newcommand\listtablename{List of Tables}
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\renewcommand*\figurename{Fig.}
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\newcommand\figurename{Fig.}
\fi
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\renewcommand*\tablename{Table}
\else
\newcommand\tablename{Table}
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}
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{ruled}
\@ifundefined{c@chapter}{\newfloat{codelisting}{h}{lop}}{\newfloat{codelisting}{h}{lop}[chapter]}
\floatname{codelisting}{Listing}
\newcommand*\listoflistings{\listof{codelisting}{List of Listings}}
\captionsetup{labelsep=colon}
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\makeatletter
\makeatother
\makeatletter
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\@ifpackageloaded{subcaption}{}{\usepackage{subcaption}}
\makeatother
\usepackage{bookmark}
\IfFileExists{xurl.sty}{\usepackage{xurl}}{} % add URL line breaks if available
\urlstyle{same}
\hypersetup{
pdftitle={MANUSCRIPT TITLE},
pdfauthor={Xxxxx Yyyy; Ming Su; Min Yang},
pdflang={en},
colorlinks=true,
linkcolor={blue},
filecolor={Maroon},
citecolor={Blue},
urlcolor={blue},
pdfcreator={LaTeX via pandoc}}
\title{MANUSCRIPT TITLE}
\usepackage{etoolbox}
\makeatletter
\providecommand{\subtitle}[1]{% add subtitle to \maketitle
\apptocmd{\@title}{\par {\large\sffamily\bfseries #1 \par}}{}{}
}
\makeatother
\subtitle{Supplementary Information}
\author{\footnotesize Xxxxx Yyyy \and \footnotesize Ming
Su \and \footnotesize Min Yang}
\date{}
\begin{document}
% for some reason this does not work in header
\renewcommand{\abstractname}{Abstract.}
% add the short title to the fancy header
\maketitle
%\noindent \rule{\linewidth}{.5pt}
%\noindent \rule{\linewidth}{.5pt}
\newpage{}
\section*{Abstract}\label{abstract}
\addcontentsline{toc}{section}{Abstract}
\newpage{}
\newpage{}
\section*{References}\label{references}
\addcontentsline{toc}{section}{References}
\phantomsection\label{refs}
\newpage{}
\end{document}

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@ -1,11 +0,0 @@
\relax
\providecommand\zref@newlabel[2]{}
\providecommand \babel@aux [2]{\global \let \babel@toc \@gobbletwo }
\@nameuse{bbl@beforestart}
\providecommand\hyper@newdestlabel[2]{}
\providecommand*\HyPL@Entry[1]{}
\HyPL@Entry{0<</S/D>>}
\babel@aux{english}{}
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\gdef \@abspage@last{3}

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@ -1,422 +0,0 @@
% Options for packages loaded elsewhere
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\PassOptionsToPackage{hyphens}{url}
\PassOptionsToPackage{dvipsnames,svgnames,x11names}{xcolor}
\PassOptionsToPackage{space}{xeCJK}
%
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english,
12pt,
letterpaper,
]{article}
\usepackage{xcolor}
\usepackage[margin=1in]{geometry}
\usepackage{amsmath,amssymb}
\setcounter{secnumdepth}{-\maxdimen} % remove section numbering
\usepackage{iftex}
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\usepackage[T1]{fontenc}
\usepackage[utf8]{inputenc}
\usepackage{textcomp} % provide euro and other symbols
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\usepackage{unicode-math} % this also loads fontspec
\defaultfontfeatures{Scale=MatchLowercase}
\defaultfontfeatures[\rmfamily]{Ligatures=TeX,Scale=1}
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\usepackage{lmodern}
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% xetex/luatex font selection
\setmainfont[]{Source Sans 3}
\setsansfont[Color=39729E]{Gill Sans}
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% Use upquote if available, for straight quotes in verbatim environments
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\IfFileExists{microtype.sty}{% use microtype if available
\usepackage[]{microtype}
\UseMicrotypeSet[protrusion]{basicmath} % disable protrusion for tt fonts
}{}
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\@ifundefined{KOMAClassName}{% if non-KOMA class
\IfFileExists{parskip.sty}{%
\usepackage{parskip}
}{% else
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\setlength{\parskip}{6pt plus 2pt minus 1pt}}
}{% if KOMA class
\KOMAoptions{parskip=half}}
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\usepackage{longtable,booktabs,array}
\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}
\usepackage{graphicx}
\makeatletter
\newsavebox\pandoc@box
\newcommand*\pandocbounded[1]{% scales image to fit in text height/width
\sbox\pandoc@box{#1}%
\Gscale@div\@tempa{\textheight}{\dimexpr\ht\pandoc@box+\dp\pandoc@box\relax}%
\Gscale@div\@tempb{\linewidth}{\wd\pandoc@box}%
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}
% Set default figure placement to htbp
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\ifLuaTeX
\usepackage[bidi=basic]{babel}
\else
\usepackage[bidi=default]{babel}
\fi
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\babelfont{rm}[]{Source Sans 3}
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% get rid of language-specific shorthands (see #6817):
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% -----------------------
% CUSTOM PREAMBLE STUFF
% -----------------------
\usepackage{enumitem}
\usepackage{fontspec}
\usepackage{float}
\usepackage[normalem]{ulem}
\usepackage{hyperref}
\usepackage{nameref} %needed by zref-xr
\usepackage{zref-xr,zref-hyperref,zref-user}
\usepackage{xr-hyper}
\usepackage[normalem]{ulem}
\usepackage{setspace}
\usepackage{lineno}
\usepackage{caption}
\captionsetup{singlelinecheck=off}
\usepackage[UTF8, scheme=plain]{ctex}
\usepackage{orcidlink}
% \setkomafont{author}{\normalsize}
% for revision
\usepackage{adjustbox}
% \usepackage{xcolor}
\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}
% setup hyperlink for page and line number
\def\msname{MS}
\def\smname{SM}
\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}}
% -----------------
% Title block stuff
% -----------------
% Title
\makeatletter
\renewcommand{\title}[1]{\gdef\@title{\large\textbf{#1}}} % Adjust \Huge or other font commands
\makeatother
% ------------------
% Section headings
% ------------------
\usepackage{titlesec}
\titleformat*{\section}{\Large\sffamily\bfseries\raggedright}
\titleformat*{\subsection}{\large\sffamily\bfseries\raggedright}
\titleformat*{\subsubsection}{\normalsize\sffamily\bfseries\raggedright}
\titleformat*{\paragraph}{\small\sffamily\bfseries\raggedright}
%\titlespacing{<command>}{<left>}{<before-sep>}{<after-sep>}
% Starred version removes indentation in following paragraph
\titlespacing*{\section}{0em}{2em}{0.1em}
\titlespacing*{\subsection}{0em}{1.25em}{0.1em}
\titlespacing*{\subsubsection}{0em}{0.75em}{0em}
% ------------------
% Headers/Footers
% ------------------
% \usepackage{fancyhdr}
% \pagestyle{fancy}
% \fancyhf{}
% \fancyhead[L,C,R]{}
% \fancyfoot[L,C]{}
% \fancyfoot[R]{\thepage}
% \renewcommand{\headrulewidth}{1pt}
% \fancypagestyle{plain}{%
% \renewcommand{\headrulewidth}{0pt}%
% \fancyhf{}%
% \fancyfoot[R]{\thepage}%
% }
% \renewcommand\footnoterule{\rule{\linewidth}{0.1pt}\vspace{5pt}}
% ------------------
% Captions
% ------------------
\usepackage[labelfont=bf,labelsep=period]{caption}
\captionsetup[figure]{font=footnotesize,justification=raggedright,singlelinecheck=false,format=hang}
% ---------------------------
% END CUSTOM PREAMBLE STUFF
% ---------------------------
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\linenumbers
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\renewcommand{\section}{\clearpage\oldsection}
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\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{sfg}{h}{lost}}{\newfloat{sfg}{h}{lost}[chapter]}
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\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{stb}{h}{lost}}{\newfloat{stb}{h}{lost}[chapter]}
\floatname{stb}{Supplementary Table}
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\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{seq}{h}{lost}}{\newfloat{seq}{h}{lost}[chapter]}
\floatname{seq}{Supplementary Eq.}
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\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{rfg}{h}{lost}}{\newfloat{rfg}{h}{lost}[chapter]}
\floatname{rfg}{Fig. R}
\newcommand*\quartorfgref[1]{Fig. \hyperref[#1]{R\ref{#1}}}
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\DeclareCaptionLabelFormat{quartorfgreflabelformat}{#1#2}
\captionsetup[rfg]{labelformat=quartorfgreflabelformat}
\newcommand*\listofrfgs{\listof{rfg}{List of Revision Figures}}
\makeatother
\makeatletter
\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{rtb}{h}{lost}}{\newfloat{rtb}{h}{lost}[chapter]}
\floatname{rtb}{Table R}
\newcommand*\quartortbref[1]{Table \hyperref[#1]{R\ref{#1}}}
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\DeclareCaptionLabelFormat{quartortbreflabelformat}{#1#2}
\captionsetup[rtb]{labelformat=quartortbreflabelformat}
\newcommand*\listofrtbs{\listof{rtb}{List of Revision Tables}}
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\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{plain}
\@ifundefined{c@chapter}{\newfloat{req}{h}{lost}}{\newfloat{req}{h}{lost}[chapter]}
\floatname{req}{Eq R}
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\@ifpackageloaded{caption}{}{\usepackage{caption}}
\DeclareCaptionLabelFormat{quartoreqreflabelformat}{#1#2}
\captionsetup[req]{labelformat=quartoreqreflabelformat}
\newcommand*\listofreqs{\listof{req}{List of Revision Equations}}
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\@ifpackageloaded{caption}{}{\usepackage{caption}}
\AtBeginDocument{%
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\@ifpackageloaded{float}{}{\usepackage{float}}
\floatstyle{ruled}
\@ifundefined{c@chapter}{\newfloat{codelisting}{h}{lop}}{\newfloat{codelisting}{h}{lop}[chapter]}
\floatname{codelisting}{Listing}
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\captionsetup{labelsep=colon}
\makeatother
\makeatletter
\makeatother
\makeatletter
\@ifpackageloaded{caption}{}{\usepackage{caption}}
\@ifpackageloaded{subcaption}{}{\usepackage{subcaption}}
\makeatother
\usepackage{bookmark}
\IfFileExists{xurl.sty}{\usepackage{xurl}}{} % add URL line breaks if available
\urlstyle{same}
\hypersetup{
pdftitle={MANUSCRIPT TITLE},
pdfauthor={Xxxxx Yyyy; Ming Su; Min Yang},
pdflang={en},
colorlinks=true,
linkcolor={blue},
filecolor={Maroon},
citecolor={Blue},
urlcolor={blue},
pdfcreator={LaTeX via pandoc}}
\title{MANUSCRIPT TITLE}
\usepackage{etoolbox}
\makeatletter
\providecommand{\subtitle}[1]{% add subtitle to \maketitle
\apptocmd{\@title}{\par {\large\sffamily\bfseries #1 \par}}{}{}
}
\makeatother
\subtitle{Supplementary Information}
\author{\footnotesize Xxxxx Yyyy \and \footnotesize Ming
Su \and \footnotesize Min Yang}
\date{}
\begin{document}
% for some reason this does not work in header
\renewcommand{\abstractname}{Abstract.}
% add the short title to the fancy header
\maketitle
%\noindent \rule{\linewidth}{.5pt}
%\noindent \rule{\linewidth}{.5pt}
\thispagestyle{empty}
Figures and/or tables are provided below as the supplementary evidences
to the main text.
\newpage{}
\clearpage
{
\hypersetup{linkcolor=black}
\setcounter{tocdepth}{3}
\tableofcontents
}
\newpage{}
\begin{sfg}
\centering{
\begin{verbatim}
#> NULL
\end{verbatim}
}
\caption{\label{sfg-demo}Caption of demo figure}
\end{sfg}%
\end{document}

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\babel@toc {english}{}\relax

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@ -10,6 +10,11 @@ contributes:
echo: false
message: false
warning: false
docx:
reference-doc: _extensions/drwater/dwms/inst/MS.docx
html:
toc: true
css: _extensions/drwater/dwms/inst/dwhm.css
pdf:
documentclass: article
toc: false

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../../../../../dwinst/CL.docx

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../../../../../dwinst/MS.docx

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../../../../../dwinst/RN.docx

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../../../../../dwinst/RP.docx

1
dwms/inst Symbolic link
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_extensions/drwater/dwms/inst