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-rw-r--r--Master/texmf-dist/tex/latex/hithesis/hithesis.cfg10
-rw-r--r--Master/texmf-dist/tex/latex/hithesis/hithesis.cls152
-rw-r--r--Master/texmf-dist/tex/latex/hithesis/hithesis.sty245
3 files changed, 340 insertions, 67 deletions
diff --git a/Master/texmf-dist/tex/latex/hithesis/hithesis.cfg b/Master/texmf-dist/tex/latex/hithesis/hithesis.cfg
index b93cdbd30d1..5b7e59d5d0c 100644
--- a/Master/texmf-dist/tex/latex/hithesis/hithesis.cfg
+++ b/Master/texmf-dist/tex/latex/hithesis/hithesis.cfg
@@ -8,7 +8,7 @@
%%
%% This is a generated file.
%%
-%% Copyright (C) 2017-2018 by Chu Yanshuo <yanshuoc@gmail.com>
+%% Copyright (C) 2017-2019 by Chu Yanshuo <yanshuoc@gmail.com>
%%
%% This file may be distributed and/or modified under the
%% conditions of the LaTeX Project Public License, either version 1.3a
@@ -23,14 +23,14 @@
%% This is the configuration file of the hithesis package with LaTeX2e.
%%
\ProvidesFile{hithesis.cfg}
-[2017/11/5 1.0.9 Harbin Institute of Technology]
+[2018/12/05 2.0.6 Harbin Institute of Technology Thesis Template]
\theorembodyfont{\normalfont}
\theoremheaderfont{\normalfont\heiti}
\theoremsymbol{\ensuremath{\square}}
\newtheorem*{proof}{证明}
\theoremstyle{plain}
\theoremsymbol{}
-\theoremseparator{：}
+\theoremseparator{}
\newtheorem{assumption}{假设}[chapter]
\newtheorem{definition}{定义}[chapter]
\newtheorem{proposition}{命题}[chapter]
@@ -62,7 +62,6 @@
\newcommand{\cabstractcname}{摘\hspace{\ccwd}要}
\newcommand{\cabstractename}{Abstract (In Chinese)}
\newcommand{\eabstractcname}{Abstract}
-\def\hit@doctor@eabstract@ename{ABSTRACT}
\newcommand{\eabstractename}{Abstract (In English)}
\newcommand{\hit@ckeywords@title}{关键词：}
\def\hit@ckeywords@separator{；}
@@ -79,7 +78,7 @@
\or\def\CJK@today{\CJK@todaysmall}
\or\def\CJK@today{\CJK@todaybig}
\fi}
-\cdate{\ifhit@bachelor\CJK@todaysmall\else\CJK@todaybig@short\fi}
+\cdate{\ifhit@bachelor\CJK@todaysmall\else\CJK@todaysmall@short\fi}
\edate{\ifcase \month \or January\or February\or March\or April\or May%
\or June\or July \or August\or September\or October\or November
\or December\fi\unskip,\ \ \the\year}
@@ -186,6 +185,7 @@
{《\hit 研究生学位论文撰写规范》}}
\def\UGR{\href{http://jwc.hit.edu.cn/2566/list.htm}
{《\hit 本科生毕业论文撰写规范》}}
+\def\hit@inline@sep{，}
\endinput
%%
%% End of file `hithesis.cfg'.
diff --git a/Master/texmf-dist/tex/latex/hithesis/hithesis.cls b/Master/texmf-dist/tex/latex/hithesis/hithesis.cls
index f3659498d67..e9dc36c4c86 100644
--- a/Master/texmf-dist/tex/latex/hithesis/hithesis.cls
+++ b/Master/texmf-dist/tex/latex/hithesis/hithesis.cls
@@ -8,7 +8,7 @@
%%
%% This is a generated file.
%%
-%% Copyright (C) 2017-2018 by Chu Yanshuo <yanshuoc@gmail.com>
+%% Copyright (C) 2017-2019 by Chu Yanshuo <yanshuoc@gmail.com>
%%
%% This file may be distributed and/or modified under the
%% conditions of the LaTeX Project Public License, either version 1.3a
@@ -25,7 +25,7 @@
%%
\NeedsTeXFormat{LaTeX2e}[1999/12/01]
\ProvidesClass{hithesis}
-[2017/11/5 1.0.9 Harbin Institute of Technology]
+[2018/12/05 2.0.6 Harbin Institute of Technology Thesis Template]
\RequirePackage{ifthen}
\RequirePackage{kvoptions}
\SetupKeyvalOptions{
@@ -40,6 +40,12 @@
\hit@masterfalse
\hit@doctorfalse
\expandafter\csname hit@#1true\endcsname}
+\newif\ifhit@geometrynewone
+\newif\ifhit@geometrynewtwo
+\define@key{hit}{newgeometry}{%
+ \hit@geometrynewonefalse
+ \hit@geometrynewtwofalse
+ \expandafter\csname hit@geometrynew#1true\endcsname}
\DeclareBoolOption[false]{arialtoc}
\DeclareBoolOption[false]{arialtitle}
\DeclareBoolOption[true]{raggedbottom}
@@ -51,10 +57,15 @@
\DeclareBoolOption[true]{fulltime}
\DeclareBoolOption[false]{subtitle}
\DeclareBoolOption[false]{debug}
-\DeclareBoolOption[false]{newgeometry}
\DeclareBoolOption[false]{openright}
\DeclareBoolOption[false]{capcenterlast}
\DeclareBoolOption[false]{subcapcenterlast}
+\DeclareBoolOption[false]{absupper}
+\DeclareBoolOption[false]{bsmainpagenumberline}
+\DeclareBoolOption[false]{bsfrontpagenumberline}
+\DeclareBoolOption[true]{bsheadrule}
+\DeclareBoolOption[true]{newtxmath}
+\DeclareBoolOption[false]{splitbibitem}
\DeclareStringOption{fontset}
\DeclareDefaultOption{\PassOptionsToClass{\CurrentOption}{ctexbook}}
\ProcessKeyvalOptions*
@@ -103,7 +114,9 @@
\RequirePackage{xparse}
\RequirePackage{amsmath}
\RequirePackage[defaultsups]{newtxtext}
+\ifhit@newtxmath
\RequirePackage{newtxmath}
+\fi
\RequirePackage{courier}
\RequirePackage{graphicx}
\RequirePackage{pdfpages}
@@ -143,7 +156,18 @@
ignoreall,
nomarginpar,
}
-\ifhit@newgeometry%
+\ifhit@geometrynewtwo%
+\geometry{
+ centering,
+ text={150true mm,236true mm},
+ left=30true mm,
+ head=5true mm,
+ headsep=2true mm,
+ footskip=0true mm,
+ foot=5.2true mm
+}
+\else%
+\ifhit@geometrynewone%
\geometry{
centering,
text={150true mm,240true mm},
@@ -155,14 +179,15 @@
}
\else%
\geometry{%根据PlutoThesis 原版定义而来
- text={150true mm,224true mm},
- top=35.5true mm,
- left=30true mm,
- head=5true mm,
- headsep=2.5true mm,
- foot=8.5true mm
+text={150true mm,224true mm},
+top=35.5true mm,
+left=30true mm,
+head=5true mm,
+headsep=2.5true mm,
+foot=8.5true mm
}
-\fi
+\fi%
+\fi%
\ifhit@debug%
\RequirePackage{layout}
\RequirePackage{layouts}
@@ -171,6 +196,7 @@
\RequirePackage{fancyhdr}
\RequirePackage{tabularx}
\RequirePackage{varwidth}
+\RequirePackage{changepage}
\RequirePackage{multicol}
\RequirePackage{amssymb}
\RequirePackage[below]{placeins}%允许上一个section的浮动图形出现在下一个section的开始部分,还提供\FloatBarrier命令,使所有未处理的浮动图形立即被处理
@@ -245,14 +271,6 @@
\renewcommand{\headrulewidth}{0pt}
\renewcommand{\footrulewidth}{0pt}
}
-
-\fancypagestyle{hit@plain}{%
- \fancyhead{}
- \fancyfoot[C]{\xiaowu\thepage}
- \renewcommand{\headrulewidth}{0pt}
- \renewcommand{\footrulewidth}{0pt}
-}
-
\fancypagestyle{hit@headings}{%
\fancyhf{}
\ifhit@doctor
@@ -265,23 +283,32 @@
\fi
\ifhit@bachelor
\fancyhead[C]{\songti\xiaowu[0]\hit@cschoolname\hit@bachelor@cxuewei\hit@bachelor@cthesisname}%
- \fancyfoot[C]{\xiaowu \thepage}
+ \fancyfoot[C]{\xiaowu\if@mainmatter\ifhit@bsmainpagenumberline-~\thepage~-\else\thepage\fi\else\ifhit@bsfrontpagenumberline-~\thepage~-\else\thepage\fi\fi}
+ \ifhit@bsheadrule
+ \renewcommand{\headrule}{
+ \vskip 1.190132pt
+ \hrule\@height2.276208pt\@width\headwidth
+ \vskip 0.75pt
+ \hrule\@height.75pt\@width\headwidth
+ }
\else
- \fancyfoot[C]{\xiaowu -~\thepage~-}
+ \renewcommand{\headrulewidth}{0pt}
+ \fi
+ \else
+ \fancyfoot[C]{\xiaowu-~\thepage~-}
+ \renewcommand{\headrule}{
+ \vskip 1.190132pt
+ \hrule\@height2.276208pt\@width\headwidth
+ \vskip 0.75pt
+ \hrule\@height.75pt\@width\headwidth
+ }
\fi
% 此处可能和word模板不一致
% 页眉中小五汉字，0行距时，占用9bt，页眉高度为14pt, 所以以下数字之和要保持等于14pt-9bt=4.96634pt
% 根据PlutoThesis模板中rule宽度定义为2.25， 0.75， 保持粗线和细线之间的间距为细线宽度。
% 如果页眉是多行的情况，rule向下溢出
- \renewcommand{\headrule}{
- \vskip 1.190132pt
- \hrule\@height2.276208pt\@width\headwidth
- \vskip 0.75pt
- \hrule\@height.75pt\@width\headwidth
- }
\renewcommand{\footrulewidth}{0pt}
}
-
\AtBeginDocument{%此处解决页眉经典bug
\pagestyle{hit@empty}
\renewcommand{\chaptermark}[1]{\@mkboth{\CTEXthechapter\enspace#1}{}}}
@@ -312,6 +339,7 @@
\apptocmd{\@makefntext}{\let\@makefnmark\hit@makefnmark}{}{}
\allowdisplaybreaks[4]
\predisplaypenalty=0 %公式之前可以换页，公式出现在页面顶部
+\postdisplaypenalty=0
\renewcommand\theequation{\ifnum \c@chapter>\z@ \thechapter-\fi\@arabic\c@equation}
\def\make@df@tag{\@ifstar\hit@make@df@tag@@\make@df@tag@@@}
\def\hit@make@df@tag@@#1{\gdef\df@tag{\hit@maketag{#1}\def\@currentlabel{#1}}}
@@ -326,12 +354,9 @@
\def\hit@maketag#1{\maketag@@@{(\ignorespaces #1\unskip\@@italiccorr)}}
\def\tagform@#1{\maketag@@@{(\ignorespaces #1\unskip\@@italiccorr)\equcaption{#1}}}
\renewcommand{\eqref}[1]{\textup{(\ref{#1})}}
-\setlength{\floatsep}{\ifhit@glue 20.50398bp \@plus 2.83465bp \@minus 0bp\else 21bp\fi}
-\setlength{\intextsep}{\ifhit@glue 20.50398bp \@plus 2.83465bp \@minus 0bp\else 21bp\fi}
-\setlength{\textfloatsep}{\ifhit@glue 20.50398bp \@plus 2.83465bp \@minus 0bp\else 21bp\fi}
-\setlength{\@fptop}{0bp}
-\setlength{\@fpsep}{\ifhit@glue 20.50398bp \@plus 2.83465bp \@minus 0bp\else 21bp\fi}
-\setlength{\@fpbot}{0bp}
+\setlength{\intextsep}{\ifhit@glue 8.50398bp \@plus 2.83465bp \@minus 0bp\else 8.50398bp\fi}
+\setlength{\textfloatsep}{\ifhit@glue 8.50398bp \@plus 2.83465bp \@minus 0bp\else 8.50398bp\fi}
+\setlength{\floatsep}{\ifhit@glue 20.50398bp \@plus 2.83465bp \@minus 0bp\else 20.50398bp\fi}
\g@addto@macro\appendix{\renewcommand*{\thefigure}{\thechapter-\arabic{figure}}}
\g@addto@macro\appendix{\renewcommand*{\thetable}{\thechapter-\arabic{table}}}
\g@addto@macro\appendix{\renewcommand*{\theequation}{\thechapter-\arabic{equation}}}
@@ -339,14 +364,6 @@
\renewcommand{\topfraction}{0.85}
\renewcommand{\bottomfraction}{0.65}
\renewcommand{\floatpagefraction}{0.60}
-\let\hit@oldfigure\figure
-\let\hit@oldendfigure\endfigure
-\def\figure{\begingroup\hit@oldfigure}
-\def\endfigure{\vskip-1em\hit@oldendfigure\endgroup}
-\let\hit@oldtable\table
-\let\hit@oldendtable\endtable
-\def\table{\begingroup\hit@oldtable}
-\def\endtable{\vskip-1em\hit@oldendtable\endgroup}
\long\def\@makecaption#1#2{%
\vskip\abovecaptionskip
\wuhao\sbox\@tempboxa{#1\ifhit@bachelor\hskip\ccwd\else\enskip\fi#2}%
@@ -410,7 +427,9 @@
\setlength{\listparindent}{0pt} % 段落缩进量
}}
{\end{list}}
-\theoremstyle{plain}
+\renewtheoremstyle{plain}
+{\item[\hskip\labelsep \theorem@headerfont ##1\ ##2\theorem@separator]}
+{\item[\hskip\labelsep \theorem@headerfont ##1\ ##2\ ##3\theorem@separator]}
\theorembodyfont{\songti\rmfamily}
\theoremheaderfont{\heiti\rmfamily}
\theoremsymbol{$\square$}
@@ -492,15 +511,18 @@
{
\phantomsection
\markboth{#2}{#2}
- \addcontentsline{toc}{chapter}{\ifhit@arialtitle\sffamily\heiti\else\heiti\fi #2}
- \IfValueT{#3}{\addcontentsline{toe}{chapter}{\bfseries #3}}
+ \ifthenelse%
+ {\equal{#2}{\eabstractcname}}%
+ {\addcontentsline{toc}{chapter}{\texorpdfstring{\ifhit@arialtitle\sffamily\heiti\else\heiti\fi \ifhit@absupper\MakeUppercase{#2}\else#2\fi}{#2}}}
+ {\addcontentsline{toc}{chapter}{\texorpdfstring{\ifhit@arialtitle\sffamily\heiti\else\heiti\fi #2}{#2}}}
+ \IfValueT{#3}{\addcontentsline{toe}{chapter}{\texorpdfstring{\bfseries #3}{#3}}}
\hit@chapter*{#2}
}
}
\newcommand{\BiAppChapter}[2] % 该附录命令适用于有章节的完整附录
{\phantomsection
\chapter{#1}
- \addcontentsline{toe}{chapter}{\bfseries \xiaosi Appendix \thechapter~~#2}
+ \addcontentsline{toe}{chapter}{\texorpdfstring{\bfseries \xiaosi Appendix \thechapter~~#2}{Appendix \thechapter~~#2}}
}
\let\hit@chapter\chapter
\RenewDocumentCommand{\chapter}{s o m o}{%
@@ -509,7 +531,7 @@
{% if \chapter*
\hit@chapter*{#3}%
\IfValueT{#4}{%
- \addcontentsline{toe}{chapter}{\bfseries #4}
+ \addcontentsline{toe}{chapter}{\texorpdfstring{\bfseries #4}{#4}}
}
}%
{% if \chapter
@@ -517,7 +539,7 @@
{\hit@chapter{#3}}%
{\hit@chapter[#2]{#3}}%
\IfValueT{#4}{%
- \addcontentsline{toe}{chapter}{\bfseries\relax Chapter \thechapter\hspace{0.5em}\ignorespaces #4}
+ \addcontentsline{toe}{chapter}{\texorpdfstring{\bfseries\relax Chapter \thechapter\hspace{0.5em}\ignorespaces #4}{Chapter \thechapter\hspace{0.5em}\ignorespaces #4}}
}
}
}
@@ -588,6 +610,7 @@
\hit@def@term{natclassifiedindex} %国内图书分类号
\hit@def@term{intclassifiedindex} %国际图书分类号
+\hit@def@term{ctitlecover} %中文标题封面
\hit@def@term{ctitle} %中文标题
\hit@def@term{csubtitle} %中文副标题
\hit@def@term{cxueke} %中文学科
@@ -650,7 +673,7 @@
\vspace*{1.2cm}
\begin{center}
\parbox[t][3.4cm][t]{\textwidth}{
- \begin{center}\erhao[0]\heiti\hit@ctitle\end{center} }
+ \begin{center}\erhao[0]\heiti\hit@ctitlecover\end{center} }
\parbox[t][9cm][t]{\textwidth}{
\begin{center}\xiaoer[0]\songti\textbf{\hit@cauthor}\end{center}
}
@@ -710,15 +733,15 @@
\ifhit@fulltime\vspace{1.4cm}\else%
\begin{center}\xiaoyi[1]\songti\textbf{\hit@cbraceleft\hit@cstudenttype\hit@cbraceright}\end{center}
\fi%
- \parbox[t][2.8cm][t]{\textwidth}{%
- \begin{center}\erhao\heiti\hit@ctitle\end{center}
-\ifhit@subtitle\begin{center}\hspace{-4em}\xiaoer\heiti\pozhehao\hit@csubtitle\end{center}\fi}
- \parbox[t][5.1cm][t]{\textwidth}{%英文标题太长时可以采用\xiaoer
+ \parbox[t][7.8cm][t]{\textwidth}{%
+ \begin{center}\erhao\heiti\hit@ctitlecover\end{center}
+\ifhit@subtitle\begin{center}\hspace{-4em}\xiaoer\heiti\pozhehao\hit@csubtitle\end{center}\fi
\begin{center}%
\settowidth{\hit@etitlelength}{\erhao\hit@etitle\ifhit@subtitle\hit@title@esep\hit@esubtitle\fi}%
\ifdim\hit@etitlelength>450mm\xiaoer\else\erhao\fi%
\textbf{\MakeUppercase{\hit@etitle}%
\ifhit@subtitle\hit@title@esep\MakeUppercase{\hit@esubtitle}\fi}\end{center}}
+
\parbox[t][7.4cm][t]{\textwidth}{
\begin{center}\xiaoer\songti\textbf{\hit@cauthor}\end{center}}
\parbox[t][1.4cm][t]{\textwidth}{
@@ -744,7 +767,7 @@
\begin{center}\songti\bfseries\hit@cdegree\hit@cthesisname\end{center}
\ifhit@fulltime\relax\else\begin{center}\songti\textbf{\hit@cbraceleft\hit@cstudenttype\hit@cbraceright}\end{center}\fi}
\parbox[t][5cm][t]{\textwidth}{\erhao
- \begin{center}\heiti\hit@ctitle\end{center}
+ \begin{center}\heiti\hit@ctitlecover\end{center}
\ifhit@subtitle\begin{center}\hspace{-4em}\xiaoer\heiti\pozhehao\hit@csubtitle\end{center}\fi}
\parbox[t][9.8cm][b]{\textwidth}
{\sihao
@@ -960,10 +983,14 @@
\newenvironment{publication}{%
\ifhit@openright\cleardoublepage\else\clearpage\fi
\hit@appendix@chapter*{\hit@publication@ctitle}[\hit@publication@etitle]}{}
-
\newenvironment{ceindex}{%
\ifhit@openright\cleardoublepage\else\clearpage\fi
- \hit@appendix@chapter*{\indexname}[\hit@index@etitle]\begin{multicols*}{2}}{\end{multicols*}}
+ \hit@appendix@chapter*{\indexname}[\hit@index@etitle]
+ \setlength{\columnsep}{4em}
+ \begin{adjustwidth}{2em}{2em}
+ \begin{multicols*}{2}}{\end{multicols*}
+ \end{adjustwidth}
+ }
\newlist{idxwordlist}{description}{3}
\setlist[idxwordlist, 1]{%
@@ -1013,7 +1040,7 @@
\thispagestyle{hit@empty}%
\phantomsection\addcontentsline{toc}{chapter}{\ifhit@bachelor\hit@declarename@bachelor\else\hit@authorization@ctitle\fi}%
\ifhit@doctor%
-\addcontentsline{toe}{chapter}{\bfseries \hit@authorization@etitle}%
+\addcontentsline{toe}{chapter}{\texorpdfstring{\bfseries \hit@authorization@etitle}{\hit@authorization@etitle}}%
\fi%
}]{#1}%
}%
@@ -1021,10 +1048,10 @@
\newcommand\bibstyle@numerical{\bibpunct{[}{]}{,}{s}{,}{\textsuperscript{,}}}
\newcommand\bibstyle@authoryear{\bibpunct{(}{)}{;}{a}{,}{,}}
-\newcommand\bibstyle@inline{\bibpunct{[}{]}{,}{n}{,}{,}}
+\newcommand\bibstyle@inline{\bibpunct{[}{]}{,}{n}{,}{\hit@inline@sep}}
\citestyle{numerical}
\DeclareRobustCommand\inlinecite{\@inlinecite}
-\def\@inlinecite#1{\begingroup\let\@cite\NAT@citenum\citep{#1}\endgroup}
+\def\@inlinecite#1{\begingroup\citestyle{inline}\let\@cite\NAT@citenum\citep{#1}\endgroup}
\let\onlinecite\inlinecite
\renewenvironment{thebibliography}[1]{%
\ifhit@openright\cleardoublepage\else\clearpage\fi\phantomsection%
@@ -1041,10 +1068,17 @@
\let\p@enumiv\@empty
\renewcommand\theenumiv{\@arabic\c@enumiv}}%
\sloppy\frenchspacing
+ \ifhit@splitbibitem
+ \clubpenalty0
+ \@clubpenalty \clubpenalty
+ \widowpenalty0%
+ \interlinepenalty-50%
+ \else
\clubpenalty4000
\@clubpenalty \clubpenalty
\widowpenalty4000%
\interlinepenalty4000%
+ \fi
\sfcode`\.\@m}
{\def\@noitemerr
{\@latex@warning{Empty `thebibliography' environment}}%
diff --git a/Master/texmf-dist/tex/latex/hithesis/hithesis.sty b/Master/texmf-dist/tex/latex/hithesis/hithesis.sty
index 11c154a8795..b1508de9c77 100644
--- a/Master/texmf-dist/tex/latex/hithesis/hithesis.sty
+++ b/Master/texmf-dist/tex/latex/hithesis/hithesis.sty
@@ -1,17 +1,40 @@
-\ProvidesPackage{hithesis}[2017/08/25 1.0.0 Harbin Institute of Technology
+\ProvidesPackage{hithesis}[2018/02/19 1.0.10 Harbin Institute of Technology
Thesis Template Extension]
% 此文件声明不在规范中要求的格式所使用的宏包。
% （所以，格式基本上是自由发挥的。）
+
+\setCJKfamilyfont{siyuan}[]{SourceHanSerifCN-Regular}
+\newcommand{\highlight}[1]{{\CJKfamily{siyuan}\textbf{#1}}}
+
+
+
+% 根据窝工规范中对数字书写规范的规定（6）：
+% 凡4位或4位以上的数都从个位起每3位数空半个数码(1/4汉字)。
+% 注意此处，除此任何空格都是错误的（包括\:\;\ 等）
+\RequirePackage{siunitx}
+\sisetup{group-minimum-digits=4, group-separator= \hspace{0.25em}}
+
% 处理数学公式中的黑斜体的宏包
\RequirePackage{bm}
% 不同于 \mathcal \mathfrak 之类的英文花体字体
\RequirePackage{mathrsfs}
% 支持彩色
-\RequirePackage{color}
+\RequirePackage{xcolor}
+
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+% set global color theme of thesis %
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+\definecolor{colorzero}{rgb}{0, 0, 0}
+\definecolor{colorone}{rgb}{1, 0, 0}
+\definecolor{colortwo}{rgb}{0, 0, 1}
+\definecolor{colorthree}{rgb}{0, 1, 0}
% 图形和表格的控制旋转
\RequirePackage{rotating}
+
+
% 算法的宏包，注意宏包兼容性，先后顺序为float、hyperref、algorithm(2e)，否则无法
% 生成算法列表。我工算法混乱问题详见hithesis文档。各个实验室设置具体方法详见
% hithesis文档或者示例中给出的地址。
@@ -58,9 +81,19 @@ breaklines=true
% 术语宏包，用来处理首次全写，之后缩写的问题
\RequirePackage{glossaries}
+\setacronymstyle{short-long}
+\renewcommand*{\genacrfullformat}[2]{%
+ \glsentrylong{#1}%
+}
\makeglossaries
% 添加术语举例
-% \newacronym{dual}{DLP}{对偶规划(Dual linear programming, DLP)}
+
+\newacronym{tssbp}{树结构折筷过程}{树结构折筷过程（Tree-structured Stick-breaking process）}
+\def\gtssbp{\gls{tssbp}\sindex[china]{shu!树结构折筷过程}\sindex[english]{Tree-structured Stick-breaking process}}
+
+\newacronym[shortplural=SCNAs,longplural={体细胞拷贝数变异（Somatic copy number alternation，SCNA）}]{scna}{SCNA}{体细胞拷贝数变异（Somatic copy number alternation，SCNA）}
+\def\gscna{\gls{scna}\sindex[china]{ti!体细胞拷贝数变异}\sindex[english]{Somatic copy number alternation}\ignorespaces}
+\def\gscnas{\glspl{scna}\sindex[china]{ti!体细胞拷贝数变异}\sindex[english]{Somatic copy number alternation}\ignorespaces}
% tikz做图宏宏包
\usepackage{tikz}
@@ -68,6 +101,212 @@ breaklines=true
% \tikzstyle{nodestyle}= [circle, fill=gray!60]
% \tikzstyle{edgestyle}= [-latex]
+\tikzstyle{maternal}= [colorone]
+\tikzstyle{paternal}= [colortwo]
+\tikzstyle{variant}= [colorthree!80!colorzero]
+\tikzstyle{reference}= [colorzero]
+
+\tikzstyle{aallele}= [colorzero,rotate=90]
+\tikzstyle{ballele}= [colorthree!80!colorzero,rotate=90]
+
+\tikzstyle{refseg}= [colorzero,draw=colorzero, opacity=0.2]
+\tikzstyle{mseg}= [colorone,draw=colorone, opacity=0.2]
+\tikzstyle{pseg}= [colortwo,draw=colortwo, opacity=0.2]
+\tikzstyle{vseg}= [colorthree!80!colorzero,draw=colorthree!80!colorzero, opacity=0.6]
+
+\tikzstyle{bncell}= [draw=colorzero,opacity=0.2,line width=2pt, rounded corners=1pt]
+\tikzstyle{btcell}= [draw=colorone,opacity=0.6, line width=2pt, rounded corners=1pt]
+
+\tikzstyle{tncell}= [colorzero,opacity=0.9]
+\tikzstyle{ttcell}= [colorone,opacity=0.6]
+\tikzstyle{tscell}= [colorzero]
+\tikzstyle{refcell}= [colorzero]
+
+\tikzstyle{evolve}= [->,draw=colortwo,opacity=0.3,line width=1.5pt]
+\tikzstyle{fakeevolve}= [->,draw=colorzero,opacity=0.3,line width=1.5pt]
+
+\tikzstyle{refline}= [dashed,draw=colorzero,line width=1pt]
+\tikzstyle{tnline}= [dashed,draw=colorzero,opacity=0.3,line width=1pt]
+
+\newcommand{\gseg}[9]{%
+ \pgfmathsetmacro{\sstartx}{#1}
+ \pgfmathsetmacro{\slengx}{#2}
+ \pgfmathsetmacro{\sy}{#3}
+ \pgfmathsetmacro{\sdy}{#4}
+ \pgfmathsetmacro{\sdx}{#5}
+ \pgfmathsetmacro{\sdxh}{#7}
+ \pgfmathsetmacro{\sdxt}{#8}
+ \fill[#6](\sstartx,\sy)--(\sstartx-\sdx,\sy+\sdy)--
+ (\slengx+\sstartx+1.5-\sdx,\sy+\sdy)--(\slengx+\sstartx+1.5,\sy)--
+ (\slengx+\sstartx+1.5-\sdx,\sy-\sdy)--(\sstartx-\sdx,\sy-\sdy)--cycle;
+ \draw[#9] (\sstartx-\sdxh,\sy) -- (\sstartx, \sy);
+ \draw[#9] (\slengx+\sstartx+1.5, \sy) -- (\slengx+\sstartx+1.5+\sdxt,\sy);
+}
+\newcommand{\gsegr}[9]{%
+ \pgfmathsetmacro{\sstartx}{#1}
+ \pgfmathsetmacro{\slengx}{#2}
+ \pgfmathsetmacro{\sy}{#3}
+ \pgfmathsetmacro{\sdy}{#4}
+ \pgfmathsetmacro{\sdx}{#5}
+ \pgfmathsetmacro{\sdxh}{#7}
+ \pgfmathsetmacro{\sdxt}{#8}
+ \fill[#6](\sstartx-0.5,\sy)--(\sstartx+\sdx-0.5,\sy+\sdy)--
+ (\slengx+\sstartx+1.5+\sdx-0.5,\sy+\sdy)--(\slengx+\sstartx+1.5-0.5,\sy)--
+ (\slengx+\sstartx+1.5+\sdx-0.5,\sy-\sdy)--(\sstartx+\sdx-0.5,\sy-\sdy)--cycle;
+ \draw[#9] (\sstartx-\sdxh-0.5,\sy) -- (\sstartx-0.5, \sy);
+ \draw[#9] (\slengx+\sstartx+1.5-0.5, \sy) -- (\slengx+\sstartx+1.5+\sdxt-0.5,\sy);
+}
+
+\newcommand{\rcell}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node at (\x+10, \y) {Reference};
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[aallele]{C};
+ \draw (\x+3,\y) node[aallele]{T};
+ \draw (\x+4,\y) node[aallele]{C};
+ \gseg{\x}{4}{\y}{0.2}{0.5}{refseg}{1.5}{1}{reference};
+}
+
+\newcommand{\ncell}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+8, \y) {M};
+ %\node [paternal] at (\x+8, \y-0.5) {P};
+ \draw[bncell](\x-2,\y+0.5)--(\x+7,\y+0.5)--
+ (\x+7,\y-1)--(\x-2,\y-1)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \draw (\x+3,\y) node[aallele]{T};
+ \draw (\x+4,\y) node[aallele]{C};
+ \gseg{\x}{4}{\y}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[ballele]{T};
+ \draw (\x+2,\y-0.5) node[aallele]{C};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[ballele]{A};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{pseg}{1.5}{1}{paternal};
+}
+
+\newcommand{\tcellone}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+8, \y) {M};
+ %\node [maternal] at (\x+8, \y-0.5) {M};
+ %\node [paternal] at (\x+8, \y-1) {P};
+ \draw[btcell](\x-2,\y+0.5)--(\x+7,\y+0.5)--
+ (\x+7,\y-1.5)--(\x-2,\y-1.5)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \draw (\x+3,\y) node[aallele]{T};
+ \draw (\x+4,\y) node[aallele]{C};
+ \gseg{\x}{4}{\y}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[aallele]{A};
+ \draw (\x+2,\y-0.5) node[ballele]{G};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[aallele]{C};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-1) node[ballele]{T};
+ \draw (\x+2,\y-1) node[aallele]{C};
+ \draw (\x+3,\y-1) node[aallele]{T};
+ \draw (\x+4,\y-1) node[ballele]{A};
+ \gseg{\x}{4}{\y-1}{0.2}{0.5}{pseg}{1.5}{1}{paternal};
+}
+
+\newcommand{\tcellthree}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+12, \y) {M};
+ %\node [paternal] at (\x+12, \y-0.5) {P};
+ \draw[btcell](\x-2,\y+0.5)--(\x+11,\y+0.5)--
+ (\x+11,\y-1)--(\x-2,\y-1)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \gseg{\x}{2}{\y}{0.2}{0.5}{mseg}{1.5}{0}{maternal};
+ \gseg{\x+4}{0}{\y}{0.2}{0.5}{vseg}{0.5}{0.5}{variant};
+ \draw (\x+7,\y) node[aallele]{T};
+ \draw (\x+8,\y) node[aallele]{C};
+ \gseg{\x+6}{2}{\y}{0.2}{0.5}{mseg}{0}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[ballele]{T};
+ \draw (\x+2,\y-0.5) node[aallele]{C};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[ballele]{A};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{pseg}{1.5}{1}{paternal};
+}
+
+\newcommand{\tcellfour}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+18, \y) {M};
+ %\node [paternal] at (\x+18, \y-0.5) {P};
+ \draw[btcell](\x-2,\y+0.5)--(\x+15,\y+0.5)--
+ (\x+15,\y-1)--(\x-2,\y-1)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \gseg{\x}{2}{\y}{0.2}{0.5}{mseg}{1.5}{0}{maternal};
+ \gseg{\x+4}{0}{\y}{0.2}{0.5}{vseg}{0.5}{0.5}{variant};
+ \draw (\x+7,\y) node[aallele]{T};
+ \gseg{\x+6}{1}{\y}{0.2}{0.5}{mseg}{0}{0}{maternal};
+ \gseg{\x+9}{0}{\y}{0.2}{0.5}{vseg}{0.5}{0.5}{variant};
+ \draw (\x+12,\y) node[aallele]{C};
+ \gseg{\x+11}{1}{\y}{0.2}{0.5}{mseg}{0}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[ballele]{T};
+ \draw (\x+2,\y-0.5) node[aallele]{C};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[ballele]{A};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{pseg}{1.5}{1}{paternal};
+}
+
+\newcommand{\tcelltwo}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+8, \y) {M};
+ %\node [maternal] at (\x+8, \y-0.5) {M};
+ %\node [paternal] at (\x+8, \y-1) {P};
+ \draw[btcell](\x-2,\y+0.5)--(\x+7,\y+0.5)--
+ (\x+7,\y-1.5)--(\x-2,\y-1.5)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \draw (\x+3,\y) node[aallele]{T};
+ \draw (\x+4,\y) node[aallele]{C};
+ \gseg{\x}{4}{\y}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[aallele]{A};
+ \draw (\x+2,\y-0.5) node[ballele]{G};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[ballele]{G};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-1) node[ballele]{T};
+ \draw (\x+2,\y-1) node[aallele]{C};
+ \draw (\x+3,\y-1) node[aallele]{T};
+ \draw (\x+4,\y-1) node[ballele]{A};
+ \gseg{\x}{4}{\y-1}{0.2}{0.5}{pseg}{1.5}{1}{paternal};
+}
+
+
+\newcommand{\tcellfive}[2]{%
+ \pgfmathsetmacro{\x}{#1}
+ \pgfmathsetmacro{\y}{#2}
+ %\node [maternal] at (\x+8, \y) {M};
+ %\node [maternal] at (\x+8, \y-0.5) {M};
+ %\node [paternal] at (\x+8, \y-1) {P};
+ \draw[btcell](\x-2,\y+0.5)--(\x+9.5,\y+0.5)--
+ (\x+9.5,\y-1.5)--(\x-2,\y-1.5)--cycle;
+ \draw (\x+1,\y) node[aallele]{A};
+ \draw (\x+2,\y) node[ballele]{G};
+ \draw (\x+3,\y) node[aallele]{T};
+ \draw (\x+4,\y) node[aallele]{C};
+ \gseg{\x}{4}{\y}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-0.5) node[aallele]{A};
+ \draw (\x+2,\y-0.5) node[ballele]{G};
+ \draw (\x+3,\y-0.5) node[aallele]{T};
+ \draw (\x+4,\y-0.5) node[aallele]{C};
+ \gseg{\x}{4}{\y-0.5}{0.2}{0.5}{mseg}{1.5}{1}{maternal};
+ \draw (\x+1,\y-1) node[ballele]{T};
+ \gseg{\x}{1}{\y-1}{0.2}{0.5}{pseg}{1.5}{0}{paternal};
+ \draw (\x+4.5,\y-1) node[ballele]{A};
+ \draw (\x+5.5,\y-1) node[aallele]{T};
+ \draw (\x+6.5,\y-1) node[aallele]{C};
+ \gsegr{\x+3.5}{3}{\y-1}{0.2}{0.5}{pseg}{0.5}{1.5}{paternal};
+}
% 最后定义一些常见的数学公式样式。格式和内容分离，是LaTeX的巨大优势
% 例如如下定义：
generated by cgit v1.2.3 (git 2.39.1) at 2024-11-03 17:55:27 +0000