\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。） % 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}} \sisetup{detect-weight,detect-mode,detect-family} % 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{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。 \RequirePackage[algoruled,linesnumbered,algochapter]{algorithm2e} \SetAlCapSty{} \newcommand{\foocaption}[1]{ \def\@algocf@pre@plainruled{\hrule height1.5pt depth0pt\kern\interspacetitleruled #1 \kern\interspacealgoruled\hrule height1pt depth0pt\kern\interspacetitleruled} } \def\@algocf@post@ruled{\kern\interspacealgoruled\hrule height1.5pt\relax}% \newcommand{\algoenname}{Algo.} %算法英文标题 \newfloatlist[chapter]{algoen}{aen}{\listalgoenname}{\algoenname} \newfixedcaption{\algoencaption}{algoen} \renewcommand{\thealgoen}{\thechapter-\arabic{algocf}} \renewcommand{\@cftmakeaentitle}{\chapter*{\listalgoenname\@mkboth{\listalgoenname}{\listalgoenname}} } \renewcommand{\algorithmcfname}{算法} \setlength\AlCapSkip{1.2ex} \SetAlgoSkip{1pt} \renewcommand{\algocf@captiontext}[2]{\wuhao#1\algocf@typo~\AlCapFnt{}#2} % text of caption \expandafter\ifx\csname algocf@within\endcsname\relax% if \algocf@within doesn't exist \renewcommand\thealgocf{\@arabic\c@algocf} % and the way it is printed \else% else \renewcommand\thealgocf{\csname the\algocf@within\endcsname-\@arabic\c@algocf} \fi \renewcommand{\algocf@makecaption}[2]{%中英文双标题一定多于一行，因此去掉单行时的判断，并将\parbox中标题设置为居中 \addtolength{\hsize}{\algomargin}% \sbox\@tempboxa{\algocf@captiontext{#1}{#2}}% \hskip .5\algomargin% \parbox[t]{\hsize}{\centering\algocf@captiontext{#1}{#2}}% \addtolength{\hsize}{-\algomargin}% } \newcommand{\AlgoBiCaption}[2]{%直接取出自定义的中英文标题条目加入到真正的\caption 中 \caption[#1]{\protect\setlength{\baselineskip}{1.5em}#1 \protect \\ Algo.\thealgocf~#2} % \algoencaption{#2} \addcontentsline{aen}{algoen}{\protect\numberline{\thealgoen}{#2}} } % 排版源码所使用的环境可以有两种。listings和minted \RequirePackage{listings} \lstset{ % basicstyle=\small\ttfamily, columns=flexible, breaklines=true } % 或者使用minted 包。如果使用该包，需要在编译时加-shell-escape选项，且需要安装 % pygmentatize 工具对代码进行高亮。 % \RequirePackage{minted} % % 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{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} % 此处可以定义一些tikz全局样式 % \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： \newcommand{\theVector}[1]{\bm{#1}} \newcommand{\theMatrix}[1]{\mathbb{#1}} \newcommand{\theSet}[1]{\mathcal{#1}} \newcommand{\theDirected}[1]{{\overrightarrow{#1}}} \newcommand{\theUndirected}[1]{{\overline{#1}}} \newcommand{\theNetwork}[1]{\mathscr{#1}} \newcommand{\theNode}[1]{{\text{#1}}} \newcommand{\theDirectedEdge}[2]{{\overrightarrow{{#1}{#2}}}} \newcommand{\theUndirectedEdge}[2]{{\overline{{#1}{#2}}}} % 如果想要修改论文中所有的表示网络的数学符号的样式，不必在正文中处处修改，只需要 % 在这里修改就可以了。 % 定义命令 \def\cmd#1{\cs{\expandafter\cmd@to@cs\string#1}} \def\cmd@to@cs#1#2{\char\number`#2\relax} \DeclareRobustCommand\cs[1]{\texttt{\char`\\#1}} \endinput