% hypothesis_generation.sty
% Professional Scientific Hypothesis Generation Report Style
% Provides modern, color-coded styling for hypothesis generation documents

\NeedsTeXFormat{LaTeX2e}
\ProvidesPackage{hypothesis_generation}[2025/11/17 Hypothesis Generation Report Style]

% Required packages
\RequirePackage[margin=1in, top=1.2in, bottom=1.2in]{geometry}
\RequirePackage{graphicx}
\RequirePackage{xcolor}
\RequirePackage[most]{tcolorbox}
\RequirePackage{tikz}
\RequirePackage{fontspec}
\RequirePackage{fancyhdr}
\RequirePackage{titlesec}
\RequirePackage{enumitem}
\RequirePackage{booktabs}
\RequirePackage{longtable}
\RequirePackage{array}
\RequirePackage{colortbl}
\RequirePackage{hyperref}
\RequirePackage{natbib}

% Color scheme - Distinct colors for each hypothesis plus utility colors
\definecolor{hypothesis1}{RGB}{0, 102, 153}      % Deep Blue
\definecolor{hypothesis2}{RGB}{0, 128, 96}       % Forest Green
\definecolor{hypothesis3}{RGB}{102, 51, 153}     % Royal Purple
\definecolor{hypothesis4}{RGB}{0, 128, 128}      % Teal
\definecolor{hypothesis5}{RGB}{204, 85, 0}       % Burnt Orange
\definecolor{predictioncolor}{RGB}{255, 191, 0}  % Amber
\definecolor{evidencecolor}{RGB}{102, 178, 204}  % Light Blue
\definecolor{comparisoncolor}{RGB}{108, 117, 125} % Steel Gray
\definecolor{limitationcolor}{RGB}{220, 53, 69}  % Coral Red
\definecolor{darkgray}{RGB}{64, 64, 64}          % Dark gray for text
\definecolor{lightgray}{RGB}{245, 245, 245}      % Light background

% Fonts (if using XeLaTeX/LuaLaTeX)
% Comment these out if fonts are not available
% \setmainfont{Lato}
% \setsansfont{Roboto}

% Hyperlink setup
\hypersetup{
    colorlinks=true,
    linkcolor=hypothesis1,
    citecolor=hypothesis1,
    urlcolor=evidencecolor,
    pdfborder={0 0 0}
}

% Header and footer styling
\setlength{\headheight}{22pt}
\pagestyle{fancy}
\fancyhf{}
\fancyhead[L]{\color{hypothesis1}\sffamily\small\textbf{Hypothesis Generation Report}}
\fancyhead[R]{\color{darkgray}\sffamily\small\thepage}
\fancyfoot[C]{\color{darkgray}\small Generated: \today}
\renewcommand{\headrulewidth}{2pt}
\renewcommand{\headrule}{\hbox to\headwidth{\color{hypothesis1}\leaders\hrule height \headrulewidth\hfill}}
\renewcommand{\footrulewidth}{0.5pt}
\renewcommand{\footrule}{\hbox to\headwidth{\color{lightgray}\leaders\hrule height \footrulewidth\hfill}}

% Section styling
\titleformat{\section}
  {\color{hypothesis1}\Large\sffamily\bfseries}
  {\thesection}{1em}{}
  [\color{hypothesis1}\titlerule]

\titleformat{\subsection}
  {\color{evidencecolor}\large\sffamily\bfseries}
  {\thesubsection}{1em}{}

\titleformat{\subsubsection}
  {\color{darkgray}\normalsize\sffamily\bfseries}
  {\thesubsubsection}{1em}{}

% Title page styling
\renewcommand{\maketitle}{
  \begin{tcolorbox}[
    enhanced,
    colback=hypothesis1,
    colframe=hypothesis1,
    arc=0mm,
    boxrule=0pt,
    left=20pt,
    right=20pt,
    top=30pt,
    bottom=30pt,
    width=\textwidth
  ]
    \color{white}
    \begin{center}
      {\Huge\sffamily\bfseries Scientific Hypothesis\\Generation Report}\\[10pt]
      {\Large\sffamily\@title}\\[15pt]
      {\large\sffamily Evidence-Based Competing Hypotheses}\\[8pt]
      {\normalsize\sffamily\color{evidencecolor}\today}
    \end{center}
  \end{tcolorbox}
  \vspace{1cm}
}

% Custom boxes for hypotheses (5 different colors)
\newtcolorbox{hypothesisbox1}[1][Hypothesis 1]{
  enhanced,
  colback=hypothesis1!5,
  colframe=hypothesis1,
  arc=3mm,
  boxrule=2pt,
  left=12pt,
  right=12pt,
  top=12pt,
  bottom=12pt,
  title=#1,
  fonttitle=\sffamily\bfseries\large,
  coltitle=white,
  colbacktitle=hypothesis1,
  attach boxed title to top left={yshift=-3mm, xshift=5mm},
  boxed title style={arc=2mm}
}

\newtcolorbox{hypothesisbox2}[1][Hypothesis 2]{
  enhanced,
  colback=hypothesis2!5,
  colframe=hypothesis2,
  arc=3mm,
  boxrule=2pt,
  left=12pt,
  right=12pt,
  top=12pt,
  bottom=12pt,
  title=#1,
  fonttitle=\sffamily\bfseries\large,
  coltitle=white,
  colbacktitle=hypothesis2,
  attach boxed title to top left={yshift=-3mm, xshift=5mm},
  boxed title style={arc=2mm}
}

\newtcolorbox{hypothesisbox3}[1][Hypothesis 3]{
  enhanced,
  colback=hypothesis3!5,
  colframe=hypothesis3,
  arc=3mm,
  boxrule=2pt,
  left=12pt,
  right=12pt,
  top=12pt,
  bottom=12pt,
  title=#1,
  fonttitle=\sffamily\bfseries\large,
  coltitle=white,
  colbacktitle=hypothesis3,
  attach boxed title to top left={yshift=-3mm, xshift=5mm},
  boxed title style={arc=2mm}
}

\newtcolorbox{hypothesisbox4}[1][Hypothesis 4]{
  enhanced,
  colback=hypothesis4!5,
  colframe=hypothesis4,
  arc=3mm,
  boxrule=2pt,
  left=12pt,
  right=12pt,
  top=12pt,
  bottom=12pt,
  title=#1,
  fonttitle=\sffamily\bfseries\large,
  coltitle=white,
  colbacktitle=hypothesis4,
  attach boxed title to top left={yshift=-3mm, xshift=5mm},
  boxed title style={arc=2mm}
}

\newtcolorbox{hypothesisbox5}[1][Hypothesis 5]{
  enhanced,
  colback=hypothesis5!5,
  colframe=hypothesis5,
  arc=3mm,
  boxrule=2pt,
  left=12pt,
  right=12pt,
  top=12pt,
  bottom=12pt,
  title=#1,
  fonttitle=\sffamily\bfseries\large,
  coltitle=white,
  colbacktitle=hypothesis5,
  attach boxed title to top left={yshift=-3mm, xshift=5mm},
  boxed title style={arc=2mm}
}

% Prediction box (amber)
\newtcolorbox{predictionbox}[1][Testable Predictions]{
  enhanced,
  colback=predictioncolor!10,
  colframe=predictioncolor!80!black,
  arc=3mm,
  boxrule=1.5pt,
  left=10pt,
  right=10pt,
  top=10pt,
  bottom=10pt,
  title=#1,
  fonttitle=\sffamily\bfseries,
  coltitle=black,
  colbacktitle=predictioncolor
}

% Evidence/Support box (light blue)
\newtcolorbox{evidencebox}[1][Supporting Evidence]{
  enhanced,
  colback=evidencecolor!8,
  colframe=evidencecolor,
  arc=3mm,
  boxrule=1.5pt,
  left=10pt,
  right=10pt,
  top=10pt,
  bottom=10pt,
  title=#1,
  fonttitle=\sffamily\bfseries,
  coltitle=white,
  colbacktitle=evidencecolor
}

% Comparison box (steel gray)
\newtcolorbox{comparisonbox}[1][Critical Comparison]{
  enhanced,
  colback=comparisoncolor!8,
  colframe=comparisoncolor,
  arc=3mm,
  boxrule=1.5pt,
  left=10pt,
  right=10pt,
  top=10pt,
  bottom=10pt,
  title=#1,
  fonttitle=\sffamily\bfseries,
  coltitle=white,
  colbacktitle=comparisoncolor
}

% Limitation box (coral red)
\newtcolorbox{limitationbox}[1][Limitations \& Challenges]{
  enhanced,
  colback=limitationcolor!8,
  colframe=limitationcolor,
  arc=3mm,
  boxrule=1.5pt,
  left=10pt,
  right=10pt,
  top=10pt,
  bottom=10pt,
  title=#1,
  fonttitle=\sffamily\bfseries,
  coltitle=white,
  colbacktitle=limitationcolor
}

% Executive summary box (using evidence color for consistency)
\newtcolorbox{summarybox}[1][Executive Summary]{
  enhanced,
  colback=evidencecolor!15,
  colframe=hypothesis1,
  arc=3mm,
  boxrule=2pt,
  left=15pt,
  right=15pt,
  top=15pt,
  bottom=15pt,
  title=#1,
  fonttitle=\sffamily\bfseries\Large,
  coltitle=white,
  colbacktitle=hypothesis1
}

% Table styling
\newcommand{\tableheadercolor}{\rowcolor{hypothesis1}}
\newcommand{\tablerowcolor}{\rowcolor{lightgray}}

% Custom table environment
\newenvironment{hypotable}[1]{
  \begin{table}[h]
  \centering
  \small\sffamily
  \renewcommand{\arraystretch}{1.3}
}{
  \end{table}
}

% Custom list styling
\setlist[itemize,1]{label=\textcolor{hypothesis1}{\textbullet}, leftmargin=*, itemsep=3pt}
\setlist[enumerate,1]{label=\textcolor{hypothesis1}{\arabic*.}, leftmargin=*, itemsep=3pt}

% Appendix styling
\newcommand{\appendixsection}[1]{
  \section*{#1}
  \addcontentsline{toc}{section}{#1}
}

% Citation styling helper
\newcommand{\citehighlight}[1]{\textcolor{evidencecolor}{\citep{#1}}}

\endinput