% scientific_report.sty - Professional Scientific Report Styling
% For use with XeLaTeX or LuaLaTeX
% Designed for research reports, technical reports, white papers, and similar documents
% NOT for journal manuscripts (use venue-templates for those)

\ProvidesPackage{scientific_report}[2024/01/01 Scientific Report Style]

% ============================================================================
% REQUIRED PACKAGES
% ============================================================================

% Page layout and geometry
\RequirePackage[margin=1in, headheight=14pt]{geometry}
\RequirePackage{setspace}

% Typography - Helvetica font family
\RequirePackage[utf8]{inputenc}
\RequirePackage[T1]{fontenc}
\RequirePackage{helvet}
\renewcommand{\familydefault}{\sfdefault}

% Colors and graphics
\RequirePackage{xcolor}
\RequirePackage{graphicx}
\RequirePackage{tikz}

% Tables
\RequirePackage{longtable}
\RequirePackage{booktabs}
\RequirePackage{multirow}
\RequirePackage{array}
\RequirePackage{colortbl}
\RequirePackage{tabularx}

% Lists and formatting
\RequirePackage{enumitem}
\RequirePackage{parskip}

% Boxes and callouts
\RequirePackage[most]{tcolorbox}

% Headers and footers
\RequirePackage{fancyhdr}
\RequirePackage{titlesec}

% Hyperlinks and references
\RequirePackage{hyperref}
\RequirePackage[numbers,sort&compress]{natbib}

% Math and scientific notation
\RequirePackage{amsmath}
\RequirePackage{amssymb}
\RequirePackage{siunitx}

% Captions
\RequirePackage{caption}
\RequirePackage{subcaption}

% ============================================================================
% COLOR DEFINITIONS - PROFESSIONAL SCIENTIFIC PALETTE
% ============================================================================

% Primary colors (professional blue palette)
\definecolor{primaryblue}{RGB}{0, 51, 102}        % Deep navy blue - headers, titles
\definecolor{secondaryblue}{RGB}{74, 144, 226}    % Medium blue - subsections
\definecolor{lightblue}{RGB}{220, 235, 252}       % Light blue for backgrounds
\definecolor{accentblue}{RGB}{0, 120, 215}        % Bright accent blue

% Scientific accent colors
\definecolor{sciencegreen}{RGB}{0, 168, 150}      % Teal green - positive findings
\definecolor{lightgreen}{RGB}{220, 245, 240}      % Light green background
\definecolor{darkgreen}{RGB}{0, 128, 96}          % Dark green for emphasis

% Warning and caution colors
\definecolor{cautionorange}{RGB}{255, 140, 66}    % Orange for warnings/limitations
\definecolor{lightorange}{RGB}{255, 243, 224}     % Light orange background
\definecolor{criticalred}{RGB}{198, 40, 40}       % Red for critical items
\definecolor{lightred}{RGB}{255, 235, 238}        % Light red background

% Recommendation and action colors
\definecolor{recommendpurple}{RGB}{103, 58, 183}  % Purple for recommendations
\definecolor{lightpurple}{RGB}{237, 231, 246}     % Light purple background

% Neutral colors
\definecolor{darkgray}{RGB}{66, 66, 66}           % Dark gray for body text
\definecolor{mediumgray}{RGB}{117, 117, 117}      % Medium gray for secondary text
\definecolor{lightgray}{RGB}{245, 245, 245}       % Light gray backgrounds
\definecolor{tablealt}{RGB}{248, 250, 252}        % Alternating table row color
\definecolor{tableborder}{RGB}{200, 200, 200}     % Table border color

% ============================================================================
% HYPERLINK CONFIGURATION
% ============================================================================

\hypersetup{
    colorlinks=true,
    linkcolor=primaryblue,
    filecolor=primaryblue,
    urlcolor=accentblue,
    citecolor=secondaryblue,
    pdftitle={Scientific Report},
    pdfauthor={},
    pdfsubject={Scientific Research},
}

% ============================================================================
% CHAPTER AND SECTION FORMATTING
% ============================================================================

% Chapter formatting - large number with colored title
\titleformat{\chapter}[display]
{\normalfont\huge\bfseries\color{primaryblue}}
{\chaptertitlename\ \thechapter}{20pt}{\Huge}
\titlespacing*{\chapter}{0pt}{-20pt}{40pt}

% Section formatting
\titleformat{\section}
{\normalfont\Large\bfseries\color{primaryblue}}
{\thesection}{1em}{}
\titlespacing*{\section}{0pt}{3.5ex plus 1ex minus .2ex}{2.3ex plus .2ex}

% Subsection formatting
\titleformat{\subsection}
{\normalfont\large\bfseries\color{secondaryblue}}
{\thesubsection}{1em}{}

% Subsubsection formatting
\titleformat{\subsubsection}
{\normalfont\normalsize\bfseries\color{darkgray}}
{\thesubsubsection}{1em}{}

% Paragraph formatting
\titleformat{\paragraph}[runin]
{\normalfont\normalsize\bfseries\color{darkgray}}
{\theparagraph}{1em}{}

% ============================================================================
% HEADER AND FOOTER CONFIGURATION
% ============================================================================

\pagestyle{fancy}
\fancyhf{}
\fancyhead[L]{\small\textit{\leftmark}}
\fancyhead[R]{\small\textit{Scientific Report}}
\fancyfoot[C]{\thepage}
\renewcommand{\headrulewidth}{0.4pt}
\renewcommand{\footrulewidth}{0.4pt}
\renewcommand{\headrule}{\hbox to\headwidth{\color{primaryblue}\leaders\hrule height \headrulewidth\hfill}}
\renewcommand{\footrule}{\hbox to\headwidth{\color{lightgray}\leaders\hrule height \footrulewidth\hfill}}

% Plain page style for chapter pages
\fancypagestyle{plain}{
    \fancyhf{}
    \fancyfoot[C]{\thepage}
    \renewcommand{\headrulewidth}{0pt}
    \renewcommand{\footrulewidth}{0.4pt}
}

% ============================================================================
% BOX ENVIRONMENTS - SCIENTIFIC CONTENT ORGANIZATION
% ============================================================================

% Key Findings Box (Blue) - For major findings and discoveries
\newtcolorbox{keyfindings}[1][Key Findings]{
    colback=lightblue,
    colframe=primaryblue,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=primaryblue,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Methodology Box (Green) - For methods and procedures
\newtcolorbox{methodology}[1][Methodology]{
    colback=lightgreen,
    colframe=sciencegreen,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=sciencegreen,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Results Box (Blue-Green) - For highlighting key results
\newtcolorbox{resultsbox}[1][Results Highlight]{
    colback=lightblue!50!lightgreen!50,
    colframe=darkgreen,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=darkgreen,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Recommendations Box (Purple) - For recommendations and implications
\newtcolorbox{recommendations}[1][Recommendations]{
    colback=lightpurple,
    colframe=recommendpurple,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=recommendpurple,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Warning/Limitations Box (Orange) - For limitations, cautions, caveats
\newtcolorbox{limitations}[1][Limitations]{
    colback=lightorange,
    colframe=cautionorange,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=cautionorange,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Critical Notice Box (Red) - For critical warnings or important notices
\newtcolorbox{criticalnotice}[1][Critical Notice]{
    colback=lightred,
    colframe=criticalred,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=criticalred,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Definition Box (Gray) - For definitions, notes, supplementary info
\newtcolorbox{definition}[1][Definition]{
    colback=lightgray,
    colframe=mediumgray,
    fonttitle=\bfseries\color{darkgray},
    title=#1,
    coltitle=darkgray,
    colbacktitle=lightgray,
    boxrule=0.5pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% Executive Summary Box (Special styling with shadow)
\newtcolorbox{executivesummary}[1][Executive Summary]{
    enhanced,
    colback=white,
    colframe=primaryblue,
    fonttitle=\Large\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=primaryblue,
    boxrule=2pt,
    arc=5pt,
    left=15pt,
    right=15pt,
    top=12pt,
    bottom=12pt,
    before skip=15pt,
    after skip=15pt,
    shadow={2mm}{-2mm}{0mm}{black!20},
}

% Hypothesis Box (Light blue with border) - For stating hypotheses
\newtcolorbox{hypothesis}[1][Hypothesis]{
    enhanced,
    colback=lightblue!50,
    colframe=accentblue,
    fonttitle=\bfseries\color{white},
    title=#1,
    coltitle=white,
    colbacktitle=accentblue,
    boxrule=1pt,
    arc=3pt,
    left=10pt,
    right=10pt,
    top=8pt,
    bottom=8pt,
    before skip=12pt,
    after skip=12pt,
}

% ============================================================================
% PULL QUOTE ENVIRONMENT
% ============================================================================

\newtcolorbox{pullquote}{
    enhanced,
    colback=lightgray,
    colframe=lightgray,
    boxrule=0pt,
    borderline west={4pt}{0pt}{primaryblue},
    arc=0pt,
    left=15pt,
    right=15pt,
    top=10pt,
    bottom=10pt,
    before skip=15pt,
    after skip=15pt,
    fontupper=\large\itshape\color{darkgray},
}

% ============================================================================
% STATISTIC HIGHLIGHT BOX
% ============================================================================

\newcommand{\statbox}[2]{%
    \begin{tcolorbox}[
        colback=primaryblue,
        colframe=primaryblue,
        coltext=white,
        arc=5pt,
        boxrule=0pt,
        width=0.3\textwidth,
        halign=center,
        valign=center,
        before skip=10pt,
        after skip=10pt,
    ]
    {\Huge\bfseries #1}\\[5pt]
    {\small #2}
    \end{tcolorbox}
}

% ============================================================================
% TABLE STYLING
% ============================================================================

% Alternating row colors command
\newcommand{\tablerowcolor}{\rowcolor{tablealt}}

% Table header styling
\newcommand{\tableheader}[1]{\textbf{\color{white}#1}}
\newcommand{\tableheaderrow}{\rowcolor{primaryblue}}

% Professional table environment
\newenvironment{sciencetable}[2][htbp]{%
    \begin{table}[#1]
    \centering
    \caption{#2}
    \small
}{%
    \end{table}
}

% ============================================================================
% FIGURE STYLING
% ============================================================================

% Caption formatting
\captionsetup{
    font=small,
    labelfont={bf,color=primaryblue},
    textfont={color=darkgray},
    justification=centering,
    margin=20pt,
}

% Figure with source attribution
\newcommand{\figuresource}[1]{%
    \par\vspace{-8pt}
    {\small\textit{Source: #1}}
}

% Figure note
\newcommand{\figurenote}[1]{%
    \par\vspace{-8pt}
    {\small\textit{Note: #1}}
}

% ============================================================================
% LIST STYLING
% ============================================================================

% Bullet list styling with blue bullets
\setlist[itemize]{
    leftmargin=*,
    label=\textcolor{primaryblue}{\textbullet},
    topsep=5pt,
    itemsep=3pt,
}

% Numbered list styling with blue numbers
\setlist[enumerate]{
    leftmargin=*,
    label=\textcolor{primaryblue}{\arabic*.},
    topsep=5pt,
    itemsep=3pt,
}

% ============================================================================
% SCIENTIFIC NOTATION COMMANDS
% ============================================================================

% Highlight important text
\newcommand{\highlight}[1]{\textbf{\textcolor{primaryblue}{#1}}}

% P-value formatting (with significance indicators)
\newcommand{\pvalue}[1]{%
    \textit{p}~=~#1%
}

% Significant p-value (bold)
\newcommand{\psig}[1]{%
    \textbf{\textit{p}~=~#1}%
}

% Confidence interval
\newcommand{\CI}[2]{%
    95\% CI [#1, #2]%
}

% Effect size formatting
\newcommand{\effectsize}[2]{%
    #1~=~#2%
}

% Sample size
\newcommand{\samplesize}[1]{%
    \textit{n}~=~#1%
}

% Mean with SD
\newcommand{\meansd}[2]{%
    #1~$\pm$~#2%
}

% Significance indicators
\newcommand{\sigone}{\textsuperscript{*}}          % p < 0.05
\newcommand{\sigtwo}{\textsuperscript{**}}         % p < 0.01
\newcommand{\sigthree}{\textsuperscript{***}}      % p < 0.001
\newcommand{\signs}{\textsuperscript{ns}}          % not significant

% Significance legend (for table footnotes)
\newcommand{\siglegend}{%
    \textsuperscript{*}\textit{p}~<~0.05; 
    \textsuperscript{**}\textit{p}~<~0.01; 
    \textsuperscript{***}\textit{p}~<~0.001; 
    \textsuperscript{ns}not significant%
}

% ============================================================================
% STATUS INDICATORS
% ============================================================================

% Trend indicators
\newcommand{\trendup}{\textcolor{darkgreen}{$\blacktriangle$}}
\newcommand{\trenddown}{\textcolor{criticalred}{$\blacktriangledown$}}
\newcommand{\trendflat}{\textcolor{mediumgray}{$\rightarrow$}}

% Quality/Rating indicators
\newcommand{\qualityhigh}{\textbf{\textcolor{darkgreen}{HIGH}}}
\newcommand{\qualitymedium}{\textbf{\textcolor{cautionorange}{MEDIUM}}}
\newcommand{\qualitylow}{\textbf{\textcolor{criticalred}{LOW}}}

% Evidence strength
\newcommand{\evidencestrong}{\textbf{\textcolor{darkgreen}{Strong}}}
\newcommand{\evidencemoderate}{\textbf{\textcolor{cautionorange}{Moderate}}}
\newcommand{\evidenceweak}{\textbf{\textcolor{criticalred}{Weak}}}

% ============================================================================
% TITLE PAGE COMMAND
% ============================================================================

\newcommand{\makereporttitle}[5]{%
    % #1 = Report Title
    % #2 = Subtitle
    % #3 = Author(s)
    % #4 = Institution/Organization
    % #5 = Date
    \begin{titlepage}
    \centering
    \vspace*{2cm}
    
    {\Huge\bfseries\color{primaryblue} #1\\[0.5cm]}
    {\LARGE #2\\[2cm]}
    
    \vspace{2cm}
    
    {\Large\bfseries #3\\[0.5cm]}
    {\large #4\\[2cm]}
    
    {\large\bfseries Date: #5\\[0.3cm]}
    
    \vfill
    
    \begin{tikzpicture}
        \fill[primaryblue] (0,0) rectangle (\textwidth,0.5);
    \end{tikzpicture}
    
    \end{titlepage}
}

% Alternative title page with image
\newcommand{\makereporttitlewithimage}[6]{%
    % #1 = Report Title
    % #2 = Subtitle
    % #3 = Hero Image Path
    % #4 = Author(s)
    % #5 = Institution/Organization
    % #6 = Date
    \begin{titlepage}
    \centering
    \vspace*{1cm}
    
    {\Huge\bfseries\color{primaryblue} #1\\[0.5cm]}
    {\LARGE #2\\[1.5cm]}
    
    \ifx&#3&
        \vspace{4cm}
    \else
        \includegraphics[width=0.8\textwidth]{#3}\\[1.5cm]
    \fi
    
    {\Large\bfseries #4\\[0.5cm]}
    {\large #5\\[1.5cm]}
    
    {\large\bfseries Date: #6}
    
    \vfill
    
    \begin{tikzpicture}
        \fill[primaryblue] (0,0) rectangle (\textwidth,0.5);
    \end{tikzpicture}
    
    \end{titlepage}
}

% ============================================================================
% APPENDIX SECTION COMMAND
% ============================================================================

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

% ============================================================================
% PAGE LAYOUT ADJUSTMENTS
% ============================================================================

% Spacing
\setstretch{1.15}
\setlength{\parskip}{0.5em}

% Prevent orphans and widows
\clubpenalty=10000
\widowpenalty=10000

% Float placement
\renewcommand{\topfraction}{0.9}
\renewcommand{\bottomfraction}{0.8}
\renewcommand{\textfraction}{0.07}
\renewcommand{\floatpagefraction}{0.7}

% ============================================================================
% END OF STYLE FILE
% ============================================================================

\endinput