% Handle batch mode % to overcome problems with too many open files \let\mypdfximage\pdfximage\def\pdfximage{\immediate\mypdfximage} \RequirePackage{iftex} \ifLuaTeX \directlua{pdf.setminorversion(7)} \fi \ifXeTeX \special{pdf:minorversion 7} \fi \ifPDFTeX \pdfminorversion=7 \fi % Set document class depending on configuration \documentclass[twoside]{book} %% moved from doxygen.sty due to workaround for LaTex 2019 version and unmaintained tabu package \usepackage{ifthen} \ifx\requestedLaTeXdate\undefined \usepackage{array} \else \usepackage{array}[=2016-10-06] \fi %% % Packages required by doxygen \makeatletter \providecommand\IfFormatAtLeastTF{\@ifl@t@r\fmtversion} % suppress package identification of infwarerr as it contains the word "warning" \let\@@protected@wlog\protected@wlog \def\protected@wlog#1{\wlog{package info suppressed}} \RequirePackage{infwarerr} \let\protected@wlog\@@protected@wlog \makeatother \IfFormatAtLeastTF{2016/01/01}{}{\usepackage{fixltx2e}} % for \textsubscript \ifPDFTeX \IfFormatAtLeastTF{2015/01/01}{\pdfsuppresswarningpagegroup=1}{} \fi \usepackage{doxygen} \usepackage{graphicx} \iftutex \usepackage{fontspec} \defaultfontfeatures{Ligatures={TeX}} \usepackage{unicode-math} \else \usepackage[utf8]{inputenc} \fi \usepackage{makeidx} \PassOptionsToPackage{warn}{textcomp} \usepackage{textcomp} \usepackage[nointegrals]{wasysym} \usepackage{ifxetex} % NLS support packages % Define default fonts % Font selection \iftutex \else \usepackage[T1]{fontenc} \fi % set main and monospaced font \usepackage[scaled=.90]{helvet} \usepackage{courier} \renewcommand{\familydefault}{\sfdefault} \doxyallsectionsfont{% \fontseries{bc}\selectfont% \color{darkgray}% } \renewcommand{\DoxyLabelFont}{% \fontseries{bc}\selectfont% \color{darkgray}% } \newcommand{\+}{\discretionary{\mbox{\scriptsize$\hookleftarrow$}}{}{}} % Arguments of doxygenemoji: % 1) '::' form of the emoji, already LaTeX-escaped % 2) file with the name of the emoji without the .png extension % in case image exist use this otherwise use the '::' form \newcommand{\doxygenemoji}[2]{% \IfFileExists{./#2.png}{\raisebox{-0.1em}{\includegraphics[height=0.9em]{./#2.png}}}{#1}% } % Page & text layout \usepackage{geometry} \geometry{% a4paper,% top=2.5cm,% bottom=2.5cm,% left=2.5cm,% right=2.5cm% } \usepackage{changepage} % Allow a bit of overflow to go unnoticed by other means \tolerance=750 \hfuzz=15pt \hbadness=750 \setlength{\emergencystretch}{15pt} \setlength{\parindent}{0cm} \newcommand{\doxynormalparskip}{\setlength{\parskip}{3ex plus 2ex minus 2ex}} \newcommand{\doxytocparskip}{\setlength{\parskip}{1ex plus 0ex minus 0ex}} \doxynormalparskip % Redefine paragraph/subparagraph environments, using sectsty fonts \makeatletter \renewcommand{\paragraph}{% \@startsection{paragraph}{4}{0ex}{-1.0ex}{1.0ex}{% \normalfont\normalsize\bfseries\SS@parafont% }% } \renewcommand{\subparagraph}{% \@startsection{subparagraph}{5}{0ex}{-1.0ex}{1.0ex}{% \normalfont\normalsize\bfseries\SS@subparafont% }% } \makeatother \makeatletter \newcommand\hrulefilll{\leavevmode\leaders\hrule\hskip 0pt plus 1filll\kern\z@} \makeatother % Headers & footers \usepackage{fancyhdr} \pagestyle{fancyplain} \renewcommand{\footrulewidth}{0.4pt} \fancypagestyle{fancyplain}{ \fancyhf{} \fancyhead[LE, RO]{\bfseries\thepage} \fancyhead[LO]{\bfseries\rightmark} \fancyhead[RE]{\bfseries\leftmark} \fancyfoot[LO, RE]{\bfseries\scriptsize Generated by Doxygen } } \fancypagestyle{plain}{ \fancyhf{} \fancyfoot[LO, RE]{\bfseries\scriptsize Generated by Doxygen } \renewcommand{\headrulewidth}{0pt} } \pagestyle{fancyplain} \renewcommand{\chaptermark}[1]{% \markboth{#1}{}% } \renewcommand{\sectionmark}[1]{% \markright{\thesection\ #1}% } % ToC, LoF, LoT, bibliography, and index % Indices & bibliography \usepackage[numbers]{natbib} \usepackage[titles]{tocloft} \setcounter{tocdepth}{3} \setcounter{secnumdepth}{5} % creating indexes \makeindex \ifPDFTeX \usepackage{newunicodechar} \makeatletter \def\doxynewunicodechar#1#2{% \@tempswafalse \edef\nuc@tempa{\detokenize{#1}}% \if\relax\nuc@tempa\relax \nuc@emptyargerr \else \edef\@tempb{\expandafter\@car\nuc@tempa\@nil}% \nuc@check \if@tempswa \@namedef{u8:\nuc@tempa}{#2}% \fi \fi } \makeatother \doxynewunicodechar{⁻}{${}^{-}$}% Superscript minus \doxynewunicodechar{²}{${}^{2}$}% Superscript two \doxynewunicodechar{³}{${}^{3}$}% Superscript three \fi % Hyperlinks % Hyperlinks (required, but should be loaded last) \ifPDFTeX \usepackage[pdftex,pagebackref=true]{hyperref} \else \ifXeTeX \usepackage[xetex,pagebackref=true]{hyperref} \else \ifLuaTeX \usepackage[luatex,pagebackref=true]{hyperref} \else \usepackage[ps2pdf,pagebackref=true]{hyperref} \fi \fi \fi \hypersetup{% colorlinks=true,% linkcolor=blue,% citecolor=blue,% unicode,% pdftitle={SERiF},% pdfsubject={3+1\+D Stellar Structure and Evolution}% } % Custom commands used by the header % Custom commands \newcommand{\clearemptydoublepage}{% \newpage{\pagestyle{empty}\cleardoublepage}% } % caption style definition \usepackage{caption} \captionsetup{labelsep=space,justification=centering,font={bf},singlelinecheck=off,skip=4pt,position=top} % in page table of contents \IfFormatAtLeastTF{2023/05/01}{\usepackage[deeplevels]{etoc}}{\usepackage[deeplevels]{etoc_doxygen}} \etocsettocstyle{\doxytocparskip}{\doxynormalparskip} \etocsetlevel{subsubsubsection}{4} \etocsetlevel{subsubsubsubsection}{5} \etocsetlevel{subsubsubsubsubsection}{6} \etocsetlevel{subsubsubsubsubsubsection}{7} \etocsetlevel{paragraph}{8} \etocsetlevel{subparagraph}{9} % prevent numbers overlap the titles in toc \renewcommand{\numberline}[1]{#1~} % End of preamble, now comes the document contents %===== C O N T E N T S ===== \begin{document} \raggedbottom % Titlepage & ToC % To avoid duplicate page anchors due to reuse of same numbers for % the index (be it as roman numbers) \hypersetup{pageanchor=false, bookmarksnumbered=true, pdfencoding=unicode } \pagenumbering{alph} \begin{titlepage} \vspace*{7cm} \begin{center}% {\Large SERiF}\\ [1ex]\large 0.\+0.\+1a \\ \vspace*{1cm} {\large Generated by Doxygen 1.13.2}\\ \end{center} \end{titlepage} \clearemptydoublepage \pagenumbering{roman} \tableofcontents \clearemptydoublepage \pagenumbering{arabic} % re-enable anchors again \hypersetup{pageanchor=true} %--- Begin generated contents --- \input{index} \input{test} \chapter{Namespace Index} \input{namespaces} \chapter{Hierarchical Index} \input{hierarchy} \chapter{Class Index} \input{annotated} \chapter{File Index} \input{files} \chapter{Namespace Documentation} \input{namespacepoly_m_f_e_m_utils} \input{namespaceserif} \input{namespaceserif_1_1composition} \input{namespaceserif_1_1config} \input{namespaceserif_1_1constant} \input{namespaceserif_1_1eos} \input{namespaceserif_1_1eos_1_1helmholtz} \input{namespaceserif_1_1mesh} \input{namespaceserif_1_1network} \input{namespaceserif_1_1network_1_1approx8} \input{namespaceserif_1_1polytrope} \input{namespaceserif_1_1polytrope_1_1lane_emden} \input{namespaceserif_1_1polytrope_1_1polycoeff} \input{namespaceserif_1_1polytrope_1_1poly_m_f_e_m_utils} \input{namespaceserif_1_1probe} \input{namespaceserif_1_1resource} \input{namespaceserif_1_1resource_1_1types} \input{namespaceserif_1_1types} \input{namespaceserif_1_1utilities} \chapter{Class Documentation} \input{classserif_1_1network_1_1approx8_1_1_approx8_network} \input{classapprox8_test} \input{classserif_1_1composition_1_1_composition} \input{structserif_1_1composition_1_1_composition_entry} \input{classcomposition_test} \input{classconfig_test} \input{classconfig_test_private_accessor} \input{structserif_1_1constant_1_1_constant} \input{classserif_1_1constant_1_1_constants} \input{classconst_test} \input{structserif_1_1polytrope_1_1polycoeff_1_1d_theta_interp_coeff} \input{structserif_1_1eos_1_1helmholtz_1_1_e_o_s} \input{structserif_1_1eos_1_1helmholtz_1_1_e_o_s_input} \input{classserif_1_1eos_1_1_eos_i_o} \input{classeos_test} \input{structserif_1_1polytrope_1_1form_bundle} \input{structserif_1_1composition_1_1_global_composition} \input{classserif_1_1polytrope_1_1_g_m_r_e_s_inverter} \input{structserif_1_1eos_1_1helmholtz_1_1_h_e_l_m_table} \input{structserif_1_1network_1_1approx8_1_1_jacobian} \input{classserif_1_1probe_1_1_log_manager} \input{classserif_1_1mesh_1_1_mesh_i_o} \input{classmesh_i_o_test} \input{structserif_1_1network_1_1approx8_1_1_net} \input{structserif_1_1network_1_1_net_in} \input{structserif_1_1network_1_1_net_out} \input{classserif_1_1network_1_1_network} \input{classserif_1_1polytrope_1_1poly_m_f_e_m_utils_1_1_nonlinear_power_integrator} \input{structserif_1_1network_1_1approx8_1_1_o_d_e} \input{classserif_1_1polytrope_1_1_poly_solver} \input{classpoly_test} \input{classserif_1_1polytrope_1_1_polytrope_operator} \input{classprobe_test} \input{class_resource_manager} \input{classserif_1_1resource_1_1_resource_manager} \input{classresource_manager_test} \input{classserif_1_1polytrope_1_1_schur_compliment} \input{structserif_1_1polytrope_1_1solver_bundle} \input{structserif_1_1polytrope_1_1polycoeff_1_1x1_interp_coeff} \chapter{File Documentation} \input{mainpage_8md} \input{composition_8cpp} \input{composition_8cpp_source} \input{composition_8h} \input{composition_8h_source} \input{config_8cpp} \input{config_8cpp_source} \input{config_8h} \input{config_8h_source} \input{const_8cpp} \input{const_8cpp_source} \input{const_8h} \input{const_8h_source} \input{eos_i_o_8cpp} \input{eos_i_o_8cpp_source} \input{helm_8cpp} \input{helm_8cpp_source} \input{eos_i_o_8h} \input{eos_i_o_8h_source} \input{helm_8h} \input{helm_8h_source} \input{mesh_i_o_8cpp} \input{mesh_i_o_8cpp_source} \input{mesh_i_o_8h} \input{mesh_i_o_8h_source} \input{debug_8h} \input{debug_8h_source} \input{warning__control_8h} \input{warning__control_8h_source} \input{approx8_8cpp} \input{approx8_8cpp_source} \input{network_8cpp} \input{network_8cpp_source} \input{approx8_8h} \input{approx8_8h_source} \input{network_8h} \input{network_8h_source} \input{poly_coeff_8cpp} \input{poly_coeff_8cpp_source} \input{poly_coeff_8h} \input{poly_coeff_8h_source} \input{poly_solver_8cpp} \input{poly_solver_8cpp_source} \input{poly_solver_8h} \input{poly_solver_8h_source} \input{integrators_8cpp} \input{integrators_8cpp_source} \input{polytrope_operator_8cpp} \input{polytrope_operator_8cpp_source} \input{utilities_8cpp} \input{utilities_8cpp_source} \input{integrators_8h} \input{integrators_8h_source} \input{polytrope_operator_8h} \input{polytrope_operator_8h_source} \input{utilities_8h} \input{utilities_8h_source} \input{probe_8cpp} \input{probe_8cpp_source} \input{probe_8h} \input{probe_8h_source} \input{resource_manager_8cpp} \input{resource_manager_8cpp_source} \input{resource_manager_types_8cpp} \input{resource_manager_types_8cpp_source} \input{resource_manager_8h} \input{resource_manager_8h_source} \input{resource_manager_types_8h} \input{resource_manager_types_8h_source} \input{4_d_s_t_a_r_types_8h} \input{4_d_s_t_a_r_types_8h_source} \input{composition_test_8cpp} \input{composition_test_8cpp_source} \input{comp_8cpp} \input{comp_8cpp_source} \input{config_test_8cpp} \input{config_test_8cpp_source} \input{const_test_8cpp} \input{const_test_8cpp_source} \input{eos_test_8cpp} \input{eos_test_8cpp_source} \input{mesh_i_o_test_8cpp} \input{mesh_i_o_test_8cpp_source} \input{approx8_test_8cpp} \input{approx8_test_8cpp_source} \input{poly_test_8cpp} \input{poly_test_8cpp_source} \input{probe_test_8cpp} \input{probe_test_8cpp_source} \input{resource_manager_test_8cpp} \input{resource_manager_test_8cpp_source} \chapter{Examples} \input{_2_users_2tboudreaux_2_programming_2_s_e_ri_f_2src_2composition_2public_2composition_8h-example} \input{_constructing-example} \input{_2_users_2tboudreaux_2_programming_2_s_e_ri_f_2src_2network_2public_2approx8_8h-example} \input{_2_users_2tboudreaux_2_programming_2_s_e_ri_f_2src_2polytrope_2solver_2public_2poly_solver_8h-example} %--- End generated contents --- % Index \backmatter \newpage \phantomsection \clearemptydoublepage \addcontentsline{toc}{chapter}{\indexname} \printindex % Required for some languages (in combination with latexdocumentpre from the header) \end{document}