\setcounter{section} problems with TOC hyperref links

Question

In writing my thesis, I have two Parts each of them composed by several Chapters. I use \input to include the different Chapters files. At the beginning of each Part I want to write an introductory section, and I want it to appear in TOC as Section i.1 and Section i.2. Now the naming and the page numbering works fine. However, hyperref link from TOC points to the previous Section with the same number. It is more clear with this MWE:

The main file is

\documentclass [a4paper,12 pt]{book}
\usepackage{hyperref}
\usepackage{lipsum}

\begin{document}

\frontmatter
\renewcommand\contentsname{Table of Contents}
\tableofcontents
\clearpage{\pagestyle{empty}\cleardoublepage}

\mainmatter
\input{File1}
\clearpage{\pagestyle{empty}\cleardoublepage}

%%%%-----------------------%

\phantomsection
\addcontentsline{toc}{part}{Title Part 1}
\input{File2}
\clearpage{\pagestyle{empty}\cleardoublepage}

\end{document}

File 1 is

\section{First section}
\lipsum

\section{Second section}
\lipsum

File 2 is

\thispagestyle{empty} \phantom{}

\vfill
\begin{center}
{\huge \scshape\bfseries Title Part I\\}
\end{center}
\vfill
\newpage

{\clearpage\phantomsection\renewcommand\thechapter{\rm S}
\setcounter{section}{0} 
\label{sec:intro1}
\section{Section S1}
\lipsum}

% In the real file I have here many others Chapters and Sections.

{\clearpage\phantomsection\renewcommand\thechapter{\rm S}
\setcounter{section}{1}
\section{Section S2}
\label{sec:intro2}
\lipsum}

When now I compile, the clickable link of Section i1 points to First Section and Section i2 points to Second Section. How to have the links pointing to the right place?

Answer 1

I'd define an environment in order to avoid too much repetitive code in the document body. The main trick is to save the value of the “part sections” and to locally redefine \theHsection so as to not confuse hyperref with double references to the same object.

\documentclass[a4paper,12pt]{book}
\usepackage{emptypage}
\usepackage{hyperref}
\usepackage{bookmark}

\usepackage{lipsum}

\renewcommand\contentsname{Table of Contents}

\newcounter{partsection}

\newenvironment{Part}[1]
 {%
  \cleardoublepage
  \phantomsection
  \setcounter{section}{\value{partsection}}%
  \renewcommand{\thesection}{S\arabic{section}}%
  \renewcommand{\theHsection}{S\arabic{section}}%
  \addcontentsline{toc}{part}{#1}%
  \thispagestyle{empty}
  \vspace*{\fill}%
  \begin{center}
  \huge\scshape #1
  \end{center}
  \vspace*{\fill}
  \clearpage
 }
 {%
  \setcounter{partsection}{\value{section}}%
  \cleardoublepage
}

\begin{document}

\frontmatter

\tableofcontents

\mainmatter

\chapter{First chapter}

\section{First section}
\lipsum

\section{Second section}
\lipsum

\begin{Part}{Title Part I}

\section{Section i1}
\label{sec:intro1}
\lipsum

\section{Section i2}
\label{sec:intro2}
\lipsum
\end{Part}

\chapter{Second chapter}

\section{First section}
\lipsum

\section{Second section}
\lipsum


\begin{Part}{Title Part II}

\section{Section i1}
\label{sec:intro3}
\lipsum

\section{Section i2}
\label{sec:intro4}
\lipsum
\end{Part}

\chapter{Third chapter}

\section{First section}
\lipsum

\section{Second section}
\lipsum

\ref{sec:intro1} \ref{sec:intro2}
\ref{sec:intro3} \ref{sec:intro4}

\end{document}