Version 1.1

.gitignore

@@ -12,6 +12,12 @@
 *.nlo*
 *make*
 *.d*
+*.bcf*
+*.blg*
+*~*
+*.nlo*
+*make
+*.d
 *.btmp*
 *.fls*
 *.glo*
@@ -26,3 +32,4 @@
 thesis.txt*
 thesis.bcf*
 thesis.run.xml*
+*run.xml*

Classes/PhDThesisPSnPDF.cls

@@ -30,27 +30,31 @@
 \DeclareOption{index}{\PHD@indextrue}
 
 % ******************************* Font Option **********************************
-\newif\ifsetFont\setFontfalse % Font is not set 
+\newif\ifsetFont\setFontfalse                 % Font is not set 
 
-\newif\ifPHD@times\PHD@timesfalse % Times with Math Support
+\newif\ifPHD@times\PHD@timesfalse             % Times with Math Support
 \DeclareOption{times}{\PHD@timestrue}
 
-\newif\ifPHD@fourier\PHD@fourierfalse % Fourier with Math Support
+\newif\ifPHD@fourier\PHD@fourierfalse         % Fourier with Math Support
 \DeclareOption{fourier}{\PHD@fouriertrue}
 
-\newif\ifPHD@customfont\PHD@customfontfalse % Custom Font with Math Support
+\newif\ifPHD@customfont\PHD@customfontfalse   % Custom Font with Math Support
 \DeclareOption{customfont}{\PHD@customfonttrue}
 
 % ******************************* Bibliography *********************************
-\newif\ifsetBib\setBibfalse % Using Custom Bibliography
+\newif\ifsetBib\setBibfalse                   % Custom Bibliography = true/false
+\newif\ifsetBiBLaTeX\setBiBLaTeXfalse         % BiBLaTeX = True / False
 
-\newif\ifPHD@authoryear\PHD@authoryearfalse % Author-Year citation
+\newif\ifPHD@biblatex\PHD@biblatexfalse       % BiBLaTeX
+\DeclareOption{biblatex}{\PHD@biblatextrue}
+
+\newif\ifPHD@authoryear\PHD@authoryearfalse   % Author-Year citation
 \DeclareOption{authoryear}{\PHD@authoryeartrue}
 
-\newif\ifPHD@numbered\PHD@numberedfalse % Numbered citiation
+\newif\ifPHD@numbered\PHD@numberedfalse       % Numbered citiation
 \DeclareOption{numbered}{\PHD@numberedtrue}
 
-\newif\ifPHD@custombib\PHD@custombibfalse % Custom Bibliography
+\newif\ifPHD@custombib\PHD@custombibfalse     % Custom Bibliography
 \DeclareOption{custombib}{\PHD@custombibtrue}
 
 % ************************* Header / Footer Styling ****************************
@@ -79,6 +83,15 @@ If not, please remove the option `abstract' from the document class and
 recompile. Good luck with your writing!}
 }
 
+% ****************** Chapter Mode - To print only selected chapters ************
+\newif \ifdefineChapter\defineChapterfalse %To enable Separate abstract
+
+\newif\ifPHD@chapter\PHD@chapterfalse % Enable Separate Abstract
+\DeclareOption{chapter}{
+  \PHD@chaptertrue     
+  \ClassWarning{PhDThesisPSnPDF}{You have chosen an option that generates only selected chapters with references, if this was intentional, ignore this warning. If not, please remove the option `chapter' from the document class and recompile. Good luck with your writing!}
+}
+
 \ProcessOptions\relax%
 
 % *************************** Pre-defined Options ******************************
@@ -273,22 +286,40 @@ supported!}
 
 % ******************************* Bibliography *********************************
 \ifPHD@authoryear
+\ifPHD@biblatex
+\RequirePackage[backend=bibtex8, style=authoryear, citestyle=alphabetic, sorting=nty, natbib=true]{biblatex}
+\setBiBLaTeXtrue
+\else
 \RequirePackage[round, sort, numbers, authoryear]{natbib} %author year
+\fi
 \setBibtrue
 \else
      \ifPHD@numbered
+     \ifPHD@biblatex
+     \RequirePackage[backend=bibtex8, style=numeric-comp, citestyle=numeric, sorting=none, natbib=true]{biblatex}
+     \setBiBLaTeXtrue
+     \else
      \RequirePackage[numbers,sort&compress]{natbib} % numbered citation
+     \fi
      \setBibtrue
      \else
          \ifPHD@custombib
          \setBibfalse
+         \ifPHD@biblatex
+             \setBiBLaTeXtrue
+         \fi
          \else
-         \RequirePackage[numbers,sort&compress]{natbib} % Default - numbered
+             \ifPHD@biblatex
+                 \RequirePackage[backend=bibtex8, style=numeric-comp, citestyle=numeric, sorting=none, natbib=true]{biblatex}
+                 \setBiBLaTeXtrue
+             \else
+                 \RequirePackage[numbers,sort&compress]{natbib} % Default - numbered
+             \fi
          \setBibtrue
 	 \ClassWarning{PhDThesisPSnPDF}{No bibliography style was specified.
 Default numbered style is used. If you would like to use a different style, use
 `authoryear' or `numbered' in the options in documentclass or use `custombib`
-and define the natbibpackage with required style in the Preamble.tex file}
+and define the natbib package or biblatex package with required style in the Preamble.tex file}
          \fi
      \fi
 \fi
@@ -297,7 +328,8 @@ and define the natbibpackage with required style in the Preamble.tex file}
 
 % *********************** To copy ligatures and Fonts **************************
 \RequirePackage{textcomp}
-\RequirePackage[utf8]{inputenc}
+ %[utf8] was used - removed for biblatex - biber backend required
+\RequirePackage{inputenc}
 \RequirePackage[T1]{fontenc}
 
 % Font Selection
@@ -432,6 +464,16 @@ font in the preamble.tex file by specifying `customfont' in the class options}
   \renewcommand{\thepage}{\roman{page}}}
 {\newpage\renewcommand{\thepage}{\arabic{page}}}
 
+% ******************************* Appendices **********************************
+% Appending the appendix name to the letter in TOC
+% Especially when backmatter is enabled
+
+%\renewcommand\backmatter{
+%    \def\chaptermark##1{\markboth{%
+%        \ifnum  \c@secnumdepth > \m@ne  \@chapapp\ \thechapter:  \fi  ##1}{%
+%        \ifnum  \c@secnumdepth > \m@ne  \@chapapp\ \thechapter:  \fi  ##1}}%
+%    \def\sectionmark##1{\relax}}
+
 
 % ******************************************************************************
 % **************************** Macro Definitions *******************************
@@ -631,6 +673,24 @@ font in the preamble.tex file by specifying `customfont' in the class options}
     \newcommand{\printthesisindex}{}
 \fi
 
+% ***************************** Chapter Mode ***********************************
+% The chapter mode allows user to only print particular chapters with references
+% All other options are disabled by default
+% To include only specific chapters without TOC, LOF, Title and Front Matter
+% To send it to supervisior for changes
+
+\ifPHD@chapter
+    \defineChaptertrue
+    % Disable the table of contents, figures, tables, index and nomenclature
+    \renewcommand{\maketitle}{}
+    \renewcommand{\tableofcontents}{}
+    \renewcommand{\listoffigures}{}
+    \renewcommand{\listoftables}{}
+    \renewcommand{\printnomencl}{}
+    \renewcommand{\printthesisindex}{}
+\else
+    \defineChapterfalse
+\fi
 
 % ******************************** Abstract ************************************
 % The abstract environment puts a large, bold, centered "Abstract" label at

Preamble/preamble.tex

@@ -4,6 +4,7 @@
 % Add `custommargin' in the document class options to use this section
 % Set {innerside margin / outerside margin / topmargin / bottom margin}  and
 % other page dimensions
+
 \ifsetMargin
 \else
     \RequirePackage[left=37mm,right=30mm,top=35mm,bottom=30mm]{geometry}
@@ -14,10 +15,12 @@
 % ******************* Fonts (like different typewriter fonts etc.)*************
 
 % Add `customfont' in the document class option to use this section
+
 \ifsetFont
 \else
     % Set your custom font here and use `customfont' in options. Leave empty to
     % load computer modern font (default LaTeX font).  
+
     \RequirePackage{libertine} 
 \fi
 
@@ -29,12 +32,17 @@
 % Add `custombib' in the document class option to use this section
 \ifsetBib % True, Bibliography option is chosen in class options
 \else % If custom bibliography style chosen then load bibstyle here
-    \RequirePackage[square, sort, numbers, authoryear]{natbib} % CustomBib
+      \ifsetBiBLaTeX
+           \RequirePackage[backend=bitex8, style=numeric-comp, citestyle=numeric, sorting=nty, natbib=true]{biblatex}
+      \else
+            \RequirePackage[square, sort, numbers, authoryear]{natbib} % CustomBib
+     \fi
 \fi
 
 % changes the default name `Bibliography` -> `References'
 \renewcommand{\bibname}{References}
 
+
 % *****************************************************************************
 % *************** Changing the Visual Style of Chapter Headings ***************
 % Uncomment the section below. Requires titlesec package.
@@ -132,5 +140,4 @@
 % The default value of both \appendixtocname and \appendixpagename is `Appendices'. These names can all be changed via: 
 
 %\renewcommand{\appendixtocname}{List of appendices}
-
 %\renewcommand{\appendixname}{Appndx}

README.md

@@ -49,6 +49,12 @@ THE SOFTWARE.
 
 *   A separate abstract with thesis title and author name, along with the titlepage can be generated by passing the argument `abstract` to the document class.
 
+*   Option to generate only specific chapters and references without the frontmatter and title page. Useful for review and corrections.
+
+*   BibLaTeX support for Bibliography
+
+*   A LyX Template is now available at [https://github.com/kks32/PhDThesisLyX/](https://github.com/kks32/PhDThesisLyX/)
+
 
 ## Building your thesis
 
@@ -101,11 +107,15 @@ Usage: `sh ./compile-thesis.sh [OPTIONS] [filename]`
 
 ## Usage details
 
+Thesis information such as title, author, year, degree, etc., and other meta-data can be modified in `thesis-info.tex`
+
 ### Class Options
 
 The class file, `PhDThesisPSnPDF`, is based on the standard `book` class
 
-It supports the following custom options:
+It supports the following custom options in the documentclass in thesis.tex:
+
+(Usage `\documentclass[a4paper,11pt,print]{Classes/PhDThesisPSnPDF}`)
 
 *   `a4paper` (default as per the University guidelines) or `a5paper`: Paper size
 
@@ -135,21 +145,35 @@ It supports the following custom options:
 
 *   `abstract`: This option enables only the thesis title page and the abstract with title and author to be printed. 
 
+*   `chapter`: This option enables only the specified chapter and it's references. Useful for review and corrections.
+
+
 ### Abstract separate
 
 *  A separate abstract with the title of the PhD and the candidate name has to be submitted to the Student Registry. This can be generated using `abstract` option in the document class. Ignore subsequent warnings about skipping sections (if any).
 
-*  To generate the separate abstract and the title page, make sure the following commands are in the `preamble.tex` file: 
+*  To generate the separate abstract and the title page, make sure the following commands are in the preamble section of `thesis.tex` file: 
 
         \ifdefineAbstract
         \includeonly{Abstract/abstract}
         \else
         \fi
 
+### Chapter Mode
+
+*  The chapter mode allows user to only print specific chapters along with references. By default, it excludes everything else in the front matter and appendices. This can done by using `chapter` option in the document class in `thesis.tex`. Ignore subsequent warnings about skipping sections (if any).
+
+*  To generate the separate abstract and the title page, make sure the following commands are in the preamble section of `thesis.tex` file: 
+
+		\ifdefineChapter
+			\includeonly{Chapter3/chapter3} 
+		\else
+		\fi
+
 
 ### Choosing the Fonts
 
-`PhDThesisPSnPDF` currently supports two fonts `Times` and `Latin Modern (default)`.
+`PhDThesisPSnPDF` currently supports three fonts `Times`, `Fourier` and `Latin Modern (default)`.
 
 *   `times`: (The University of Cambridge guidelines recommend using Times). Specifying times option in the document class will use `mathptpx` or `Times` font with Math Support.
 *   `fourier`: fourier font with math support
@@ -163,7 +187,9 @@ It supports the following custom options:
 
 ### Choosing the Bibliography style
 
-`PhDThesisPSnPDF` currently supports two styles `authoryear` and `numbered (default)`. Citation style has to be set. You can also specify `custombib` style
+`PhDThesisPSnPDF` currently supports two styles `authoryear` and `numbered (default)`. Citation style has to be set. You can also specify `custombib` style and customise the bibliography.
+
+* BibLaTeX support has been added and can be invoked using `biblatex` in the documentclass. Bibtex is used as the backend for `biblatex` at the moment. Will be replaced with biber when Makefile support is added.
 
 * `authoryear`: For author-year citation eg., Krishna (2013)
 
@@ -371,9 +397,16 @@ If you are generating a separate abstract for your thesis submission, ignore thi
 
 *  Make example thesis a document on how to use the template and include general guidelines and good  practices.
 
+*  Biber backend support for biblatex with Makefile
+
 --------------------------------------------------------------------------------
 ## ChangeLog
 
+### 2014/02/04 - Version 1.1
+> Commit
+*   BibLatex Support with bibtex backend
+*   Chapter mode for compiling only specified chapters and references
+
 ### 2014/01/11 - Version 1.0
 > Commit 2f6918863e3c9d0a7e95bd2651ce7ef8ae38f90a
 *   Fixed an issue with the headers in Nomenclature section

thesis-info.tex

@@ -0,0 +1,40 @@
+% ************************ Thesis Information & Meta-data **********************
+%% The title of the thesis
+\title{Writing your PhD Thesis in \texorpdfstring{\\ \LaTeX2e}{LaTeX2e}} 
+%\texorpdfstring is used for PDF metadata. Usage:
+%\texorpdfstring{LaTeX_Version}{PDF Version (non-latex)} eg.,
+%\texorpdfstring{$sigma$}{sigma}
+
+%% The full name of the author
+\author{Krishna Kumar}
+
+%% Department (eg. Department of Engineering, Maths, Physics)
+\dept{Department of Engineering}
+
+%% University and Crest
+\university{University of Cambridge}
+\crest{\includegraphics[width=0.25\textwidth]{University_Crest}}
+
+%% You can redefine the submission text:
+% Default as per the University guidelines: This dissertation is submitted for
+% the degree of Doctor of Philosophy
+%\renewcommand{\submissiontext}{change the default text here if needed}
+
+%% Full title of the Degree 
+\degree{Doctor of Philosophy}
+
+%% College affiliation (optional)
+\college{King's College}
+
+%% Submission date
+\degreedate{2013} 
+
+%% Meta information
+\subject{LaTeX} \keywords{{LaTeX} {PhD Thesis} {Engineering} {University of
+Cambridge}} 
+
+% ***************************** BiBLaTeX Reference *****************************
+\ifsetBiBLaTeX    
+\bibliography{References/references}
+\fi
+