diff --git a/Doc/UserManual/AppendixListings.tex b/Doc/UserManual/AppendixListings.tex
index 8b645fb549513f069ecef6792466751d25f71ea5..34f858c17f4a80bc8d44faec86c5253dce673f72 100755
--- a/Doc/UserManual/AppendixListings.tex
+++ b/Doc/UserManual/AppendixListings.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
%\newpage{\pagestyle{empty}\cleardoublepage}
diff --git a/Doc/UserManual/AppendixPhysics.tex b/Doc/UserManual/AppendixPhysics.tex
index b83e89582a200324fc2e56b82c13f1bdb74f233a..cc78253b3eac1f1e17f4432521417dabbac1447d 100755
--- a/Doc/UserManual/AppendixPhysics.tex
+++ b/Doc/UserManual/AppendixPhysics.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
%Appendix
\chapter{Implemented classes}
diff --git a/Doc/UserManual/AppendixPythonEx.tex b/Doc/UserManual/AppendixPythonEx.tex
index b3bb271315f7017156c335981bb2fb867531c25d..88c25bc9a34060a5098e7c37d5b4d989aaadb343 100644
--- a/Doc/UserManual/AppendixPythonEx.tex
+++ b/Doc/UserManual/AppendixPythonEx.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
%\newpage
\chapter{\Python\ examples}
This appendix describes the samples and the simulated output intensity maps of the examples, whose \Python\ scripts are contained in the folder /Examples/python/simulation.
@@ -7,7 +23,7 @@ This appendix describes the samples and the simulated output intensity maps of t
\begin{figure}[H]
\begin{center}
-\includegraphics[width=0.6\textwidth]{Figures/py-ex/BAgeometry_wide}
+\includegraphics[width=0.6\textwidth]{Figures/py-ex/BAgeometry_wide.jpg}
\end{center}
\caption{The GISAS setup and the coordinate system used in
\BornAgain. The incoming beam propagates with incidence angles $\alpha_i$ and $\phi_i$ with respect to the sample axes as shown. A scattered (outgoing) beam, characterized by $\alpha_f$ and $\phi_f$ propagates toward the area detector.}
@@ -53,7 +69,7 @@ The simulation is performed using the Distorted Wave Born Approximation. The out
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex001}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex001.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex001.eps}}
\hfill
@@ -81,7 +97,7 @@ The result of the simulation is shown in fig.~\ref{fig:PythonEx2}(b).
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex002}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex002.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex002.eps}}
\hfill
@@ -100,7 +116,7 @@ The sample considered for this example and the output intensity generated using
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003BA}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003BA.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex003BA.eps}}
\hfill
@@ -113,7 +129,7 @@ This example considers a polydisperse distribution of cylinders (see fig.~\ref{f
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003BASize}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003BASize.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex003BASize.eps}}
\hfill
@@ -132,7 +148,7 @@ The distribution of cylinders is monodisperse with a height and a radius of 5~nm
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003DWBA}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex003DWBA.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex003DWBA.eps}}
\hfill
@@ -185,7 +201,7 @@ The distribution function is a two-dimensional Cauchy function with correlation
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/g_r_2dparasq}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/g_r_2dparasq.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex0042DDLsq.eps}}
\hfill
@@ -211,7 +227,7 @@ The simulation is run using the DWBA.
% question: LMA with constant size of particles??
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis1}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis1.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex005Disorder1.eps}}
\hfill
@@ -224,7 +240,7 @@ This sample differs from the previous one by an overlap of two spatial distribut
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis2}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis2.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex005Disorder2.eps}}
\hfill
@@ -239,7 +255,7 @@ Compared to Section~\ref{sec:ex005Dis1}, the square lattice used in this example
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis3}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis3.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex005Disorder3.eps}}
\hfill
@@ -253,7 +269,7 @@ This sample is composed of identical cylinders. Their distribution is generated
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis4rand}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex005Dis4rand.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex005Disorder4.eps}}
\hfill
@@ -271,7 +287,7 @@ For the second example, shown in fig.~\ref{fig:PythonEx6RotatedPyramid}, the pyr
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex006Pyramids}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex006Pyramids.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex006Pyramids.eps}}
\hfill
@@ -281,7 +297,7 @@ For the second example, shown in fig.~\ref{fig:PythonEx6RotatedPyramid}, the pyr
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex006RotatedPyramids}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex006RotatedPyramids.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex006RotatedPyramids.eps}}
\hfill
@@ -301,7 +317,7 @@ The incident beam is characterized by a wavelength of 1~\AA, incident angles $\a
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex007Core}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex007Core.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex007CoreShell.eps}}
\hfill
@@ -336,7 +352,7 @@ There is no added particle. All layers present the same type of roughness on the
The incident beam is characterized by a wavelength of 1~\AA \ and incident angles $\alpha_i=0.2^{\circ}$ and $\phi_i=0^{\circ}$.
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex008Rough}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex008Rough.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex008CorrelatedRough.eps}}
\hfill
@@ -361,7 +377,7 @@ The interference considered is a two-dimensional orthogonal lattice with $L_1=20
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex009Cos}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex009Cos.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex009CosRipple2DLat.eps}}
\hfill
@@ -384,7 +400,7 @@ The influence of the interference function on the output pattern can be seen by
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex009Tri}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex009Tri.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex009TriRipple2DLat.eps}}
\hfill
@@ -415,7 +431,7 @@ The sample is made of cylinders (5~nm in radius and height) deposited on a subst
\begin{figure}[H]
\hfill
-\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex010BeamDiv}}
+\subfigure[Schematic of the sample]{\includegraphics[width=.49\textwidth]{Figures/py-ex/fig_ex010BeamDiv.jpg}}
\hfill
\subfigure[Simulated 2D pattern]{\includegraphics[width=.49\textwidth]{Figures/py-ex/figure_ex010BeamDiv.eps}}
\hfill
diff --git a/Doc/UserManual/BackOfTitle.tex b/Doc/UserManual/BackOfTitle.tex
new file mode 100755
index 0000000000000000000000000000000000000000..5c43b31b6fe468a8bc5c962900393db9f692ae39
--- /dev/null
+++ b/Doc/UserManual/BackOfTitle.tex
@@ -0,0 +1,36 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
+\newpage
+\thispagestyle{empty}
+
+\vfill
+
+\noindent
+\begin{tabular}{@{}p{7em}@{}l@{}}
+Homepage:& http://www.bornagainproject.org\\[2ex]
+Copyright:& Forschungszentrum Jülich GmbH 2015\\
+ &Software licence: GNU public licence version 3 or higher\\
+ &For documentation licence, contact the authors\\[2ex]
+Authors: &Scientific Computing Group at Heinz Maier-Leibnitz Zentrum (MLZ) Garching\\
+ &Céline Durniak, Marina Ganeva, Gennady Pospelov,
+ Walter Van Herck, Joachim Wuttke\\[2ex]
+Disclaimer: &Software and documentation are work in progress.\\
+ &We cannot guarantee that they are accurate and correct.\\
+ &Anyway, it is entirely in the responsibility of users
+ to check that their data interpretation is physically meaningful.\\
+ &If in doubt, contact us for assistance or scientific collaboration.
+\end{tabular}
diff --git a/Doc/UserManual/BornAgainManual.tex b/Doc/UserManual/BornAgainManual.tex
index b7bba0a838fa5f91371940cb01b39b47bc9c1c75..4618063f23d6ec96f2660ae0d0184fccd6af7e4b 100755
--- a/Doc/UserManual/BornAgainManual.tex
+++ b/Doc/UserManual/BornAgainManual.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\documentclass[a4paper,11pt,twoside,fleqn]{report}
%-------------------------------------------------------------------------------
@@ -234,14 +250,14 @@ Forschungszentrum J\"ulich GmbH \\ [40mm]
% DOCUMENT
%------------------------------------------------------------------------------
\begin{document}
+\pagenumbering{roman}
\maketitle
-\input{Disclaimer}
+\input{BackOfTitle}
\tableofcontents
-%\lstlistoflistings
-%\listoffigures
-%\listoftables
+\pagenumbering{arabic}
+\setcounter{page}{1}
\input{Introduction}
\input{QuickStart}
diff --git a/Doc/UserManual/Disclaimer.tex b/Doc/UserManual/Disclaimer.tex
deleted file mode 100755
index 24218791e31db3fede6463ad0f2fe08fc317bed6..0000000000000000000000000000000000000000
--- a/Doc/UserManual/Disclaimer.tex
+++ /dev/null
@@ -1,21 +0,0 @@
-\newpage
-
-{\Huge
-\vspace*{0.5cm}
-\noindent
-Disclaimer
-} \newline
-\vspace*{0.25cm}
-
-\noindent
-{\large
-This manual supplements BornAgain online documentation located at \url{http://www.bornagainproject.org}.
-Follow the link to get started.
-\vspace*{4mm}
-
-\noindent
-This manual is under development and does not yet constitute a comprehensive listing of
-all \BornAgain\ features and functionality.
-The included information and instructions are subject to substantial changes and
-are provided only as a preview.
-}
diff --git a/Doc/UserManual/Fitting.tex b/Doc/UserManual/Fitting.tex
index 23262a39c5e27192a9a7db321483c07cd8f73444..6dd37f008609f0ea6ab563fa811b2c652dae5940 100755
--- a/Doc/UserManual/Fitting.tex
+++ b/Doc/UserManual/Fitting.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\chapter{Fitting} \SecLabel{Fitting}
diff --git a/Doc/UserManual/FittingAdvanced.tex b/Doc/UserManual/FittingAdvanced.tex
index 3664ce073c2d522d7f9f6d178951dca12dd92dfd..78b0c8d817a9a192e185c48e9794a03647da0f27 100755
--- a/Doc/UserManual/FittingAdvanced.tex
+++ b/Doc/UserManual/FittingAdvanced.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\section {Advanced fitting} \SecLabel{FittingAdvanced}
\subsection{Affecting $\chi2$ calculations}
diff --git a/Doc/UserManual/FittingExamples.tex b/Doc/UserManual/FittingExamples.tex
index f6990b8a5b5d4eb969db7f19cbaf49883cb20efd..03705287bf2691f144132036d672fb82df21693f 100755
--- a/Doc/UserManual/FittingExamples.tex
+++ b/Doc/UserManual/FittingExamples.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\section{Basic Python fitting example} \SecLabel{FittingExamples}
In this section we are going to go through a complete example of
diff --git a/Doc/UserManual/FittingImplementation.tex b/Doc/UserManual/FittingImplementation.tex
index f1f37d180719f5577df082cf2cf5d493e4bd76c2..dfed33e0fca5b73d3d9c53bed94c7691d8a03389 100755
--- a/Doc/UserManual/FittingImplementation.tex
+++ b/Doc/UserManual/FittingImplementation.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
%
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
diff --git a/Doc/UserManual/FittingRightAnswers.tex b/Doc/UserManual/FittingRightAnswers.tex
index a7b7a4ff288ac7339c232c8924c34dd1d3f298fa..b1c62734e6f99b532283a6ddc910a08f03febe80 100755
--- a/Doc/UserManual/FittingRightAnswers.tex
+++ b/Doc/UserManual/FittingRightAnswers.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\section {How to get the right answer from fitting}
\SecLabel{FittingRightAnswers}
diff --git a/Doc/UserManual/Installation.tex b/Doc/UserManual/Installation.tex
index a26cbe63fbffcacaddbfbf0f28eefffd5a745f79..6e4009bf89abe5098e6e406a2d4174cf67f96373 100755
--- a/Doc/UserManual/Installation.tex
+++ b/Doc/UserManual/Installation.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\chapter{Installation} \SecLabel{Installation}
diff --git a/Doc/UserManual/Introduction.tex b/Doc/UserManual/Introduction.tex
index 325be8de54f0341e23596822f886aff7630b569a..6c20d96390b1c5fe9249726802a474e54179295a 100755
--- a/Doc/UserManual/Introduction.tex
+++ b/Doc/UserManual/Introduction.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\mychapter{0}{Introduction}
diff --git a/Doc/UserManual/QuickStart.tex b/Doc/UserManual/QuickStart.tex
index ff502dcf89a751d620aa0cbb86c92752234f3175..28120f53c117433ea13e70f3ced3806cd96df607 100755
--- a/Doc/UserManual/QuickStart.tex
+++ b/Doc/UserManual/QuickStart.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\chapter{Quick start} \SecLabel{QuickStart}
diff --git a/Doc/UserManual/Simulation.tex b/Doc/UserManual/Simulation.tex
index 9e86b9760be0f47b0a9159010297153e84a72fb6..cc76db4b9e6cffe5babfbc7341f40fa62d6186aa 100755
--- a/Doc/UserManual/Simulation.tex
+++ b/Doc/UserManual/Simulation.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\chapter{Simulation} \SecLabel{Simulation}
diff --git a/Doc/UserManual/SimulationExamples.tex b/Doc/UserManual/SimulationExamples.tex
index aa27a425072898a6d0f4bdab7210ddfd3904f25f..aa60df255d74b0b87e3094bbc876fcbb9ae0e0fa 100755
--- a/Doc/UserManual/SimulationExamples.tex
+++ b/Doc/UserManual/SimulationExamples.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\mysection{Example 1: two types of islands on a substrate without interference}{Example 1: two types of islands on top of
substrate without interference} \SecLabel{Example1Python}
diff --git a/Doc/UserManual/SoftwareArchitecture.tex b/Doc/UserManual/SoftwareArchitecture.tex
index 4c0c2c65303391ac4ea8723d5bf4455bfc495255..7438f0df9984f7128cf200bf2aaf683e7d36514f 100755
--- a/Doc/UserManual/SoftwareArchitecture.tex
+++ b/Doc/UserManual/SoftwareArchitecture.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\newpage
\chapter{Software architecture}\SecLabel{SoftwareArchitecture}
diff --git a/Doc/UserManual/SoftwareDesignOverview.tex b/Doc/UserManual/SoftwareDesignOverview.tex
index 29e491bc1ea2cf3f17c5acf90e16df92b07e19f4..13927350600a0d02db33e7550a510f42920db74a 100755
--- a/Doc/UserManual/SoftwareDesignOverview.tex
+++ b/Doc/UserManual/SoftwareDesignOverview.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\section{Data classes for simulations and fits}
diff --git a/Doc/UserManual/Theory.tex b/Doc/UserManual/Theory.tex
index 024f1f20794446eb5be4d2d47b3d6582a9b8d897..0375543ac6f031a1a75345ef8dcad01316d01af6 100755
--- a/Doc/UserManual/Theory.tex
+++ b/Doc/UserManual/Theory.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\chapter{Scattering cross--section} \SecLabel{ScatteringCrosssection}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
diff --git a/Doc/UserManual/UserAPI.tex b/Doc/UserManual/UserAPI.tex
index e5fd37f269cc3581f1a49b8f3734233c5e76f636..c94c16e293805746ff2bee9d73db7392ccf8f7d0 100644
--- a/Doc/UserManual/UserAPI.tex
+++ b/Doc/UserManual/UserAPI.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\chapter{User API} \label{UserAPI}
%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
diff --git a/Doc/UserManual/UserManualVersion.tex b/Doc/UserManual/UserManualVersion.tex
index 699e6e1c9e95740e1548bad6d5fbfbf6cc5c5d76..7872c1d7872b6fe3316bd55488d964cf36d43027 100644
--- a/Doc/UserManual/UserManualVersion.tex
+++ b/Doc/UserManual/UserManualVersion.tex
@@ -1,4 +1,7 @@
% User Manual version number
-% this file is automatically generated by CMakeLists.txt using cmake/scripts/UserManualVersion.tex.in
-\newcommand{\UserManualVersionNumber}{1.0.0}
+% This file is automatically generated by CMakeLists.txt
+% using cmake/scripts/UserManualVersion.tex.in
+
+\newcommand{\UserManualVersionNumber}
+{1.0.0}
diff --git a/Doc/UserManual/ff.tex b/Doc/UserManual/ff.tex
index 44a7d78b6cfc42654f20521b652826d9e08674c2..3134e8ccb5155371a25dd308f4b8947b014c66ea 100755
--- a/Doc/UserManual/ff.tex
+++ b/Doc/UserManual/ff.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
%\newpage
\chapter{Form factors} \label{appendixff}
\hypertarget{formfactors}{}
diff --git a/Doc/UserManual/interferences.tex b/Doc/UserManual/interferences.tex
index 31d6364b995b880e14406e7b53e7ac979d26d6e1..cf3c6a9d127523aef209f3da0d923622205dbf57 100755
--- a/Doc/UserManual/interferences.tex
+++ b/Doc/UserManual/interferences.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\chapter{Collection of particles} \label{appendixinterf}
In the section we are going to describe how to simulate collections of particles using \BornAgain\ \textit{i.e.} the way their spatial distributions and the distribution of shapes and their correlations can influence the output scattered intensity. The samples generated with \BornAgain\ are made of different material layers characterized by their thicknesses, refractive indices, and possible surface roughnesses. Except for the thickness, the other dimensions of the layers are infinite.\\ Particles can be embedded in or deposited on the top of any layers. Those particles are characterized by their shapes, refractive indices, their spatial distribution and concentration in the sample. When the particles are densely packed, the distance relative to each other becomes of the same order as the particles' sizes. The radiation scattered from these various particles are going to interfere together. The influence of the particles' shapes has been described in the previous section about form factors.
diff --git a/Doc/UserManual/theoryapp.tex b/Doc/UserManual/theoryapp.tex
index 3880605796169b3390cafc30d508801d1bae5aa0..55d6dc9b59eba420f783215cbe6274ccd3a16263 100755
--- a/Doc/UserManual/theoryapp.tex
+++ b/Doc/UserManual/theoryapp.tex
@@ -1,3 +1,19 @@
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+%%
+%% BornAgain: simulate and fit scattering at grazing incidence
+%%
+%% homepage: http://www.bornagainproject.org
+%%
+%% copyright: Forschungszentrum Jülich GmbH 2015
+%% Software licence does not cover this documentation
+%% For documentation licence, contact the authors
+%%
+%% authors: Scientific Computing Group at MLZ Garching
+%% C. Durniak, M. Ganeva, G. Pospelov, W. Van Herck, J. Wuttke
+%%
+%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
+
+
\chapter{Theory} \label{appendixtheory}
\section{Scattering on nanoparticles - Formal treatment} \label{sec:formal}
diff --git a/cmake/scripts/UserManualVersion.tex.in b/cmake/scripts/UserManualVersion.tex.in
index 17ea28579cc734d06af77ef1e7bed14380d04d23..6ab2fcfa066e6c451cb4570f098c6cbfee17d2c6 100644
--- a/cmake/scripts/UserManualVersion.tex.in
+++ b/cmake/scripts/UserManualVersion.tex.in
@@ -1,4 +1,7 @@
% User Manual version number
-% this file is automatically generated by CMakeLists.txt using cmake/scripts/UserManualVersion.tex.in
-\newcommand{\UserManualVersionNumber}{@BornAgain_VERSION_MAJOR@.@BornAgain_VERSION_MINOR@.@BornAgain_VERSION_PATCH@}
+% This file is automatically generated by CMakeLists.txt
+% using cmake/scripts/UserManualVersion.tex.in
+
+\newcommand{\UserManualVersionNumber}
+{@BornAgain_VERSION_MAJOR@.@BornAgain_VERSION_MINOR@.@BornAgain_VERSION_PATCH@}