diff --git a/manuscript.md b/manuscript.md
index 146a419..711c493 100644
--- a/manuscript.md
+++ b/manuscript.md
@@ -11,17 +11,17 @@ author:
     affiliation: "My Other City University"
     address: "Hokanomachi, Orenoshi, Orenoken, Japan"
 email: "xxx@myuni.ac.jp"
-titleSmall: "Paperlighter Example"
-authorSmall: "Author One et.al."
-linkDir: |
+titleshort: "Paperlighter Example"
+authorshort: "Author One et.al."
+linkDir:
   - Figure
   - Output
-appendix: |
+appendix:
   - appendix/1
   - appendix/2
 abstract:
-    Using \LaTeX\{\} to write papers is concise and convenient. However, for
-    writing in life, complicated \LaTeX\{\} style-files (e.g., elegantpaper)
+    Using \LaTeX{} to write papers is concise and convenient. However, for
+    writing in life, complicated \LaTeX{} style-files (e.g., elegantpaper)
     are difficult to access, or submission style-files (e.g., journal or
     conference) are not free indeed. To tackle these problems and satisfy an
     elegant and straightforward scientific writing,
@@ -34,11 +34,11 @@ abstract:
 ---
 
 
-# Format of the Paperlighter}
+# Format of the Paperlighter
 
 Format of paperlighter is defined in this section.
 
-## Dimensions}\label{dimensions}}
+## Dimensions
 
 The text of the paper has an overall width of
 6.75\textasciitilde{}inches, and height of 9.0\textasciitilde{}inches.
@@ -51,7 +51,7 @@ The paper body should be set in 10\textasciitilde{}point type with a
 vertical spacing of 11\textasciitilde{}points. Please use Times typeface
 throughout the text.
 
-## Title}\label{title}}
+## Title
 
 The paper title should be set in 14\textasciitilde{}point bold type and
 centered between two horizontal rules that are 1\textasciitilde{}point
@@ -67,7 +67,7 @@ used to produce this document for an example usage.) The author
 information will not be printed unless \texttt{accepted} is passed as an
 argument to the style file.
 
-## Abstract}\label{abstract}}
+## Abstract
 
 The paper abstract should begin in the left column,
 0.4\textasciitilde{}inches below the final address. The heading
@@ -318,139 +318,3 @@ Typically, this will include thanks to colleagues who contributed to the
 ideas, and to funding agencies and corporate sponsors that provided
 financial support.
 
-<!--
-# Basic properties of protein and nucleic acids
-## Basic principle of protein
-### Unit structure of protein
-There are 4 levels of protein organization:
-
-* Primary structure \
-  It consists of a chain arrangement/sequence of amino acids that are joined together to make protein. It usually uses abbreviations for the amino and residues. The example in figure (1) is Polypeptide amino.
-
-* Secondary structure \
-  This is the region within the long protein chains organized into regular structures known as alpha-helices ($\alpha$-helices) and beta sheet.
-
-* Tertiary structure \
-  Tertiary structure is a description of the way that whole chain from one or several units folds and forms 3-dimensional shape, called domain.
-
-* Fourth order structure \
-  This structure is formed from several tertiary structure proteins or domains with more complex shape.
-
-![Structure of protein](./Figures/Figure1)
--->
-
-<!--
-\begin{figure}[h!]
-  \centering
-  \includegraphics[width=0.7\linewidth]{Figure1}
-  \caption{Structure of protein}
-  \label{fig:figure1}
-\end{figure}
--->
-<!--
-### Basic motif of protein
-There are two types of secondary structure for hydrophobic type:
-
-* $\alpha$-helix\
-  This is one of common motif in secondary structure of protein. It consists of hydrogen bond with conformation of N-H group donates a hydrogen bond to the C=O group of amino acid. This structure has small Coulomb interaction in hydrogen bond and has dipole moment.
-
-* $\beta$ sheet\
-  Beta sheet is also one of common motif in protein, consist of $\beta$ strands connected hydrogen bonds, forming a generally twisted and pleated sheet.
-
-![Secondary alpha-helix and beta sheet structures](./Figures/Alpha_beta_structure_full)
--->
-
-<!--
-\begin{figure}[h!]
-  \centering
-  \includegraphics[width=0.7\linewidth]{Alpha_beta_structure_(full)}
-  \caption{Secondary alpha-helix and beta sheet structures}
-  \label{fig:alphabetastructurefull}
-\end{figure}
--->
-
-<!--
-## Structure of nucleic acid, DNA and protein
-
-###  3 structures of DNA:
-  DNA has 3 conformation that include A-DNA, B-DNA, and Z-DNA forms
-
-* A-DNA, has same periodic double helical structure\
-* B-DNA, slightly similar to A-DNA, but with longer and less compact than A-DNA\
-* Z-DNA, has double helical structure which the helix winds to the left in a zigzag pattern.
-
-![3 types of DNA conformations: A-DNA, B-DNA, and Z-DNA](./Figures/Dnaconformations)
--->
-<!--
-\begin{figure}[h!]
-  \centering
-  \includegraphics[width=0.4\linewidth]{Dnaconformations}
-  \caption{3 types of DNA conformations: A-DNA, B-DNA, and Z-DNA}
-  \label{fig:dnaconformations}
-\end{figure}
--->
-<!--
-# Lipid and membrane protein
-  Membrane is a function of protein that divides the biological cell into inside and outside part.
-  Functions of lipid bilayer are formation of boundary, permeability, and domain formation.
-  Lipids are divided into 2 types, hydrophobic and amphiphilic molecule. \
-
-##  Phospholipid
-  This is one kind of lipid which is a major component in all cell membranes.
-  Phospholipids can form lipid bilayers because of their amphiphilic characteristic.
-  There are 3 kinds of self-assemble and conformation of phospholipid:
-
-* Spherical liposome\
-* Bilayer\
-* Micelle\
-  Micelles and bilayers form in the polar medium by a process of hydrophobic effect.
-
-![Self-organization of phospholipids: a spherical liposome, a micelle, and a lipid bilayer.](./Figures/phospholipid)
--->
-<!--
-  \begin{figure}[h!]
-    \centering
-    \includegraphics[width=0.5\linewidth]{phospholipid}
-    \caption{Self-organization of phospholipids: a spherical liposome, a micelle, and a lipid bilayer.}
-    \label{fig:phospholipid}
-  \end{figure}
--->
-
-<!--
-# Molecular dynamics simulation
-## Simulation (Computational science)
-  Simulation is the one that connect the theory and experiment in science.
-  When the theory contributes in analysis and prediction, and experiments are contributing in confirming the theory and developing, simulation takes part in calculation in advanced theoretical and virtual simulation experiment.
-  Simulation is using the computer to do things, such as reproduce, understand, and predict the theory and also the experiment.
-  Simulation is applied in many fields, such as science, pharmacy, climate, earthquake, finance and social, and many other things.
-
-## Supercomputer\
-  Supercomputer is a computer with high level of performance.
-  One of the biggest supercomputer in Japan is K Computer, located in Kobe, is having 705,024 cores and 10.510 PFlops (floating-point operations per second).
-  Supercomputer is practically used in computational science, such as biological, material, earth, and fundamental physical sciences.
-  Also, supercomputer is used in simulation of next-generation technology.
-
-## Computational science in biology\
-  Computational science is usually used in exploring phenomena in biological system; substances, structure and functions of proteins, membranes, and enzymes, energy and chemical reaction, and signal transduction.
-  These can be modeled using molecular dynamics (MD) simulation.
-  The fundamental parts in MD are analytical mechanics (Newton's equation), Schrodinger's equation in quantum mechanics, statistical mechanics, and electromagnetization principle.
-
-
-###  _Brownian Dynamics_
-  Brownian dynamics describes the physical phenomena of zig-zag motion of particle. The motion is arising from collision between the particles. This motion resulted diffusion equation that obeys the law of mass conservation, formulated in the equation:
-  \begin{equation}
-    \frac{\partial \rho (x,t)}{\partial t} = -\frac{\partial J(x,t)}{\partial x}
-  \end{equation}
-  where $\rho (x,t)$ is density of material and $J (x,t)$ is flux, the rate of flow.
-
-###  _Langevin Equation_
-  This equation describes the \textit{Brownian motion} that uses Newton's equation of motion and degree of freedom. $\varrho$ is denoted as the friction coefficient.
-  \begin{equation}
-    m\frac{d^2 x}{d t^2} = F - \varrho \frac{dx}{dt} + \xi (t)
-  \end{equation}
-
-###  Einstein's relational expression:
-  \begin{equation}
-    D=\frac{k_BT}{\varrho}
-  \end{equation}
--->