Add org-setup-file that all org file links to

2020-04-17 10:25:44 +02:00
parent a2d2d14ca1
commit f868ad68f0
77 changed files with 3037 additions and 8732 deletions
--- a/org/active_damping_uniaxial.org
+++ b/org/active_damping_uniaxial.org
@@ -1,28 +1,5 @@
 #+TITLE: Active Damping with an uni-axial model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 First, in section [[sec:undamped_system]], we will looked at the undamped system.
--- a/org/compensation_gravity_forces.org
+++ b/org/compensation_gravity_forces.org
@@ -1,28 +1,5 @@
 #+TITLE: Compensating the gravity forces to start at steady state
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 In this file is shown a technique used to compensate the gravity forces at t=0.
--- a/org/control.org
+++ b/org/control.org
@@ -1,28 +1,5 @@
 #+TITLE: Control of the Nano-Active-Stabilization-System
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The system consist of the following inputs and outputs (Figure [[fig:control_architecture_plant]]):
--- a/org/control_active_damping.org
+++ b/org/control_active_damping.org
@@ -1,28 +1,5 @@
 #+TITLE: Active Damping applied on the Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The goal of this file is to study the use of active damping for the control of the NASS.
--- a/org/control_cascade.org
+++ b/org/control_cascade.org
@@ -1,30 +1,5 @@
 #+TITLE: Cascade Control applied on the Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The control architecture we wish here to study is shown in Figure [[fig:cascade_control_architecture]].
--- a/org/control_decentralized.org
+++ b/org/control_decentralized.org
@@ -1,28 +1,5 @@
 #+TITLE: Control in the Frame of the Legs applied on the Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 In this document, we apply some decentralized control to the NASS and see what level of performance can be obtained.
--- a/org/control_force.org
+++ b/org/control_force.org
@@ -1,30 +1,5 @@
 #+TITLE: Force Control applied on the Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 Cascade Control where the inner loop goal is to control the total wrench (forces and torques) applied to the upper part of the nano-hexapod.

--- a/org/control_hac_lac.org
+++ b/org/control_hac_lac.org
@@ -1,32 +1,5 @@
 #+TITLE: HAC-LAC applied on the Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+HTML_MATHJAX: align: center tagside: right font: TeX
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The position $\bm{\mathcal{X}}$ of the Sample with respect to the granite is measured.
--- a/org/control_requirements.org
+++ b/org/control_requirements.org
@@ -1,32 +1,5 @@
 #+TITLE: Control Requirements
-:DRAWER:
-#+STARTUP: overview
-
-#+HTML_MATHJAX: align: center tagside: right font: TeX
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The goal here is to write clear specifications for the NASS.
--- a/org/control_voice_coil.org
+++ b/org/control_voice_coil.org
@@ -1,30 +1,5 @@
 #+TITLE: Control of the NASS with Voice coil actuators
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 * HAC-LAC + Cascade Control Topology
--- a/org/disturbances.org
+++ b/org/disturbances.org
@@ -1,28 +1,5 @@
 #+TITLE: Identification of the disturbances
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 :PROPERTIES:
--- a/org/experiments.org
+++ b/org/experiments.org
@@ -1,28 +1,5 @@
 #+TITLE: Simulation of Scientific Experiments
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 The goal here is to simulate some scientific experiments with the Simscape model when no control is applied to the nano-hexapod.
@@ -299,7 +276,7 @@ And we save the obtained data.

 ** Conclusion
 #+begin_important
-  Error motion is what expected from the disturbance measurements.
+  Here, no vibration is included in the X and Y directions.
 #+end_important

 * Tomography Experiment with Ty raster scans
@@ -320,11 +297,12 @@ We now activate the disturbances.
      'Frz_z', true  ... % Spindle - Z direction
      );
 #+end_src
+
 We initialize the reference path for all the stages.
-The Spindle which is rotating at 60rpm and the translation stage is following a triangular path.
+The Spindle which is rotating at 60rpm and the translation stage not moving as it would take a long time to simulate.
+However, vibrations of the Ty stage are included.
 #+begin_src matlab
-  initializeReferences('Rz_type', 'rotating', 'Rz_period', 1, ...
-                       'Dy_type', 'triangular', 'Dy_amplitude', 5e-3, 'Dy_period', 10);
+  initializeReferences('Rz_type', 'rotating', 'Rz_period', 1);
 #+end_src

 We simulate the model.
@@ -387,13 +365,13 @@ And we save the obtained data.
  xlim([0.5, inf]);
 #+end_src

-#+HEADER: :tangle no :exports results :results none :noweb yes
-#+begin_src matlab :var filepath="figs/exp_scans_rz_dist.pdf" :var figsize="full-tall" :post pdf2svg(file=*this*, ext="png")
-  <<plt-matlab>>
+#+begin_src matlab :tangle no :exports results :results file replace
+exportFig('figs/exp_scans_rz_dist.pdf', 'width', 'full', 'height', 'full')
 #+end_src

-#+NAME: fig:exp_scans_rz_dist
-#+CAPTION: X-Y-Z translations and rotations of the sample w.r.t. the granite when performing tomography experiment and scans with the translation stage at the same time ([[./figs/exp_scans_rz_dist.png][png]], [[./figs/exp_scans_rz_dist.pdf][pdf]])
+#+name: fig:exp_scans_rz_dist
+#+CAPTION: X-Y-Z translations and rotations of the sample w.r.t. the granite when performing tomography experiment and scans with the translation stage at the same time
+#+RESULTS:
 [[file:figs/exp_scans_rz_dist.png]]

 ** Conclusion
--- a/org/functions.org
+++ b/org/functions.org
@@ -1,28 +1,5 @@
 #+TITLE: Matlab Functions used for the NASS Project
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * describeNassSetup
 :PROPERTIES:
--- a/org/identification.org
+++ b/org/identification.org
@@ -1,28 +1,5 @@
 #+TITLE: Identification
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle ../matlab/identification.m
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 The goal here is to tune the Simscape model of the station in order to have a good dynamical representation of the real system.
--- a/org/index.org
+++ b/org/index.org
@@ -1,28 +1,5 @@
 #+TITLE: Simscape Model of the Nano-Active-Stabilization-System
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 Here are links to the documents related to the Simscape model of the Nano-Active-Stabilization-System.

--- a/org/kinematics.org
+++ b/org/kinematics.org
@@ -1,28 +1,5 @@
 #+TITLE: Kinematics of the station
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 In this document, we discuss the way the motion of each stage is defined.
--- a/org/metrology_frame.org
+++ b/org/metrology_frame.org
@@ -1,30 +1,5 @@
 #+TITLE: Study of the Metrology Frame
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Flexibility of the reference mirror
 ** Introduction                                                      :ignore:
--- a/org/motion_force_requirements.org
+++ b/org/motion_force_requirements.org
@@ -1,4 +1,5 @@
 #+TITLE: Motion and Force Requirements for the Nano-Hexapod
+#+SETUPFILE: ./setup/org-setup-file.org

 * Soft Hexapod
 As the nano-hexapod is in series with the other stages, it must apply all the force required to move the sample.
--- a/org/optimal_stiffness_control.org
+++ b/org/optimal_stiffness_control.org
@@ -1,30 +1,5 @@
 #+TITLE: Control of the NASS with optimal stiffness
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:

@@ -1055,7 +1030,7 @@ exportFig('figs/opt_stiff_primary_control_L_cas_tot.pdf', 'width', 'full', 'heig
 Let's now simulate a tomography experiment.
 To do so, we include all disturbances except vibrations of the translation stage.
 #+begin_src matlab
-  initializeDisturbances('Fty_x', false, 'Fty_z', false);
+  initializeDisturbances();
  initializeSimscapeConfiguration('gravity', false);
  initializeLoggingConfiguration('log', 'all');
 #+end_src
@@ -1079,13 +1054,13 @@ And we run the simulation for all three payload Masses.
 #+end_src

 #+begin_src matlab :exports none
-  save('./mat/tomo_exp_hac_dvf.mat', 'hac_dvf_L');
+  save('./mat/tomo_exp_hac_dvf.mat', 'hac_dvf_L', 'Ms');
 #+end_src

 ** Results
 #+begin_src matlab :exports none
-  load('./mat/experiment_tomography.mat', 'tomo_align_dist');
-  load('./mat/tomo_exp_hac_dvf.mat', 'hac_dvf_L');
+  load('./mat/experiment_tomography.mat', 'scans_rz_align_dist');
+  load('./mat/tomo_exp_hac_dvf.mat', 'hac_dvf_L', 'Ms');
 #+end_src

 Let's now see how this controller performs.
@@ -1097,12 +1072,12 @@ Similarly, the Cumulative Amplitude Spectrum is shown in Figure [[fig:opt_stiff_
 Finally, the time domain position error signals are shown in Figure [[fig:opt_stiff_hac_dvf_L_pos_error]].
 #+begin_src matlab :exports none
  n_av = 4;
-  han_win = hanning(ceil(length(simout.Em.En.Data(:,1))/n_av));
+  han_win = hanning(ceil(length(hac_dvf_L{1}.Em.En.Data(:,1))/n_av));

-  t = simout.Em.En.Time;
+  t = hac_dvf_L{1}.Em.En.Time;
  Ts = t(2)-t(1);

-  [pxx_ol, f] = pwelch(tomo_align_dist.Em.En.Data, han_win, [], [], 1/Ts);
+  [pxx_ol, f] = pwelch(scans_rz_align_dist.Em.En.Data, han_win, [], [], 1/Ts);

  pxx_dvf_L = zeros(length(f), 6, length(Ms));
  for i = 1:length(Ms)
@@ -1299,7 +1274,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh
  figure;
  ax1 = subplot(2, 3, 1);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 1), 'k-')
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 1), 'k-')
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
      plot(hac_dvf_L{i}.Em.En.Time, hac_dvf_L{i}.Em.En.Data(:, 1));
@@ -1310,7 +1285,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh

  ax2 = subplot(2, 3, 2);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 2), 'k-')
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 2), 'k-')
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
      plot(hac_dvf_L{i}.Em.En.Time, hac_dvf_L{i}.Em.En.Data(:, 2));
@@ -1321,7 +1296,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh

  ax3 = subplot(2, 3, 3);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 3), 'k-')
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 3), 'k-')
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
      plot(hac_dvf_L{i}.Em.En.Time, hac_dvf_L{i}.Em.En.Data(:, 3));
@@ -1332,7 +1307,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh

  ax4 = subplot(2, 3, 4);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 4), 'k-')
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 4), 'k-')
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
      plot(hac_dvf_L{i}.Em.En.Time, hac_dvf_L{i}.Em.En.Data(:, 4));
@@ -1343,7 +1318,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh

  ax5 = subplot(2, 3, 5);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 5), 'k-')
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 5), 'k-')
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
      plot(hac_dvf_L{i}.Em.En.Time, hac_dvf_L{i}.Em.En.Data(:, 5));
@@ -1354,7 +1329,7 @@ exportFig('figs/opt_stiff_hac_dvf_L_cas_disp_error.pdf', 'width', 'full', 'heigh

  ax6 = subplot(2, 3, 6);
  hold on;
-  plot(tomo_align_dist.Em.En.Time, tomo_align_dist.Em.En.Data(:, 6), 'k-', ...
+  plot(scans_rz_align_dist.Em.En.Time, scans_rz_align_dist.Em.En.Data(:, 6), 'k-', ...
        'DisplayName', '$\mu$-Station');
  for i = 1:length(Ms)
      set(gca,'ColorOrderIndex',i);
--- a/org/optimal_stiffness_disturbances.org
+++ b/org/optimal_stiffness_disturbances.org
@@ -1,30 +1,5 @@
 #+TITLE: Determination of the optimal nano-hexapod's stiffness for reducing the effect of disturbances
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle ../matlab/optimal_stiffness.m
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 In this document is studied how the stiffness of the nano-hexapod will impact the effect of disturbances on the position error of the sample.
--- a/org/positioning_error.org
+++ b/org/positioning_error.org
@@ -1,28 +1,5 @@
 #+TITLE: Computation of the Positioning Error with respect to the nano-hexapod
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 The global measurement and control schematic is shown in figure [[fig:control-schematic-nass]].
--- a/org/setup/org-setup-file.org
+++ b/org/setup/org-setup-file.org
@@ -0,0 +1,36 @@
+#+STARTUP: overview
+
+#+LANGUAGE: en
+#+EMAIL: dehaeze.thomas@gmail.com
+#+AUTHOR: Dehaeze Thomas
+
+#+HTML_LINK_HOME: ./index.html
+#+HTML_LINK_UP: ./index.html
+
+#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="./css/htmlize.css"/>
+#+HTML_HEAD: <link rel="stylesheet" type="text/css" href="./css/readtheorg.css"/>
+#+HTML_HEAD: <script src="./js/jquery.min.js"></script>
+#+HTML_HEAD: <script src="./js/bootstrap.min.js"></script>
+#+HTML_HEAD: <script src="./js/jquery.stickytableheaders.min.js"></script>
+#+HTML_HEAD: <script src="./js/readtheorg.js"></script>
+
+#+PROPERTY: header-args:matlab  :session *MATLAB*
+#+PROPERTY: header-args:matlab+ :comments org
+#+PROPERTY: header-args:matlab+ :results none
+#+PROPERTY: header-args:matlab+ :exports both
+#+PROPERTY: header-args:matlab+ :eval no-export
+#+PROPERTY: header-args:matlab+ :output-dir figs
+#+PROPERTY: header-args:matlab+ :tangle no
+#+PROPERTY: header-args:matlab+ :mkdirp yes
+
+#+PROPERTY: header-args:shell  :eval no-export
+
+#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
+#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
+#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
+#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
+#+PROPERTY: header-args:latex+ :results raw replace :buffer no
+#+PROPERTY: header-args:latex+ :eval no-export
+#+PROPERTY: header-args:latex+ :exports results
+#+PROPERTY: header-args:latex+ :mkdirp yes
+#+PROPERTY: header-args:latex+ :output-dir figs
--- a/org/simscape.org
+++ b/org/simscape.org
@@ -1,28 +1,5 @@
 #+TITLE: Simscape Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 A [[https://.mathworks.com/products/simscape.html][simscape]] model permits to model multi-physics systems.
--- a/org/simscape_subsystems.org
+++ b/org/simscape_subsystems.org
@@ -1,28 +1,5 @@
 #+TITLE: Subsystems used for the Simscape Models
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The full Simscape Model is represented in Figure [[fig:simscape_picture]].
--- a/org/simulink_project.org
+++ b/org/simulink_project.org
@@ -1,28 +1,5 @@
 #+TITLE: Simulink Project for the NASS
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 Simulink Project is used for the study of the NASS using Simscape.

--- a/org/stewart_platform.org
+++ b/org/stewart_platform.org
@@ -1,14 +1,5 @@
 #+TITLE: Stewart Platform - Simscape Model
-:DRAWER:
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :noweb yes
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-#+PROPERTY: header-args:matlab+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                          :ignore:
 Stewart platforms are generated in multiple steps.
--- a/org/uncertainty_experiment.org
+++ b/org/uncertainty_experiment.org
@@ -1,28 +1,5 @@
 #+TITLE: Evaluating the Plant Uncertainty in various experimental conditions
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 The goal of this document is to study how the dynamics of the system is changing with the experimental conditions.
--- a/org/uncertainty_optimal_stiffness.org
+++ b/org/uncertainty_optimal_stiffness.org
@@ -1,28 +1,5 @@
 #+TITLE: Determination of the optimal nano-hexapod's stiffness
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle ../matlab/optimal_stiffness.m
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results raw replace :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports both
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 As shown before, many parameters other than the nano-hexapod itself do influence the plant dynamics:
--- a/org/uncertainty_payload.org
+++ b/org/uncertainty_payload.org
@@ -1,30 +1,5 @@
 #+TITLE: Effect of Uncertainty on the payload's dynamics on the isolation platform dynamics
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
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-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 In this document we will consider an *isolation platform* (e.g. the nano-hexapod) with a *payload* on top (e.g. the the sample to be positioned).
--- a/org/uncertainty_support.org
+++ b/org/uncertainty_support.org
@@ -1,30 +1,5 @@
 #+TITLE: Effect of Uncertainty on the support's dynamics on the isolation platform dynamics
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
-#+PROPERTY: header-args:latex+ :results file raw replace
-#+PROPERTY: header-args:latex+ :buffer no
-#+PROPERTY: header-args:latex+ :eval no-export
-#+PROPERTY: header-args:latex+ :exports results
-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-#+PROPERTY: header-args:latex+ :post pdf2svg(file=*this*, ext="png")
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                        :ignore:
 In this document we will consider an *isolation platform* (e.g. the nano-hexapod) on top of a *flexible support* (e.g. the micro-station).
--- a/org/uniaxial.org
+++ b/org/uniaxial.org
@@ -1,28 +1,5 @@
 #+TITLE: Simscape Uniaxial Model
-:DRAWER:
-#+STARTUP: overview
-
-#+PROPERTY: header-args:matlab  :session *MATLAB*
-#+PROPERTY: header-args:matlab+ :comments org
-#+PROPERTY: header-args:matlab+ :results none
-#+PROPERTY: header-args:matlab+ :exports both
-#+PROPERTY: header-args:matlab+ :eval no-export
-#+PROPERTY: header-args:matlab+ :output-dir figs
-#+PROPERTY: header-args:matlab+ :tangle no
-#+PROPERTY: header-args:matlab+ :mkdirp yes
-
-#+PROPERTY: header-args:shell  :eval no-export
-
-#+PROPERTY: header-args:latex  :headers '("\\usepackage{tikz}" "\\usepackage{import}" "\\import{$HOME/Cloud/thesis/latex/org/}{config.tex}")
-#+PROPERTY: header-args:latex+ :imagemagick t :fit yes
-#+PROPERTY: header-args:latex+ :iminoptions -scale 100% -density 150
-#+PROPERTY: header-args:latex+ :imoutoptions -quality 100
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-#+PROPERTY: header-args:latex+ :eval no-export
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-#+PROPERTY: header-args:latex+ :mkdirp yes
-#+PROPERTY: header-args:latex+ :output-dir figs
-:END:
+#+SETUPFILE: ./setup/org-setup-file.org

 * Introduction                                                       :ignore:
 The idea is to use the same model as the full Simscape Model but to restrict the motion only in the vertical direction.