Comment out response to reviewers

.gitmodules

@@ -0,0 +1,3 @@
+[submodule "lib/latex-common"]
+	path = lib/latex-common
+	url = ssh://git@git.mercurial-manifold.eu:2224/an.tsouchlos/latex-common.git

.latexmkrc

@@ -1,2 +1,3 @@
 $pdflatex="pdflatex -shell-escape -interaction=nonstopmode -synctex=1 %O %S";
 $out_dir = 'build';
+$pdf_mode = 1;

Makefile

@@ -0,0 +1,11 @@
+all: build_folder letter.pdf
+
+build_folder:
+	mkdir -p build/build
+
+letter.pdf: letter.tex
+	latexmk -pdf letter.tex
+
+clean:
+	rm -rf build
+

README.md

@@ -1,2 +1,35 @@
-# ba-letter
+# ba-letter
-
+
+Repository containing the latex source for the bachelor's thesis letter.
+
+After cloning, make sure to initialize the submodules containing the dependencies:
+```bash
+$ git submodule update --init
+```
+
+## Build
+
+### Build on host
+
+For a list of dependencies consult one of the dockerfiles in the `dockerfiles` directory. Build document:
+
+```bash
+$ make
+```
+
+After compiling, the PDF can be found in the `build` directory.
+
+### Build using docker
+
+Be warned that `texlive` installations can take some time.
+Building the docker image may take a few minutes.
+
+1. Build docker image
+    ```bash
+    $ docker build -f dockerfiles/Dockerfile.alpine . -t ba-letter
+    ```
+2. Build document
+    ```bash
+    $ docker run --rm -v $PWD:$PWD -w $PWD -u `id -u`:`id -g` ba-letter make
+    ```
+

common.tex

@@ -1,260 +0,0 @@
-% Author: Andreas Tsouchlos
-%
-% Collection of useful commands and definitions
-%
-% ||====================================================================||
-% ||                               WARNING                              ||
-% ||====================================================================||
-% ||                                                                    ||
-% || The following packages have to be included before using this file: ||
-% ||      amsmath                                                       ||
-% ||      pgfplots                                                      ||
-% ||      caption                                                       ||
-% ||      listings                                                      ||
-% ||====================================================================||
-
-
-%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-% Math Symbols %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-
-
-\DeclareMathOperator*{\argmin}{\arg\!\min}
-\DeclareMathOperator*{\argmax}{\arg\!\max}
-\DeclareMathOperator\sign{sign}
-
-
-%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-% Graphics & Plotting %%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%%
-
-
-%
-% Filters for Pgfplots
-% Source: https://tex.stackexchange.com/a/58563 (modified)
-%
-
-\pgfplotsset{
-    discard if/.style 2 args={
-        x filter/.append code={
-            \edef\tempa{\thisrow{#1}}
-            \edef\tempb{#2}
-            \ifx\tempa\tempb
-                \def\pgfmathresult{inf}
-            \fi
-        }
-    },
-    discard if not/.style 2 args={
-        x filter/.append code={
-            \edef\tempa{\thisrow{#1}}
-            \edef\tempb{#2}
-            \ifx\tempa\tempb
-            \else
-                \def\pgfmathresult{inf}
-            \fi
-        }
-    },
-    discard if gt/.style 2 args={
-        x filter/.append code={
-            \edef\tempa{\thisrow{#1}}
-            \edef\tempb{#2}
-            \ifdim\tempa pt > \tempb pt
-                \def\pgfmathresult{inf}
-            \fi
-        }
-    },
-    discard if lt/.style 2 args={
-        x filter/.append code={
-            \edef\tempa{\thisrow{#1}}
-            \edef\tempb{#2}
-            \ifdim\tempa pt < \tempb pt
-                \def\pgfmathresult{inf}
-            \fi
-        }
-    }
-}
-
-%
-% Styles
-%
-
-
-\pgfplotsset{
-	fancy marks/.style={
-		% TODO
-	}
-}
-
-%
-% Colors
-%
-
-\definecolor{kit-green100}{rgb}{0,.59,.51}
-\definecolor{kit-green70}{rgb}{.3,.71,.65}
-\definecolor{kit-green50}{rgb}{.50,.79,.75}
-\definecolor{kit-green30}{rgb}{.69,.87,.85}
-\definecolor{kit-green15}{rgb}{.85,.93,.93}
-\definecolor{KITgreen}{rgb}{0,.59,.51}
-
-\definecolor{KITpalegreen}{RGB}{130,190,60}
-\colorlet{kit-maigreen100}{KITpalegreen}
-\colorlet{kit-maigreen70}{KITpalegreen!70}
-\colorlet{kit-maigreen50}{KITpalegreen!50}
-\colorlet{kit-maigreen30}{KITpalegreen!30}
-\colorlet{kit-maigreen15}{KITpalegreen!15}
-
-\definecolor{KITblue}{rgb}{.27,.39,.66}
-\definecolor{kit-blue100}{rgb}{.27,.39,.67}
-\definecolor{kit-blue70}{rgb}{.49,.57,.76}
-\definecolor{kit-blue50}{rgb}{.64,.69,.83}
-\definecolor{kit-blue30}{rgb}{.78,.82,.9}
-\definecolor{kit-blue15}{rgb}{.89,.91,.95}
-
-\definecolor{KITyellow}{rgb}{.98,.89,0}
-\definecolor{kit-yellow100}{cmyk}{0,.05,1,0}
-\definecolor{kit-yellow70}{cmyk}{0,.035,.7,0}
-\definecolor{kit-yellow50}{cmyk}{0,.025,.5,0}
-\definecolor{kit-yellow30}{cmyk}{0,.015,.3,0}
-\definecolor{kit-yellow15}{cmyk}{0,.0075,.15,0}
-
-\definecolor{KITorange}{rgb}{.87,.60,.10}
-\definecolor{kit-orange100}{cmyk}{0,.45,1,0}
-\definecolor{kit-orange70}{cmyk}{0,.315,.7,0}
-\definecolor{kit-orange50}{cmyk}{0,.225,.5,0}
-\definecolor{kit-orange30}{cmyk}{0,.135,.3,0}
-\definecolor{kit-orange15}{cmyk}{0,.0675,.15,0}
-
-\definecolor{KITred}{rgb}{.63,.13,.13}
-\definecolor{kit-red100}{cmyk}{.25,1,1,0}
-\definecolor{kit-red70}{cmyk}{.175,.7,.7,0}
-\definecolor{kit-red50}{cmyk}{.125,.5,.5,0}
-\definecolor{kit-red30}{cmyk}{.075,.3,.3,0}
-\definecolor{kit-red15}{cmyk}{.0375,.15,.15,0}
-
-\definecolor{KITpurple}{RGB}{160,0,120}
-\colorlet{kit-purple100}{KITpurple}
-\colorlet{kit-purple70}{KITpurple!70}
-\colorlet{kit-purple50}{KITpurple!50}
-\colorlet{kit-purple30}{KITpurple!30}
-\colorlet{kit-purple15}{KITpurple!15}
-
-\definecolor{KITcyanblue}{RGB}{80,170,230}
-\colorlet{kit-cyanblue100}{KITcyanblue}
-\colorlet{kit-cyanblue70}{KITcyanblue!70}
-\colorlet{kit-cyanblue50}{KITcyanblue!50}
-\colorlet{kit-cyanblue30}{KITcyanblue!30}
-\colorlet{kit-cyanblue15}{KITcyanblue!15}
-
-%
-% Color Schemes
-%
-
-% Define colormaps
-
-\pgfplotsset{
-	colormap={mako}{
-		rgb=(0.18195582, 0.11955283, 0.23136943)
-		rgb=(0.25307401, 0.23772973, 0.48316271)
-		rgb=(0.21607792, 0.39736958, 0.61948028)
-		rgb=(0.20344718, 0.56074869, 0.65649508)
-		rgb=(0.25187832, 0.71827158, 0.67872193)
-		rgb=(0.54578602, 0.8544913, 0.69848331)
-	},
-	colormap={rocket}{
-		rgb=(0.20973515, 0.09747934, 0.24238489)
-		rgb=(0.43860848, 0.12177004, 0.34119475)
-		rgb=(0.67824099, 0.09192342, 0.3504148)
-		rgb=(0.8833417, 0.19830556, 0.26014181)
-		rgb=(0.95381595, 0.46373781, 0.31769923)
-		rgb=(0.96516917, 0.70776351, 0.5606593)
-	},
-	colormap={cividis}{
-		rgb=(0.130669, 0.231458, 0.43284)
-		rgb=(0.298421, 0.332247, 0.423973)
-		rgb=(0.42512, 0.431334, 0.447692)
-		rgb=(0.555393, 0.537807, 0.471147)
-		rgb=(0.695985, 0.648334, 0.440072)
-		rgb=(0.849223, 0.771947, 0.359729)
-	},
-	colormap={cel}{
-		color=(KITred!90!black);
-		color=(kit-blue100);
- 		color=(kit-green70);
-		color=(kit-yellow70!80!kit-orange70);
-	},
-}
-
-% Define cycle lists
-
-\pgfplotscreateplotcyclelist{mako}{%
-	[samples of colormap={4} of mako]%
-}
-\pgfplotscreateplotcyclelist{rocket}{%
-	[samples of colormap={4} of rocket]%
-}
-\pgfplotscreateplotcyclelist{cividis}{%
-	[samples of colormap={4} of cividis]%
-}
-\pgfplotscreateplotcyclelist{viridis}{%
-	[samples of colormap={4} of viridis]%
-}
-\pgfplotscreateplotcyclelist{cel}{%
-	[samples of colormap={4} of cel]%
-}
-
-% Define individual colors
-
-\makeatletter
-
-\def\extractcolormapcolor#1#2{%
-	\expandafter\pgfplotscolormapaccess\expandafter[\pgfplotspointmetatransformedrange]%
-		[1.0]%
-		{#2}%
-		{\pgfkeysvalueof{/pgfplots/colormap name}}%
-	\def\pgfplots@loc@TMPb{\pgfutil@definecolor{#1}{\csname pgfpl@cm@\pgfkeysvalueof{/pgfplots/colormap name}@colspace\endcsname}}%
-	\expandafter\pgfplots@loc@TMPb\expandafter{\pgfmathresult}%
-}%
-
-\def\getcolorbyvalue#1{
-	\csname pgfpl@cm@\pgfkeysvalueof{/pgfplots/colormap name}@colspace\endcsname
-}
-
-\makeatother
-
-\def\setschemecolors{
-	\extractcolormapcolor{scol0}{0}
-	\extractcolormapcolor{scol1}{333}
-	\extractcolormapcolor{scol2}{666}
-	\extractcolormapcolor{scol3}{1000}
-}
-
-% Define color schemes
-
-\pgfplotsset{
-	/pgfplots/colorscheme/mako/.style={
-		colormap name={mako},
-		cycle list name={mako},
-		/utils/exec={\setschemecolors},
-	},
-	/pgfplots/colorscheme/rocket/.style={
-		colormap name={rocket},
-		cycle list name={rocket},
-		/utils/exec={\setschemecolors},
-	},
-	/pgfplots/colorscheme/cividis/.style={
-		colormap name={cividis},
-		cycle list name={cividis},
-		/utils/exec={\setschemecolors},
-	},
-	/pgfplots/colorscheme/viridis/.style={
-		colormap name={viridis},
-		cycle list name={viridis},
-		/utils/exec={\setschemecolors},
-	},
-	/pgfplots/colorscheme/cel/.style={
-		colormap name={cel},
-		cycle list name={cel},
-		/utils/exec={\setschemecolors},
-	},
-}
-

dockerfiles/Dockerfile.alpine

@@ -0,0 +1,14 @@
+FROM alpine:3.19
+
+RUN apk update && apk upgrade
+RUN apk add make texlive texmf-dist-pictures
+RUN apk add texmf-dist-publishers texmf-dist-science texmf-dist-fontsextra texmf-dist-latexextra
+RUN apk add biber texmf-dist-bibtexextra
+
+# The 'bbm' package insists on generating stuff in the home directory. In
+# order to guarantee access to the home directory no matter the user the
+# docker container is run with, create a temporary one anyone can write to
+RUN mkdir /tmp/home
+RUN chmod -R 777 /tmp/home
+ENV HOME=/tmp/home
+

dockerfiles/Dockerfile.arch

@@ -0,0 +1,25 @@
+FROM archlinux:latest
+
+RUN pacman-key --init
+RUN pacman-key --populate archlinux
+RUN pacman -Sy archlinux-keyring --noconfirm && pacman -Su --noconfirm
+
+RUN pacman -Syu --noconfirm
+RUN pacman -S make perl texlive texlive-binextra texlive-pictures --noconfirm
+RUN pacman -S texlive-publishers texlive-mathscience texlive-fontsextra texlive-latexextra --noconfirm
+RUN pacman -Syu biber texlive-bibtexextra --noconfirm
+
+# The 'bbm' package insists on generating stuff in the home directory. In
+# order to guarantee access to the home directory no matter the user the
+# docker container is run with, create a temporary one anyone can write to
+RUN mkdir /tmp/home
+RUN chmod -R 777 /tmp/home
+ENV HOME=/tmp/home
+
+# Generate font necessary for \mathbbm{1}
+RUN mktexpk --mfmode / --bdpi 600 --mag 1+0/600 --dpi 600 bbm10
+RUN chmod -R 777 /tmp/home
+
+# For some reason simply installing 'biber' does not set the path
+ENV PATH="${PATH}:/usr/bin/vendor_perl"
+

dockerfiles/Dockerfile.ubuntu

@@ -0,0 +1,16 @@
+FROM ubuntu:22.04
+
+ARG DEBIAN_FRONTEND=noninteractive
+
+RUN apt update -y && apt upgrade -y
+RUN apt install make texlive latexmk texlive-pictures -y
+RUN apt install texlive-publishers texlive-science texlive-fonts-extra texlive-latex-extra -y
+RUN apt install biber texlive-bibtex-extra -y
+
+# The 'bbm' package insists on generating stuff in the home directory. In
+# order to guarantee access to the home directory no matter the user the
+# docker container is run with, create a temporary one anyone can write to
+RUN mkdir /tmp/home
+RUN chmod -R 777 /tmp/home
+ENV HOME=/tmp/home
+

letter.bib

@@ -0,0 +1,115 @@
+@ARTICLE{ADMM,
+  author={Barman, Siddharth and Liu, Xishuo and Draper, Stark C. and Recht, Benjamin},
+  journal={Trans. Inf. Theory}, 
+  title={Decomposition Methods for Large Scale LP Decoding}, 
+  year={2013},
+  volume={59},
+  number={12},
+  pages={7870-7886},
+%  doi={10.1109/TIT.2013.2281372}
+}
+
+@ARTICLE{feldman_paper,
+  author={Feldman, J. and Wainwright, M.J. and Karger, D.R.},
+  journal={IEEE Trans. Inf. Theory}, 
+  title={Using linear programming to Decode Binary linear codes}, 
+  year={2005},
+  volume={51},
+  number={3},
+  pages={954-972},
+%  doi={10.1109/TIT.2004.842696}
+}
+
+@ARTICLE{ml_in_the_list,
+	author={Geiselhart, Marvin and Elkelesh, Ahmed and Ebada, Moustafa and Cammerer, Sebastian and Brink, Stephan ten},
+	journal={IEEE Trans. Commun.}, 
+	title={Automorphism Ensemble Decoding of Reed–Muller Codes}, 
+	year={2021},
+	volume={69},
+	number={10},
+	pages={6424-6438},
+%	doi={10.1109/TCOMM.2021.3098798}
+}
+
+@ARTICLE{mackay99,
+  author={MacKay, D.J.C.},
+  journal={IEEE Trans. Inf. Theory}, 
+  title={Good error-correcting codes based on very sparse matrices}, 
+  year={1999},
+  volume={45},
+  number={2},
+  pages={399-431},
+%  doi={10.1109/18.748992}
+}
+
+@online{mackay,
+    author = {MacKay, David J.C.},
+    title  = {Encyclopedia of Sparse Graph Codes},
+    date   = {2023-04},
+    url    = {www.inference.org.uk/mackay/codes/data.html}
+}
+
+@book{proximal_algorithms,
+  title={Proximal algorithms},
+  author={Parikh, Neal and Boyd, Stephen and others},
+  journal={Foundations and trends{\textregistered} in Optimization},
+  volume={1},
+  number={3},
+  pages={127--239},
+  year={2014},
+  publisher={Now Publishers, Inc.}
+}
+
+@book{channel_codes_book,
+    place={Cambridge},
+    title={Channel Codes: Classical and Modern},
+%    DOI={10.1017/CBO9780511803253},
+    publisher={Cambridge University Press},
+    author={Ryan, William and Lin, Shu},
+    year={2009},
+%    url={https://d1.amobbs.com/bbs_upload782111/files_35/ourdev_604508GHLFR2.pdf}
+}
+
+@INPROCEEDINGS{adaptive_lp_decoding,
+  author={Taghavi, Mohammad H. and Siegel, Paul H.},
+  booktitle={IEEE Proc. ISIT}, 
+  title={Adaptive Linear Programming Decoding}, 
+  year={2006},
+  volume={},
+  number={},
+  pages={1374-1378},
+%  doi={10.1109/ISIT.2006.262071}
+}
+
+@INPROCEEDINGS{interior_point_decoding,
+  author={Vontobel, Pascal O.},
+  booktitle={Proc. ITA}, 
+  title={Interior-point algorithms for linear-programming decoding}, 
+  year={2008},
+  volume={},
+  number={},
+  pages={433-437},
+%  doi={10.1109/ITA.2008.4601085}
+}
+
+@article{proximal_paper,
+    title={Proximal Decoding for {LDPC} Codes},
+    author={Tadashi Wadayama and Satoshi Takabe},
+    journal={IEICE Transactions on Fundamentals of Electronics, Communications and Computer Sciences},
+%    volume={advpub},
+%    pages={2022TAP0002},
+    year={2022},
+%    doi={10.1587/transfun.2022TAP0002}
+}
+
+@ARTICLE{chase_decoding,
+  author={Chase, D.},
+  journal={IEEE Trans. Inf. Theory}, 
+  title={Class of algorithms for decoding block codes with channel measurement information}, 
+  year={1972},
+ % volume={18},
+ % number={1},
+ % pages={170-182},
+ % keywords={},
+ % doi={10.1109/TIT.1972.1054746}}
+}

res/bp_20433484.csv

@@ -0,0 +1,14 @@
+SNR,FER,BER,num_frame_errors
+1.0, 0.654723127035831   , 0.0888101168806285  , 201
+1.5, 0.392578125000000   , 0.0482345281862745  , 201
+2.0, 0.182561307901907   , 0.0213175188331463  , 201
+2.5, 0.0620753551575046  , 0.00605856919667188 , 201
+3.0, 0.0130012936610608  , 0.00128034396164675 , 201
+3.5, 0.00176298778188070 , 0.000150054320523940, 201
+4.0, 0.000267259157615091, 1.51866607463458e-05, 201
+4.5, 5.33724908622844e-05, 1.98370100658768e-06, 201
+5.0, 1.34177489983751e-05, 3.66497875284852e-07, 201
+5.5, 4.12634778374169e-06, 1.04658123477986e-07, 201
+6.0, 1.08000000000000e-06, 2.41176470588235e-08, 108
+6.5, 3.60000000000000e-07, 8.62745098039216e-09, 36
+

res/p_error.csv

@@ -1,205 +1,205 @@
 index,p_error
-0,6.78e-06
+0,0.001972541
-1,6.68e-06
+1,0.00184933
-2,5.82e-06
+2,0.001619784
-3,1.37e-06
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-4,5.7e-07
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