Initial commit

.gitignore

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+## Core latex/pdflatex auxiliary files:
+*.aux
+*.lof
+*.log
+*.lot
+*.fls
+*.out
+*.toc
+*.fmt
+*.fot
+*.cb
+*.cb2
+.*.lb
+
+## Intermediate documents:
+*.dvi
+*.xdv
+*-converted-to.*
+# these rules might exclude image files for figures etc.
+*.ps
+*.eps
+*.pdf
+
+## Generated if empty string is given at "Please type another file name for output:"
+.pdf
+
+## Bibliography auxiliary files (bibtex/biblatex/biber):
+*.bbl
+*.bbl-SAVE-ERROR
+*.bcf
+*.bcf-SAVE-ERROR
+*.blg
+*-blx.aux
+*-blx.bib
+*.run.xml
+
+## Build tool auxiliary files:
+*.fdb_latexmk
+*.synctex
+*.synctex(busy)
+*.synctex.gz
+*.synctex.gz(busy)
+*.pdfsync
+*.rubbercache
+rubber.cache
+
+## Build tool directories for auxiliary files
+# latexrun
+latex.out/
+
+## Auxiliary and intermediate files from other packages:
+# algorithms
+*.alg
+*.loa
+
+# achemso
+acs-*.bib
+
+# amsthm
+*.thm
+
+# attachfile2
+*.atfi
+
+# beamer
+*.nav
+*.pre
+*.snm
+*.vrb
+
+# changes
+*.soc
+*.loc
+
+# comment
+*.cut
+
+# context
+*.tuc
+*.tui
+*.tuo
+
+# cprotect
+*.cpt
+
+# elsarticle (documentclass of Elsevier journals)
+*.spl
+
+# endnotes
+*.ent
+
+# fixme
+*.lox
+
+# feynmf/feynmp
+*.mf
+*.mp
+*.t[1-9]
+*.t[1-9][0-9]
+*.tfm
+
+#(r)(e)ledmac/(r)(e)ledpar
+*.end
+*.?end
+*.[1-9]
+*.[1-9][0-9]
+*.[1-9][0-9][0-9]
+*.[1-9]R
+*.[1-9][0-9]R
+*.[1-9][0-9][0-9]R
+*.eledsec[1-9]
+*.eledsec[1-9]R
+*.eledsec[1-9][0-9]
+*.eledsec[1-9][0-9]R
+*.eledsec[1-9][0-9][0-9]
+*.eledsec[1-9][0-9][0-9]R
+
+# glossaries
+*.acn
+*.acr
+*.glg
+*.glg-abr
+*.glo
+*.glo-abr
+*.gls
+*.gls-abr
+*.glsdefs
+*.lzo
+*.lzs
+*.slg
+*.slo
+*.sls
+
+# uncomment this for glossaries-extra (will ignore makeindex's style files!)
+# *.ist
+
+# gnuplot
+*.gnuplot
+*.table
+
+# gnuplottex
+*-gnuplottex-*
+
+# gregoriotex
+*.gaux
+*.glog
+*.gtex
+
+# htlatex
+*.4ct
+*.4tc
+*.idv
+*.lg
+*.trc
+*.xref
+
+# hypdoc
+*.hd
+
+# hyperref
+*.brf
+
+# knitr
+*-concordance.tex
+# TODO Uncomment the next line if you use knitr and want to ignore its generated tikz files
+# *.tikz
+*-tikzDictionary
+
+# latexindent will create succesive backup files by default
+#*.bak*
+
+# listings
+*.lol
+
+# luatexja-ruby
+*.ltjruby
+
+# makeidx
+*.idx
+*.ilg
+*.ind
+
+# minitoc
+*.maf
+*.mlf
+*.mlt
+*.mtc[0-9]*
+*.slf[0-9]*
+*.slt[0-9]*
+*.stc[0-9]*
+
+# minted
+_minted*
+*.data.minted
+*.pyg
+
+# morewrites
+*.mw
+
+# newpax
+*.newpax
+
+# nomencl
+*.nlg
+*.nlo
+*.nls
+
+# pax
+*.pax
+
+# pdfpcnotes
+*.pdfpc
+
+# sagetex
+*.sagetex.sage
+*.sagetex.py
+*.sagetex.scmd
+
+# scrwfile
+*.wrt
+
+# spelling
+*.spell.bad
+*.spell.txt
+
+# svg
+svg-inkscape/
+
+# sympy
+*.sout
+*.sympy
+sympy-plots-for-*.tex/
+
+# pdfcomment
+*.upa
+*.upb
+
+# pythontex
+*.pytxcode
+pythontex-files-*/
+
+# tcolorbox
+*.listing
+
+# thmtools
+*.loe
+
+# TikZ & PGF
+*.dpth
+*.md5
+*.auxlock
+
+# titletoc
+*.ptc
+
+# todonotes
+*.tdo
+
+# vhistory
+*.hst
+*.ver
+
+# easy-todo
+*.lod
+
+# xcolor
+*.xcp
+
+# xmpincl
+*.xmpi
+
+# xindy
+*.xdy
+
+# xypic precompiled matrices and outlines
+*.xyc
+*.xyd
+
+# endfloat
+*.ttt
+*.fff
+
+# Latexian
+TSWLatexianTemp*
+
+## Editors:
+# WinEdt
+*.bak
+*.sav
+
+# latexindent.pl
+*.bak[0-9]*
+
+# Texpad
+.texpadtmp
+
+# LyX
+*.lyx~
+
+# Kile
+*.backup
+
+# gummi
+.*.swp
+
+# KBibTeX
+*~[0-9]*
+
+# TeXnicCenter
+*.tps
+
+# auto folder when using emacs and auctex
+./auto/*
+*.el
+
+# expex forward references with \gathertags
+*-tags.tex
+
+# standalone packages
+*.sta
+
+# Makeindex log files
+*.lpz
+
+# xwatermark package
+*.xwm
+
+# REVTeX puts footnotes in the bibliography by default, unless the nofootinbib
+# option is specified. Footnotes are the stored in a file with suffix Notes.bib.
+# Uncomment the next line to have this generated file ignored.
+#*Notes.bib

.latexmkrc

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+#!/usr/bin/env perl
+# ========================================================================
+# Latexmk configuration for dissertation template
+# ========================================================================
+# This file works with both local builds (VimTeX, CLI) and Overleaf.
+# Overleaf automatically detects and uses .latexmkrc files.
+#
+# Usage:
+#   latexmk main.tex          -- build
+#   latexmk -c main.tex       -- clean auxiliary files
+#   latexmk -C main.tex       -- clean everything including PDF
+# ========================================================================
+
+# Use pdflatex by default (change to 'xelatex' or 'lualatex' if needed)
+$pdf_mode = 1;
+
+# Number of compilation passes
+$max_repeat = 5;
+
+# Enable shell escape (needed by some packages)
+$pdflatex = 'pdflatex -shell-escape -interaction=nonstopmode -synctex=1 %O %S';
+
+# BibLaTeX / Biber support
+$biber = 'biber %O %S';
+
+# Glossaries / makeglossaries support
+# This rule runs makeglossaries when .glo or .acn files change
+add_cus_dep('glo', 'gls', 0, 'makeglossaries');
+add_cus_dep('acn', 'acr', 0, 'makeglossaries');
+
+sub makeglossaries {
+    my ($base_name, $path) = fileparse( $_[0] );
+    my @args = ("makeglossaries", "-d", "$path", "$base_name");
+    system @args;
+}
+
+# Custom dependency for nomenclature (if used)
+add_cus_dep('nlo', 'nls', 0, 'makenlo2nls');
+sub makenlo2nls {
+    system("makeindex -s nomencl.ist -o '$_[0].nls' '$_[0].nlo'");
+}
+
+# Output directory for auxiliary files (keeps root clean)
+# Uncomment the next line to use a build directory:
+# $out_dir = 'build';
+
+# PDF viewer settings (for local use)
+# $pdf_previewer = 'start evince';
+
+# Continuous preview mode (run 'latexmk -pvc main.tex')
+# $preview_continuous_mode = 1;