init: Thesis repository.
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GPG Key ID:
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[*]
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end_of_line = lf
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insert_final_newline = true
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charset = utf-8
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indent_style = tab
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indent_size = 4
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trim_trailing_whitespace = false
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[*.yml]
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indent_style = space
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# Binary
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*.pdf filter=lfs diff=lfs merge=lfs -text
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*.odt filter=lfs diff=lfs merge=lfs -text
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*.doc filter=lfs diff=lfs merge=lfs -text
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# Image
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*.jpg filter=lfs diff=lfs merge=lfs -text
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*.jpeg filter=lfs diff=lfs merge=lfs -text
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*.png filter=lfs diff=lfs merge=lfs -text
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*.gif filter=lfs diff=lfs merge=lfs -text
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*.psd filter=lfs diff=lfs merge=lfs -text
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*.ai filter=lfs diff=lfs merge=lfs -text
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*.exr filter=lfs diff=lfs merge=lfs -text
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*.tga filter=lfs diff=lfs merge=lfs -text
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*.aif filter=lfs diff=lfs merge=lfs -text
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*.ttf filter=lfs diff=lfs merge=lfs -text
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# Audio
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*.mp3 filter=lfs diff=lfs merge=lfs -text
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*.wav filter=lfs diff=lfs merge=lfs -text
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*.ogg filter=lfs diff=lfs merge=lfs -text
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# Video
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*.mp4 filter=lfs diff=lfs merge=lfs -text
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*.mov filter=lfs diff=lfs merge=lfs -text
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# 3D Object
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*.fbx filter=lfs diff=lfs merge=lfs -text
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*.blend filter=lfs diff=lfs merge=lfs -text
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*.obj filter=lfs diff=lfs merge=lfs -text
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# Library
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*.dll filter=lfs diff=lfs merge=lfs -text
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# Archive
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*.a filter=lfs diff=lfs merge=lfs -text
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*.zip filter=lfs diff=lfs merge=lfs -text
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*.mat filter=lfs diff=lfs merge=lfs -text
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####################
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# - Standard Ignores
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####################
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dev
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####################
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# - LaTeX Ignores (https://github.com/github/gitignore/blob/master/TeX.gitignore)
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####################
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## Output Ignores
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notes_[1-9].pdf
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proj_[1-9].pdf
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hw_[1-9].pdf
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notes_[1-9][1-9].pdf
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proj_[1-9][1-9].pdf
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hw_[1-9][1-9].pdf
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## Core latex/pdflatex auxiliary files:
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*.aux
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*.lof
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*.log
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*.lot
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*.fls
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*.out
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*.toc
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*.fmt
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*.fot
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*.cb
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*.cb2
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.*.lb
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## Intermediate documents:
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*.dvi
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*.xdv
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*-converted-to.*
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## Generated if empty string is given at "Please type another file name for output:"
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.pdf
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## Bibliography auxiliary files (bibtex/biblatex/biber):
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*.bbl
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*.bcf
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*.blg
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*-blx.aux
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*-blx.bib
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*.run.xml
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## Build tool auxiliary files:
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*.fdb_latexmk
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*.synctex
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*.synctex(busy)
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*.synctex.gz
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*.synctex.gz(busy)
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*.pdfsync
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## Build tool directories for auxiliary files
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# latexrun
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latex.out/
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## Auxiliary and intermediate files from other packages:
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# algorithms
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*.alg
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*.loa
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# achemso
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acs-*.bib
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# amsthm
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*.thm
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# beamer
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*.nav
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*.pre
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*.snm
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*.vrb
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# changes
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*.soc
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# comment
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*.cut
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# cprotect
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*.cpt
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# elsarticle (documentclass of Elsevier journals)
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*.spl
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# endnotes
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*.ent
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# fixme
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*.lox
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# feynmf/feynmp
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*.mf
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*.mp
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*.t[1-9]
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*.t[1-9][0-9]
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*.tfm
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#(r)(e)ledmac/(r)(e)ledpar
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*.end
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*.?end
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*.[1-9]
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*.[1-9][0-9]
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*.[1-9][0-9][0-9]
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*.[1-9]R
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*.[1-9][0-9]R
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*.[1-9][0-9][0-9]R
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*.eledsec[1-9]
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*.eledsec[1-9]R
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*.eledsec[1-9][0-9]
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*.eledsec[1-9][0-9]R
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*.eledsec[1-9][0-9][0-9]
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*.eledsec[1-9][0-9][0-9]R
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# glossaries
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*.acn
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*.acr
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*.glg
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*.glo
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*.gls
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*.glsdefs
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*.lzo
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*.lzs
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# uncomment this for glossaries-extra (will ignore makeindex's style files!)
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# *.ist
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# gnuplottex
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*-gnuplottex-*
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# gregoriotex
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*.gaux
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*.gtex
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# htlatex
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*.4ct
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*.4tc
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*.idv
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*.lg
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*.trc
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*.xref
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# hyperref
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*.brf
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# knitr
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*-concordance.tex
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# TODO Uncomment the next line if you use knitr and want to ignore its generated tikz files
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# *.tikz
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*-tikzDictionary
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# listings
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*.lol
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# luatexja-ruby
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*.ltjruby
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# makeidx
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*.idx
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*.ilg
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*.ind
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# minitoc
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*.maf
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*.mlf
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*.mlt
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*.mtc
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*.mtc[0-9]*
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*.slf[0-9]*
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*.slt[0-9]*
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*.stc[0-9]*
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# minted
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_minted*
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*.pyg
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# morewrites
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*.mw
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# nomencl
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*.nlg
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*.nlo
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*.nls
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# pax
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*.pax
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||||
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# pdfpcnotes
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*.pdfpc
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# sagetex
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*.sagetex.sage
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*.sagetex.py
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*.sagetex.scmd
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# scrwfile
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*.wrt
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# sympy
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*.sout
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*.sympy
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sympy-plots-for-*.tex/
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# pdfcomment
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*.upa
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*.upb
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# pythontex
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*.pytxcode
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pythontex-files-*/
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# tcolorbox
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*.listing
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# thmtools
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*.loe
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# TikZ & PGF
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*.dpth
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*.md5
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*.auxlock
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# todonotes
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||||
*.tdo
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# vhistory
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*.hst
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*.ver
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||||
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# easy-todo
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||||
*.lod
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||||
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||||
# xcolor
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||||
*.xcp
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||||
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||||
# xmpincl
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||||
*.xmpi
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||||
# xindy
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||||
*.xdy
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# xypic precompiled matrices and outlines
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*.xyc
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*.xyd
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# endfloat
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*.ttt
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*.fff
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# Latexian
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TSWLatexianTemp*
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## Editors:
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# WinEdt
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*.bak
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*.sav
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# Texpad
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.texpadtmp
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# LyX
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*.lyx~
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# Kile
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*.backup
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# gummi
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.*.swp
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# KBibTeX
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*~[0-9]*
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# TeXnicCenter
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*.tps
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# auto folder when using emacs and auctex
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||||
./auto/*
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*.el
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||||
# expex forward references with \gathertags
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||||
*-tags.tex
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||||
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||||
# standalone packages
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||||
*.sta
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||||
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||||
# Makeindex log files
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||||
*.lpz
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||||
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||||
# xwatermark package
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||||
*.xwm
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||||
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# REVTeX puts footnotes in the bibliography by default, unless the nofootinbib
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# option is specified. Footnotes are the stored in a file with suffix Notes.bib.
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# Uncomment the next line to have this generated file ignored.
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#*Notes.bib
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@ -0,0 +1,2 @@
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fem
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chiroptics
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@ -0,0 +1,137 @@
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# Articles
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||||
## Wave Optics
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Fourier Modal Method:
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- <https://github.com/facebookresearch/fmmax>
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## FDTD
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||||
<https://github.com/flaport/fdtd>
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||||
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||||
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## Maxwell-Bloch
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<https://maxwellbloch.readthedocs.io/en/stable/>
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||||
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||||
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||||
## Diffraction
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||||
<https://rafael-fuente.github.io/simulating-diffraction-patterns-with-the-angular-spectrum-method-and-python.html>
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||||
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||||
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||||
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||||
## Chiroptical Properties
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**Chiroptical Properties Overview**
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||||
- <https://www.nature.com/articles/s41377-020-00367-8>
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- *Also PDF*.
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Circular Dichroism Spectroscopy
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- <https://chem.libretexts.org/Bookshelves/Analytical_Chemistry/Physical_Methods_in_Chemistry_and_Nano_Science_(Barron)/07%3A_Molecular_and_Solid_State_Structure/7.07%3A_Circular_Dichroism_Spectroscopy_and_its_Application_for_Determination_of_Secondary_Structure_of_Optically_Active_Species>
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Absolute Configuration
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- Spatial arrangement of atoms within a chiral molecular entity
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- <https://en.wikipedia.org/wiki/Absolute_configuration>
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Optical Rotary Dispersion
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- Variation in the optical rotation of a substance with a change in the wavelength of light.
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- <https://en.wikipedia.org/wiki/Optical_rotatory_dispersion>
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## Molecular Dynamics related to Varying Chiral Responses to EM Fields
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Perspectives on external electric fields in molecular simulation: progress, prospects and challenges
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- General overview of molecular simulation type stuff.
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- Brings me to *English et al.* article.
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- <https://pubs.rsc.org/en/content/articlehtml/2015/cp/c5cp00629e#cit62>
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Coupling of translational and rotational motion in chiral liquids in electromagnetic and circularly polarised electric fields
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- <https://pubmed.ncbi.nlm.nih.gov/22401453/>
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## General PDE Learning
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Intro to Maxwell PDE Solutions
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- Slides: <https://cmpp.readthedocs.io/en/latest/_static/lec3-2021.pdf>
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## FEM Tool Aggregators
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||||
Resume of This Guy:
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||||
- <https://mbarzegary.github.io/whatiuse/>
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Blog Post of This Guy:
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||||
- <https://www.matecdev.com/posts/differences-fdtd-fem-mom.html>
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Differentiable Solvers (fluid-focused):
|
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- <https://danmackinlay.name/notebook/pde_solvers_diff.html#phiflow>
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Survey of Julia-Based PDE Solvers:
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- <https://github.com/JuliaPDE/SurveyofPDEPackages>
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## Geometry Tools
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pygmsh
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- Nice abstraction on top of `gmsh`.
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- PyPi: <https://pypi.org/project/pygmsh/>
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## FEM Learning
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Wikipedia: <https://en.wikipedia.org/wiki/Finite_element_method>
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Finite Element Encyclopedia
|
||||
- Home: <https://defelement.com/>
|
||||
- Nedelec: <https://defelement.com/elements/nedelec1.html>
|
||||
|
||||
Introduction to FEM for Maxwell
|
||||
- <https://www.math.uci.edu/~chenlong/226/FEMMaxwell.pdf>
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## FEM Solvers
|
||||
COMSOL
|
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- **NOT Open Source**. Pedatory license.
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||||
- General-purpose PDE solver.
|
||||
- Limited Python Interface: <https://mph.readthedocs.io/en/stable/installation.html>
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||||
|
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FEniCS
|
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- **NO GPU**
|
||||
- Extremely advanced Python muliphysics solver.
|
||||
- Project: <https://fenicsproject.org/>
|
||||
- Sphere EM Scattering: <https://docs.fenicsproject.org/dolfinx/v0.7.2/python/demos/demo_axis.html>
|
||||
- Finite Elements for Maxwell Solvers: <https://fenicsproject.org/olddocs/dolfin/2018.1.0/python/demos/maxwell-eigenvalues/demo_maxwell-eigenvalues.py.html>
|
||||
- Maxwell Eigenvalue FEM Solver: <https://github.com/gamstc/fenics_maxwell/blob/master/maxwell_eigs_simple.py>
|
||||
- JAX Integration for Autograd: <https://github.com/IvanYashchuk/jax-fenics>
|
||||
- Tutorial: <https://jsdokken.com/dolfinx-tutorial/chapter3/em.html>
|
||||
- Multiphysics Models in FEniCS: <https://www.sciencedirect.com/science/article/pii/S266709922300004X#sec0020>
|
||||
- Gallery of FEM Solvers: <https://fenicsproject.org/pub/tutorial/sphinx1/._ftut1004.html>
|
||||
- The FEniCS Tutorial Volume 1: <https://fenicsproject.org/pub/tutorial/sphinx1/>
|
||||
|
||||
FreeFEM:
|
||||
- Domain-specific C++-like language
|
||||
- Documentation: <https://doc.freefem.org/introduction/index.html>
|
||||
- <https://freefem.org/>
|
||||
|
||||
Elmer:
|
||||
- Project: <https://www.elmerfem.org/blog/>
|
||||
- Models: <https://www.nic.funet.fi/pub/sci/physics/elmer/doc/ElmerModelsManual.pdf>
|
||||
- Python Interface: <https://pypi.org/project/pyelmer/>
|
||||
- Docker: <https://hub.docker.com/r/nwrichmond/elmerice/>
|
||||
|
||||
jax-fem:
|
||||
- Doesn't seem to do much (if any) wave stuff.
|
||||
- Repo: <https://github.com/tianjuxue/jax-fem>
|
||||
- Paper: <https://www.sciencedirect.com/science/article/pii/S0010465523001479#kws0010>
|
||||
- Sister Project for Additive Manufacturing: <https://github.com/tianjuxue/jax-am>
|
||||
|
||||
deal.II:
|
||||
- A crazy C++ library.
|
||||
- <https://www.dealii.org/>
|
||||
|
||||
## Julia FEM Solvers
|
||||
BEAST:
|
||||
- <https://github.com/krcools/BEAST.jl>
|
||||
|
||||
## FEM Fluid Solvers
|
||||
<https://github.com/tum-pbs/PhiFlow>
|
||||
|
||||
## FEM Theory
|
||||
Matrix-Free FEM Solver
|
||||
- Paper: <https://www.iitg.ac.in/dsharma/papers/journal/2020_EBE_SYM_FEA.pdf>
|
||||
|
||||
## Topological Optimization
|
||||
FreeFEM-based Topology Optimization
|
||||
- Paper: <https://link.springer.com/article/10.1007/s00158-023-03529-5#Sec7>
|
||||
Loading…
Reference in New Issue