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126 lines
4.0 KiB
Bash
126 lines
4.0 KiB
Bash
#!/usr/bin/env bash
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# GPL3 2023 solarchemist
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set -euo pipefail
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usage() {
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cat <<EOF
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Usage: $(basename "${BASH_SOURCE[0]}") <flags>
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Compiles Markdown manuscript and SI to PDF, and optionally converts to HTML,
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ODT, or DOCX.
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Available flags:
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+ --help --> display this usage guide
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+ --convert-all --> convert to HTML, ODT, or other formats
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+ --convert-html --> convert to HTML
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EOF
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exit
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}
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msg() {
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echo >&2 -e "${1-}"
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}
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# Examples:
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# die "some message"
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# die "some message and wait 6 seconds before exiting" 6
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# die "some message and exit immediately" 0
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die() {
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local msg=$1
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msg "$msg"
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# short delay to aid reading last message in case terminal closes on exit
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# if $2 was provided, set it as delay
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# if $2 is unset or null, use a 3 second delay
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simpledelay.sh ${2:-3}
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exit 0
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}
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parse_params() {
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while :; do
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case "${1-}" in
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-h | --help) usage ;;
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-v | --verbose) set -x ;;
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--convert-all) convert_formats=true ;;
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--convert-html) convert_html=true ;;
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-?*) die "Unknown option: $1" ;;
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*) break ;;
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esac
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shift
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done
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return 0
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}
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convert_formats=false
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convert_html=false
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parse_params "$@"
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# note the colons (same function as in $PATH), they are important
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export TEXINPUTS=.:${PWD}/templates/:
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# these are indexed bash arrays
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# https://www.cyberciti.biz/faq/bash-for-loop-array/
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declare -a MANUSCRIPT_SOURCES=("paper" "si")
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declare -a MANUSCRIPT_TEMPLATES=("templates/wiley.latex" "templates/wiley-si.latex")
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# these are just strings
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BIBLIOGRAPHIES="--bibliography ./refmngr/zotero.bib --bibliography ./references.bib"
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PANDOC=pandoc
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LATEXMK=latexmk
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bibtex_zotero="/media/bay/taha/chepec/literature/_refmngr/_bibrep/library.bib"
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if [ -f "$bibtex_zotero" ]; then
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msg "Updating the local copy of Zotero library.bib"
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cp $bibtex_zotero ./refmngr/zotero.bib
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fi
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# for some reason, *.aux file is messing up the subsequent run (but not the first run):
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# /paper.aux:224: Undefined control sequence. l.224 \BibFileName[0]{paper.html}
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rm -f *.aux
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# note the exclamation mark in the for loop variable, makes it the loop index
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# https://stackoverflow.com/a/51794732/1198249
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for M in "${!MANUSCRIPT_SOURCES[@]}"; do
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# manuscript value in current loop
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manuscript="${MANUSCRIPT_SOURCES[M]}"
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# template value in current loop
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template="${MANUSCRIPT_TEMPLATES[M]}"
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# The --biblatex option is not for use with the --citeproc option or with PDF output
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# https://pandoc.org/MANUAL.html#citation-rendering
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msg "pandoc $manuscript.md to TeX"
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# https://unix.stackexchange.com/questions/278502/accessing-array-index-variable-from-bash-shell-script-loop
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$PANDOC --standalone --biblatex $manuscript.md -o $manuscript.tex --template $template $BIBLIOGRAPHIES
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msg "latexmk $manuscript.tex to PDF"
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$LATEXMK -bibtex -pdf $manuscript
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if [[ $convert_formats == "true" || $convert_html == "true" ]]; then
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# TeX to HTML
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# successfully produces HTML but after lots of error-like warnings and non-zero exit
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msg "Converting $manuscript.tex to HTML"
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# this command creates a HTML file as expected, but returns a non-zero exit code
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# which causes this script to exit immediately afterwards. Circumvented by "|| true"
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# --output-dir works, but also produces all the auxiliary files in the root (very weird)
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make4ht --format html5 $manuscript.tex || true
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fi
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if [[ $convert_formats == "true" ]]; then
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# ODT is not too bad, better than html -> docx using pandoc
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# pandoc cannot find figures or images, paths must be messed up...
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msg "Converting $manuscript.html to ODT"
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pandoc -s $manuscript.html -o $manuscript.odt
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msg "Converting $manuscript.html to DOCX"
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pandoc -s $manuscript.html -o $manuscript.docx
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# to also convert to to DOC, consider abiword (works but produces broken equations and tables)
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# https://stackoverflow.com/a/8384078/1198249
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# if you want this, please run it on a workstation, not luxor
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# (abiword is installed on workstations)
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# abiword --to=doc $manuscript.odt
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fi
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done
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exit 0
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