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ackman678
2021-05-29 08:19:30 -04:00
parent 61cc931e94
commit 3cb839de7a
3 changed files with 37 additions and 37 deletions
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10
reveal.sh
View File

@@ -13,8 +13,7 @@ fi
set -e set -e
# appPath="$HOME/projects/dev/reveal.js" appPath="$HOME/projects/dev/reveal.js"
appPath="$HOME/projects/archive/external/reveal.js"
portNumber=${2:-8000} portNumber=${2:-8000}
if [[ ! -d $appPath ]]; then if [[ ! -d $appPath ]]; then
@@ -25,11 +24,12 @@ else
fi fi
fn=$1 #markdown document to render e.g. neuroanatomy1.md fn=$1 #markdown document to render e.g. neuroanatomy1.md
if [[ ! -e $fn ]]; then basefn=$(basename $fn)
ln -s $fn $(basename $fn) if [[ ! -e $basefn ]]; then
ln -s $fn $basefn
fi fi
#add markdown filename to reveal placeholder start file #add markdown filename to reveal placeholder start file
sed -i -E "s|(<section data-markdown=\")[A-Za-z0-9\.-]*(\" )|\1$fn\2|" index.html sed -i -E "s|(<section data-markdown=\")[A-Za-z0-9\.-]*(\" )|\1$basefn\2|" index.html
npm start -- --port=$portNumber npm start -- --port=$portNumber
# npm start # npm start

60
sbib
View File

@@ -39,47 +39,47 @@ set -e #exit if an error
view_bib() { view_bib() {
# Use fzf to search citation # Use fzf to search citation
# Initial scroll offset is set to the line number of each line # Initial scroll offset is set to the line number of each line
# of git grep output *minus* 5 lines (-5) # of git grep output *minus* 5 lines (-5)
# str=$(cat $fn | fzf) # str=$(cat $fn | fzf)
# str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'nl {1} --body-numbering=a' --preview-window=:up:70%:+{2}-5) # str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'nl {1} --body-numbering=a' --preview-window=:up:70%:+{2}-5)
# str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'less {1}' --preview-window=:up:70%:+{2}-5) # str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'less {1}' --preview-window=:up:70%:+{2}-5)
str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'bat --color=always --style=numbers --line-range=:500 {1}' --preview-window=:up:70%:+{2}-5) str=$(git grep -E --line-number $sPattern $bibdFile | fzf --delimiter : --preview 'bat --color=always --style=numbers --line-range=:500 {1}' --preview-window=:up:70%:+{2}-5)
# extract citation key from the fzf string # extract citation key from the fzf string
citeKey=$(echo $str | sed -E "s|$(basename $bibdFile):[0-9]+:@[a-zA-Z]+\{(.+),|\1|") citeKey=$(echo $str | sed -E "s|$(basename $bibdFile):[0-9]+:@[a-zA-Z]+\{(.+),|\1|")
#method1 #method1
#todo: use json with jq #todo: use json with jq
# outCitation=$(pandoc -f latex <(echo "\cite{$citeKey}") -t plain -o - --bibliography $bibdFile --citeproc --csl $cslFile | tail -n +3) # outCitation=$(pandoc -f latex <(echo "\cite{$citeKey}") -t plain -o - --bibliography $bibdFile --citeproc --csl $cslFile | tail -n +3)
#method2 #method2
#need to use a temporary bib file as input to pandoc because parsing a large bib file is too slow, but json input would be faster #need to use a temporary bib file as input to pandoc because parsing a large bib file is too slow, but json input would be faster
#and because pandoc expects a file input for bibliography #and because pandoc expects a file input for bibliography
tmpName=$(mktemp --suffix=.bib) tmpName=$(mktemp --suffix=.bib)
str3=$(grep -A 30 $citeKey $bibdFile) str3=$(grep -A 30 $citeKey $bibdFile)
echo $str3 | sed -E "s|(.+\} ?\}).+|\1|" > $tmpName echo $str3 | sed -E "s|(.+\} ?\}).+|\1|" > $tmpName
outCitation=$(pandoc -f latex <(echo "\cite{$citeKey}") -t plain -o - --bibliography $tmpName --citeproc --csl $cslFile | tail -n +3) outCitation=$(pandoc -f latex <(echo "\cite{$citeKey}") -t plain -o - --bibliography $tmpName --citeproc --csl $cslFile | tail -n +3)
rm $tmpName rm $tmpName
#tail -n +61 $fn | sed -E "s#(.+\}\})#\1#" #tail -n +61 $fn | sed -E "s#(.+\}\})#\1#"
# fzf --preview="head {}" --preview-window=up:30% # fzf --preview="head {}" --preview-window=up:30%
# fzf --preview="file {}" --preview-window=down:1 # fzf --preview="file {}" --preview-window=down:1
echo $outCitation echo $outCitation
echo $outCitation | wl-copy echo $outCitation | wl-copy
} }
view_json() { view_json() {
# export citeKey=$1 # export citeKey=$1
# doiStr=$(jq -r '.[] | select(.id==env.citeKey).DOI' $bibdFile) # doiStr=$(jq -r '.[] | select(.id==env.citeKey).DOI' $bibdFile)
# urlStr=$(jq -r '.[] | select(.id==env.citeKey).URL' $bibdFile) # urlStr=$(jq -r '.[] | select(.id==env.citeKey).URL' $bibdFile)
#actually this is the good one, opens pdfs quickly #actually this is the good one, opens pdfs quickly
jq -r '.[] | [.id, .title, .abstract, .keyword, .DOI, .PMID, .author[]?.family, .issued[]?[0]?[0], .["container-title"], .URL] | join(" ")' $bibdFile | fzf --preview 'echo {}' --preview-window=:up:70%:wrap --bind "enter:execute-silent(zathura {-1} &)" jq -r '.[] | [.id, .title, .abstract, .keyword, .DOI, .PMID, .author[]?.family, .issued[]?[0]?[0], .["container-title"], .URL] | join(" ")' $bibdFile | fzf --preview 'echo {}' --preview-window=:up:70%:wrap --bind "enter:execute-silent(zathura {-1} &)"
} }

4
spdf.sh
View File

@@ -1,10 +1,10 @@
#!/bin/bash #!/bin/bash
if [ "$1" == "-h" ] ; then if [ "$1" == "-h" ] ; then
echo " echo "
pdf2bib - search for a doi within a pdf, query pubmed, and append bibtex entry with pdf to your local bib database file. Last two steps are identical to sdoi.sh spdf - search for a doi within a pdf. If found, use sdoi.sh to query pubmed, and append bibtex entry with the pdf to your local bib database file
usage: usage:
pdf2bib.sh file.pdf spdf.sh file.pdf
depends: depends:
pdftotext - from ghostscript or poppler or texlive ? pdftotext - from ghostscript or poppler or texlive ?