Initial commit. Files as-is. Currently chertex.sh and simpledelay.sh are most used.

master
Taha Ahmed 14 years ago
commit 0745dbe501

4
.gitignore vendored

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biber
pdfcrop
unborn/
documentation/

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#!/bin/bash
# Umbrella function to simplify use of pdftk
# Created April 20, 2010
# Taha Ahmed, taha@chepec.se
# **************************
# Usage:
# ARG 1: filename of pdf, e.g., 'oxides.pdf'
# ARG 2: specify operation,
# - 'dump_data' --> writes metadata to $reportfile in current directory
# ARG 3: used when updating metadata, specifies the input text file
# $* Stores all the arguments that were entered on the command line ($1 $2 ...).
# $@ Stores all the arguments that were entered on the command line, individually quoted ("$1" "$2" ...).
# -o is logical OR - can be evaluated within single brackets
# -a is logical AND - can be evaluated within single brackets
#############################################################
## Original pdftk syntax
## *********************
## Dump metadata to file
#= pdftk <in.pdf> dump_data output <$reportfile>
## Update metadata from file
#= pdftk <in.pdf> update_info <$reportfile> output <out.pdf>
#############################################################
# Perhaps good to save original PDF
# Could be nice to be able to input metadata updates directly at the bash prompt, something like
# First, script displays current fields
# echo Which field do you want to update/create?
# echo <Display choice as a list>
# read choice newfieldinfo
# do the whole pdftk update stuff
# voila!
#set -x # for debugging
NAME=$(basename $0)
echo "***********************************************************"
echo "This is $NAME. Write $NAME -h for help."
# Set defaults
DUMPMETADATA=yes # default action
UPDATEMETADATA=no
# Set filetypes
pdfext=".pdf"
metadataext=".pdfmeta"
usage () {
cat <<EOF
NAME
$NAME - Wraps pdftk in a personalised run environment.
SYNOPSIS
$NAME [OPTION], or
$NAME [FILENAME.PDF]
DESCRIPTION
The following options can be used:
-h, --help
Displays this help text.
If no option nor filename is specified, the script defaults to
dumping metadata information for all PDF files present in the
current directory into *.pdfmeta files, one for each PDF.
If no PDF files are present in the current directory, the script
exits without taking any further action.
DETAILS
EXAMPLE
Extract metadata for all PDFs in directory and dump into separate files
$NAME -a
Default usage - dump PDF metadata in <filename>.pdfmeta
$NAME <filename>.pdf
AUTHOR
Taha Ahmed <taha.ahmed at mkem.uu.se>
EOF
}
OPTIONS=$@
for OPTION in "$@"; do
case "$OPTION" in
-h | --help )
usage
exit 0
;;
-a | --all )
# Perform default action on all PDFs in current directory
;;
* ) # no options, just run with default settings
;;
esac
done
FILES=$OPTIONS
# Check if no input files were given
if [ ! -n "$FILES" ]; then
# Perhaps do default action for all pdf files in current directory?
echo -e "\nError: There is no input files! Usage is:\n"
usage
exit 1
fi
# Check file types (pre-assumes a file extension exists)
for FILE in "$FILES"; do
PDFFILE=$(echo $FILE | grep '.[Pp][Dd][Ff]$')
TEXFILE=$(echo $FILE | grep '.[Tt][Ee][Xx]$')
if [ ! -n "$PDFFILE" -a ! -n "$TEXFILE" ]; then
echo "$FILE is not a supported file type!"
echo "It should be one of: .pdf or .tex"
exit 1
fi
NEWFILES="$NEWFILES $FILE"
unset PDFFILE TEXFILE
done
FILES=$NEWFILES
# Execution
for FILE in "$FILES"; do
# Metadata filename is pdf basename plus .pdfmeta extension
METADATAFILE=${FILE%.*}$metadataext # metadata filename
if [ "$DUMPMETADATA" = "yes" ]; then
#echo "pdftk $FILE dump_data output $METADATAFILE"
## It seems pdftk has problems dealing with spaces in filenames or paths.
## Possible work-arounds:
## Escape spaces with back-slashes?
## Check for spaces in filename, if present, copy to temporary file without spaces,
## then run call pdftk, then rename again...
pdftk $FILE dump_data output $METADATAFILE
fi
done
exit 0
### STUFF BELOW IS OLD
reportfile=./chepdftk-report.txt
# Check number of args supplied
if [ $# -eq 0 ]; then
# Zero arguments
echo No arguments given.
exit
else
# Some arguments were passed.
if [ $# -eq 1 ]; then
# One argument was passed
echo One argument.
else
# More than one argument
if [ $# -eq 2 ]; then
# Two arguments were passed
echo Two arguments.
if [ $2 == "dump_data" ]; then
pdftk $1 $2 output $reportfile
fi
else
# More than two arguments
if [ $# -eq 3 ]; then
# Three arguments were passed
echo Three arguments.
else
# More than three arguments
echo More than three arguments. Too many.
fi
fi
fi
fi

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#!/bin/bash
## Process *.Rnw files
## Written May 14, 2010
## Taha Ahmed
####################################################
# For now, MAKE SURE that the argument consists of
# a complete filename, with extension, and
# in the directory of the Rnw file
####################################################
clear
echo "---------------------------------------------------------------"
echo "cheRTeX -- a script for processing R-Sweave-LaTeX-TikZ projects"
echo "^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^"
echo "MMX -- taha.ahmed@mkem.uu.se -- CHEPEC doctoral degree project"
echo "---------------------------------------------------------------"
Rfiletype="R"
TeXfiletype="tex"
tikzfiles="*.tikz"
Rnwfiles="*.Rnw"
if [ $# -eq 1 ]; then
# Check if the argument contains a filetype
# Assumes a complete filename was passed
jobfilename=$1
jobfiletype=${jobfilename#*.} # File extension
jobname=${jobfilename%.*} # Filename without extension part
echo "<cheRTeX> Detected filename: " $jobname
echo "<cheRTeX> Detected extension:" $jobfiletype
# Verifying that the file extension is *.Rnw
if [[ $jobfiletype == "Rnw" || $jobfiletype == "rnw" || $jobfiletype == "RNW" ]]; then
# File extension is *.Rnw
echo "<cheRTeX> Detected *.Rnw extension"
jobfiletype="Rnw"
else
# File extension is not *.Rnw
echo "<cheRTeX> File extension should be *.Rnw"
echo "<cheRTeX> Terminating..."
exit 1
fi
# Introducing a short delay to enable on-screen reading of previous echo
simpledelay.sh 2
echo "Delay completed"
# Tangle
echo "<cheRTeX> Tangling..."
R CMD Stangle $jobname.$jobfiletype
# Weave
echo "<cheRTeX> Weaving..."
R CMD pgfsweave --graphics-only $jobname.$jobfiletype
# Introduce delay to give time to read R CMD exit status
echo "<cheRTeX> -------------------------"
echo "<cheRTeX> R CMD pgfsweave completed"
echo "<cheRTeX> -------------------------"
simpledelay.sh 5
# Run vc script if vc exists in working directory
echo "<cheRTeX> Running vc script"
if [ -f vc ]; then
./vc
fi
# Run pdflatex, bibtex, and company
echo "<cheRTeX> Calling LaTeXMK"
latexmk $jobname -pdf -bibtex
# Don't bother with this. Let latexmk take care of cleaning up
# Move unnecessary auxiliary files generated
#echo "<cheRTeX> _________________________"
#echo "<cheRTeX> ========================="
#echo "<cheRTeX> Moving auxiliary files..."
#mv *.aux logs
#mv *.log logs
#mv *.out logs
else
# Either no arguments, or more than one argument
if [ $# -eq 0 ]; then
# Zero arguments. Present a menu of choices
echo "This is cheRTeX POST-PROCESSING" # only one choice for now
echo "<1> 'pdf-all' -- Process all .tikz files to pdf graphics"
echo "Any other input exits the program"
read usrchoice
# Determine number of .Rnw files in current directory
Rnwfileno=$(ls -1 $Rnwfiles | wc -l)
echo "No of .Rnw files: $Rnwfileno"
# Check if number of .Rnw files larger than one
if [ $Rnwfileno -gt 1 ]; then
# If larger than one, ask for user input
# Indicates more than one Rnw file in current directory.
# This introduces a naming ambiguity.
# Resolve by asking user for current jobname
echo "Found $Rnwfileno .Rnw files in current directory"
echo "Please specify the jobname"
read jobname
if [ -z "$jobname" ]; then
# string is null
echo "Specified jobname cannot be parsed. Terminating..."
exit 1
fi
else
# Else, fetch the jobname from the .Rnw filename by stripping file extension
Rnwfilename=$(ls -1 $Rnwfiles)
jobname=${Rnwfilename%.*}
fi
echo "Jobname set to: $jobname"
if [[ $usrchoice == "pdf-all" || $usrchoice == "1" ]]; then
echo "<1> 'pdf-all' chosen"
# This for loop ONLY USED to determine number of *.tikz files in directory
for tikzfiles in "$tikzfiles"; do tikzfilenumber=${#tikzfiles}; done
echo "cheRTeX detected $tikzfilenumber TikZ files for processing"
echo "Starting TikZ file processing..."
simpledelay.sh 2
for tikzfilename in $tikzfiles; do
# Remove the file extension
tikzlabel=${tikzfilename%.*}
# Call pdfLaTeX with tikz label as jobname # See TiKZ manual section 63 for more details
echo "Executing <pdflatex --jobname=$tikzlabel $jobname.$TeXfiletype>"
pdflatex --jobname=$tikzlabel $jobname.$TeXfiletype
done
echo "Completed TikZ file processing"
fi
echo "Terminating..."
mv $jobname-*.pdf tikz-pdfs
mv *.aux logs
mv *.log logs
mv *.out logs
exit 1
fi
echo "<cheRTeX> This script can be run with one argument is process mode,"
echo "<cheRTeX> or with zero arguments in post-processing mode."
echo "<cheRTeX> Terminating..."
exit 1
fi
exit 1

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#!/bin/bash
## This is a shell for running pdflatex and bibtex on TeX files.
## Written Apr 29, 2010
## Taha Ahmed
#####
## Supply the filename argument without file extension!
if [ $# -gt 2 ]; then
# More than two arguments
echo More than two arguments. Too many!
exit
else
# Two or less arguments
if [ $# -eq 2 ]; then
# Exactly two arguments
# First argument should be jobname
jobname=$1
# Test second argument
if [ $2 == "-bib" ]; then
BibliographyRequired=1
fi
if [ $2 == "-biber" ]; then
BiberRequired=1
fi
else
if [ $# -eq 1 ]; then
# Only one argument
# Argument specifies the jobname
jobname=$1
# Set BibliographyRequired to false
BibliographyRequired=0
else
# No arguments submitted
# No use right now
echo No arguments submitted.
exit
fi
fi
fi
pdflatex $jobname
if [ $BibliographyRequired ]; then
bibtex $jobname
fi
if [ $BiberRequired ]; then
biber $jobname
fi
pdflatex $jobname
pdflatex $jobname

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#!/bin/bash
# Using two digits the represent the value being counted down
# Two-digits set in decimal representation used by printf
# Usage: 'countdown #delay #style'
# Delay is an integer from 1 to 99 (what happens if zero?)
# Style is a string, either "numbers" or "style"
# Arguments should always be given in that order
# Both arguments may be omitted, in that case delay defaults to ten seconds and style to "numbers"
defaultdelay=10
numberstyle="numbers"
symbolstyle="symbols"
defaultstyle=$numberstyle
if [ $# -gt 2 ]; then
# More than two arguments
echo Too many arguments
exit
else
# Two or less arguments
if [ $# -eq 2 ]; then
# Exactly two arguments
# First argument should specify the delay
delaysecs=$1
# Second argument should specify the display style
style=$2
else
if [ $# -eq 1 ]; then
# Only one argument
# Argument specifies the delay
delaysecs=$1
# Style defaults to "numbers"
style="numbers"
else
# No arguments submitted
# Delay defaults
delaysecs=$defaultdelay
# Style defaults
style=$defaultstyle
fi
fi
fi
# Adjustment by one second
#delaysecs=$[$delaysecs-1]
delaystatic=$delaysecs
if [ $style == $numberstyle ]; then
while [ $delaysecs -gt 0 ]
do
sleep 1 &
printf "\r"
# Text before counter
printf "Stand by... "
printf "%02d" $[delaysecs]
delaysecs=$[$delaysecs-1]
wait
done
# Printing the zero (end of count-down)
printf "\b\b"
printf "%02d" $[delaysecs]
printf " - Done!"
echo
else
# style is symbolstyle
printf -v line '%*s' "$delaysecs"
printf "%s\r" "${line// /#}"
while [ $delaysecs -gt 0 ]
do
sleep 1 &
printf "+"
delaysecs=$[$delaysecs-1]
wait
done
#printf "\b "
echo
fi
# Bash quoting with ANSI-C style
# \b - backspace
# \r - carriage return
# \n - newline
# \f - form-feed
# \t - horizontal tabulator
# \v - vertical tabulator
# http://bash-hackers.org/wiki/doku.php/commands/builtin/printf

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#!/bin/bash
## Taha Ahmed, Sep 16, 2010
## For making PDF from LaTeX file that uses PSTricks,
## also fixing correct page size using the preview package.
####################################################
# Required argument:
# Filename (WITHOUT FILE EXTENSION)
####################################################
##############
# Runs
# latex
# dvips
# ps2pdf
##############
clear
echo "Runs latex, dvips, ps2eps, epstopdf"
latex $1.tex
echo "==============="
echo "latex $1.tex"
echo "==============="
simpledelay.sh 2
dvips $1.dvi
echo "==============="
echo "dvips $1.dvi"
echo "==============="
simpledelay.sh 2
ps2pdf $1.ps
echo "==============="
echo "ps2pdf $1.ps"
echo "==============="
exit 1

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#!/bin/bash
# Arbitrary delay
# simpledelay.sh <arg>
# <arg> is an integer value and specifies the delay interval in seconds
minint=0 # mininum delay
maxint=15 # maximum delay
# Check that only one argument has been submitted
if [ $# -eq 1 ]; then
# Check that the argument is an integer and in the valid range
if [ $1 ]; then
if [ ! $(echo "$1" | grep -E "^[0-9]+$") ]; then
echo $1 is not a valid integer.
exit 1
else
if ! [ $1 -ge $minint ] || ! [ $1 -le $maxint ]; then
echo $1 is an invalid value. Range is [$minint-$maxint]
exit 1
fi
fi
fi
else
# No args or more than one submitted
echo "<simpledelay.sh> Not a valid numbers of arguments. Only one argument allowed."
exit 1
fi
# Execute the delay
delaysecs=$1
while [ $delaysecs -gt 0 ]; do
sleep 1 &
delaysecs=$[$delaysecs-1]
wait
done
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