source: branches/bibliolocean/src/biblio_check.sh @ 226

#! /bin/sh
#+
#
# ===============
# biblio_check.sh
# ===============
#
# ------------------------
# check a biblio directory
# ------------------------
#
# SYNOPSIS
# ========
#
# ``biblio_check.sh -i biblio_dir -o dirout``
#
# DESCRIPTION
# ===========
#
# Lauch jabref on each individual file (bibtex convention syntax) of biblio_dir
#
# -i  input directory
# -o  output directory
#
# Each file of the output directory is named after the bibtex file.
#
# ++ log file
#
# EXAMPLES
# ========
#
# To check the biblio of LOCEAN::
#
#  $ biblio_check.sh -i /tmp/locean_biblio_split/ -o /tmp/locean_biblio_check/
#
# TODO
# ====
#
#
# EVOLUTIONS
# ==========
#
# $Id$
#
# - fplod 20110301T100911Z aedon.locean-ipsl.upmc.fr (Darwin)
#
#   * jaberef_dir=f(uname -s)
#
# - fplod 20091019T085114Z aedon.locean-ipsl.upmc.fr (Darwin)
#
#   * creation
#
#-
#
system=$(uname)
case "${system}" in
   AIX|IRIX64)
      echo " www : no specific posix checking"
   ;;
   *)
      set -o posix
   ;;
esac
#
command=$(basename ${0})
log_date=$(date -u +"%Y%m%dT%H%M%SZ")
#
usage=" Usage : ${command} -i biblio_dir -o dirout"
#
# default
jabref_version="2.6"
jabref_dir="/usr/home/incas/francoise/jabref-${jabref_version}_$(hostname)/"
case "$(uname -s)" in
   Darwin)
      jabref_dir=${jabref_dir}"JabRef.app/Contents/Resources/Java/"
   ;;
   Linux)
   ;;
   *)
      echo "${command} : eee : unknown system $(uname -s)"
   ;;
esac
#
tmpdir=/tmp/${LOGNAME}/gtbiblio
mkdir -p /tmp/${LOGNAME}/gtbiblio/
# artificial header of jabref file to enforce encoding
{
echo "% This file was articifialy created for JabRef ${jabref_version}."
echo "% Encoding: ISO8859_1"
echo " "
} > ${tmpdir}/header_jabref
#
minargcount=4
if [ ${#} -lt ${minargcount} ]
then
   echo "eee : ${command} : not enought arguments"
   echo "${usage}"
   exit 1
fi
#
set +u
while [ ! -z "${1}" ]
do
   case ${1} in
      -i)
         biblio_dir=${2}
         shift
      ;;
      -o)
         dirout=${2%/}
         shift
      ;;
      -h)
         echo "${usage}"
         exit 0
      ;;
      *)
         # anything else
         echo "eee : unknown option ${1}"
         echo "eee : ${usage}"
         exit 1
      ;;
   esac
   # next flag
   shift
done
#
set -u
#
# check for biblio_dir
if [ ! -d ${biblio_dir} ]
then
   echo "eee : ${command} : ${biblio_dir} not accessible"
   exit 1
fi
#
# check for dirout
# the idea is to prevent unwanted overwrite
if [ -d ${dirout} ]
then
   echo "eee : ${command} : ${dirout} already exist"
   exit 1
else
   mkdir -p ${dirout}
   if [ ${?} -ne 0 ]
   then
      echo "eee : ${command} : cannot create ${dirout}"
      exit 1
   fi
fi
#
# loop on each file of ${biblio_dir} ie files to be checkted
format=locean_listrefs
for bibtex_file in ${biblio_dir}/*.bib
do
   echo "bibtex_file = ${bibtex_file}"
   filein=${tmpdir}/$(basename ${bibtex_file})
   cat ${tmpdir}/header_jabref ${bibtex_file} > ${filein}
   output_file=${dirout}/$(basename ${bibtex_file} .bib).html
   java -jar ${jabref_dir}/JabRef-${jabref_version}.jar -n true \
      -p ./jabref.preferences.xml \
      --output ${output_file},${format} \
      ${filein}
   jabref_status=${?}
   if [ ${jabref_status} -ne 0 ]
   then
      echo "eee : ${command} : pb with jabref export ${bibtex_file}"
      exit 1
   fi
done
#
echo "iii : ${biblio_dir} is checked in ${dirout}"
#
# clean
#++rm -rf ${tmpdir}
# end
exit 0