map.dist

#!/bin/bash
set -e
SUBS="Bahmni Bb GnuHealth Orthanc Standard WhoDhiClient WhoDhiDataService WhoDhiHealthcareProvider WhoDhiHealthSystemManager WhoDhiSystemCategory EhrSfm Mb Link"
TEMPLATES="attribute standard subfeature feature function applicationsystemtype applicationsystemtypecitation featurecitation functioncitation organizationalunitcitation usergroupcitation link"

RED='\033[0;31m'
ORANGE='\033[0;33m'
LIGHTGREEN='\033[1;32m'
GRAY='\033[0;37m'
YELLOW='\033[1;33m'
BLUE='\033[1;34m'
NC='\033[0m'

function map
{
 echo -e "* ${BLUE}DIRECTORY ${s}${NC}" 
 mkdir -p ${s}/tmp
 mkdir -p ${s}/tmp/old
 mv ${s}/tmp/*.nt ${s}/tmp/old || true
 found=0
 for t in $TEMPLATES
 do
  csv="${s}/${t}.csv"
  if [ -e $csv ]
  then
   echo -e -n "** ${LIGHTGREEN}Using Template ${t} on ${csv} ${NC}..."
   ((found=found+1))
   mkdir -p ${s}/out
   sed "s|{SUB}|${s}|g" ${t}.tarql.template > ${s}/tmp/${t}.tarql
   tarql ${s}/tmp/${t}.tarql | rapper -q -i turtle - http://hitontology.eu/ontology/ > ${s}/tmp/${t}.nt
   echo -e " ${LIGHTGREEN}`wc -l < ${s}/tmp/${t}.nt` triples${NC}"
  #else
   #echo -e "${GRAY}**** ${csv} DOES NOT EXIST, SKIPPING TEMPLATE ${t} *******************************${NC}"
  fi
 done 
 if [ $found -eq "0" ]
 then
  echo -e "** ${RED}ERROR: DIRECTORY ${s} DOES NOT MATCH ANY TEMPLATE, SKIPPING ${s} ${NC}"
  return
 fi
 echo -e -n "** ${LIGHTGREEN}Merging${NC}... "
 if [ -e ${s}/base.ttl ]
 then
  echo -e -n "$LIGHTGREEN adding base${NC}: "
  rapper -q -i turtle ${s}/base.ttl > ${s}/tmp/base.nt 
  echo -e -n "$LIGHTGREEN `wc -l < ${s}/tmp/base.nt` triples${NC}. "
 fi
 cat prefix.ttl ${s}/tmp/*.nt | rapper -q -i turtle -o turtle - http://hitontology.eu/ontology/ > ${s}/out/all.ttl
 rapper -q -i turtle -o ntriples ${s}/out/all.ttl >> /tmp/combined.nt
 echo -e -n "${LIGHTGREEN}Testing${NC}... "
 rapper -q -i turtle -c ${s}/out/all.ttl
 echo -e "${LIGHTGREEN}`wc -l < ${s}/out/all.ttl` triples in ${s}/out/all.ttl, `wc -l < /tmp/combined.nt` total${NC}"
}

rm -f /tmp/combined.nt
for s in $SUBS
do
 if [ ! -d "${s}" ]
 then
  echo -e "** ${RED}ERROR: DIRECTORY ${s} DOES NOT EXIST, SKIPPING ${s} ${NC}"
 else
  map $s # no fork needed, tarql is parallized already
 fi
done
echo -e -n "${LIGHTGREEN}sorting and converting to Turtle format${NC}... "
sort /tmp/combined.nt -o /tmp/combined.nt
rapper -q -i turtle -c /tmp/combined.nt
cat prefix.ttl /tmp/combined.nt | rapper -q -i turtle -o turtle - http://hitontology.eu/ontology/ > /tmp/combined.ttl
echo -e "${LIGHTGREEN}`wc -l < /tmp/combined.nt` triples in /tmp/combined.ttl${NC}"