Harvesting von OAI-PMH-Schnittstellen und Transformation in METS/MODS für das Portal noah.nrw.
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# https://github.com/opencultureconsulting/openrefine-task-runner
version: '3'
includes:
bielefeld: bielefeld
muenster: muenster
siegen: siegen
wuppertal: wuppertal
silent: true
output: prefixed
vars:
DATE: '{{ now | date "2006-01-02"}}'
env:
OPENREFINE:
sh: readlink -m .openrefine/refine
CLIENT:
sh: readlink -m .openrefine/client
tasks:
default:
desc: execute all projects in parallel
deps:
- task: bielefeld:main
- task: muenster:main
- task: siegen:main
- task: wuppertal:main
install:
desc: (re)install OpenRefine and openrefine-client into subdirectory .openrefine
cmds:
- | # delete existing install and recreate folder
rm -rf .openrefine
mkdir -p .openrefine
- > # download OpenRefine archive
wget --no-verbose -O openrefine.tar.gz
https://github.com/OpenRefine/OpenRefine/releases/download/3.4.1/openrefine-linux-3.4.1.tar.gz
- | # install OpenRefine into subdirectory .openrefine
tar -xzf openrefine.tar.gz -C .openrefine --strip 1
rm openrefine.tar.gz
- | # optimize OpenRefine for batch processing
sed -i 's/cd `dirname $0`/cd "$(dirname "$0")"/' ".openrefine/refine" # fix path issue in OpenRefine startup file
sed -i '$ a JAVA_OPTIONS=-Drefine.headless=true' ".openrefine/refine.ini" # do not try to open OpenRefine in browser
sed -i 's/#REFINE_AUTOSAVE_PERIOD=60/REFINE_AUTOSAVE_PERIOD=1440/' ".openrefine/refine.ini" # set autosave period from 5 minutes to 25 hours
- > # download openrefine-client into subdirectory .openrefine
wget --no-verbose -O .openrefine/client
https://github.com/opencultureconsulting/openrefine-client/releases/download/v0.3.10/openrefine-client_0-3-10_linux
- chmod +x .openrefine/client # make client executable
start:
dir: ./{{.PROJECT}}/refine
cmds:
- | # verify that OpenRefine is installed
if [ ! -f "$OPENREFINE" ]; then
echo 1>&2 "OpenRefine missing; try task install"; exit 1
fi
- | # delete temporary files and log file of previous run
rm -rf ./*.project* workspace.json
rm -rf "{{.PROJECT}}.log"
- > # launch OpenRefine with specific data directory and redirect its output to a log file
"$OPENREFINE" -v warn -p {{.PORT}} -m {{.RAM}}
-d ../{{.PROJECT}}/refine
>> "{{.PROJECT}}.log" 2>&1 &
- | # wait until OpenRefine API is available
timeout 30s bash -c "until
wget -q -O - http://localhost:{{.PORT}} | cat | grep -q -o OpenRefine
do sleep 1
done"
stop:
dir: ./{{.PROJECT}}/refine
cmds:
- | # shut down OpenRefine gracefully
PID=$(lsof -t -i:{{.PORT}})
kill $PID
while ps -p $PID > /dev/null; do sleep 1; done
- > # archive the OpenRefine project
tar cfz
"{{.PROJECT}}.openrefine.tar.gz"
-C $(grep -l "{{.PROJECT}}" *.project/metadata.json | cut -d '/' -f 1)
.
- rm -rf ./*.project* workspace.json # delete temporary files
kill:
dir: ./{{.PROJECT}}/refine
cmds:
- | # shut down OpenRefine immediately to save time and disk space
PID=$(lsof -t -i:{{.PORT}})
kill -9 $PID
while ps -p $PID > /dev/null; do sleep 1; done
- rm -rf ./*.project* workspace.json # delete temporary files
check:
dir: ./{{.PROJECT}}/refine
cmds:
- | # find log file(s) and check for "exception" or "error"
if grep -i 'exception\|error' $(find . -name '*.log'); then
echo 1>&2 "log contains warnings!"; exit 1
fi
- | # Prüfen, ob Mindestanzahl von Datensätzen generiert wurde
if (( {{.MINIMUM}} > $(grep -c recordIdentifier {{.PROJECT}}.txt) )); then
echo 1>&2 "Unerwartet geringe Anzahl an Datensätzen in $PWD/{{.PROJECT}}.txt!"; exit 1
fi
split:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}/split
cmds:
- test -n "{{.PROJECT}}"
# in Einzeldateien aufteilen
- csplit -s -z ../refine/{{.PROJECT}}.txt '/<mets:mets /' "{*}"
# ggf. vorhandene XML-Dateien löschen
- rm -f *.xml
# Identifier als Dateinamen
- for f in xx*; do mv "$f" "$(xmllint --xpath "//*[local-name(.) = 'recordIdentifier']/text()" "$f").xml"; done
sources:
- ../refine/{{.PROJECT}}.txt
generates:
- ./*.xml
validate:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}/validate
cmds:
- test -n "{{.PROJECT}}"
# Validierung gegen METS Schema
- wget -q -nc https://www.loc.gov/standards/mets/mets.xsd
- xmllint --schema mets.xsd --noout ../split/*.xml > validate.log 2>&1
sources:
- ../split/*.xml
generates:
- validate.log
zip:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}/zip
cmds:
- test -n "{{.PROJECT}}"
# ZIP-Archiv mit Zeitstempel erstellen
- zip -q -FS -j {{.PROJECT}}_{{.DATE}}.zip ../split/*.xml
sources:
- ../split/*.xml
generates:
- '{{.PROJECT}}_{{.DATE}}.zip'
diff:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}
cmds:
- test -n "{{.PROJECT}}"
# Inhalt der beiden letzten ZIP-Archive vergleichen
- if test -n "$(ls -t zip/*.zip | sed -n 2p)"; then unzip -q -d old $(ls -t zip/*.zip | sed -n 2p); unzip -q -d new $(ls -t zip/*.zip | sed -n 1p); fi
- diff -d old new > diff.log || exit 0
- rm -rf old new
# Diff prüfen, ob es weniger als 500 Zeilen enthält
- if (( 500 < $(wc -l <diff.log) )); then echo 1>&2 "Unerwartet große Änderungen in $PWD/diff.log!" && exit 1; fi
# Diff archivieren
- cp diff.log zip/{{.PROJECT}}_{{.DATE}}.diff
sources:
- split/*.xml
generates:
- diff.log
linkcheck:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}
cmds:
- test -n "{{.PROJECT}}"
# Links extrahieren
- grep -o 'href="[^"]*"' split/*.xml | sed 's/:href=/\t/' | tr -d '"' | sort -k 2 --unique > links.txt
# http status code ermitteln
- awk '{ print "url = " $2 "\noutput = /dev/null"; }' links.txt > curl.cfg
- curl --silent --head --location --write-out "%{http_code}\t%{url_effective}\n" --config curl.cfg > curl.log
# Tabelle mit status code, effektiver URL, Dateiname und start URL erstellen
- paste curl.log links.txt > linkcheck.log
- rm -rf curl.cfg curl.log links.txt
# Logdatei auf status code != 2XX prüfen
- if grep '^[^2]' linkcheck.log; then echo 1>&2 "Logdatei $PWD/linkcheck.log enthält problematische status codes!" && exit 1; fi
sources:
- split/*.xml
generates:
- linkcheck.log
delete:
label: '{{.TASK}}-{{.PROJECT}}'
dir: ./{{.PROJECT}}
cmds:
- test -n "{{.PROJECT}}"
- rm -rf harvest
- rm -rf refine
- rm -rf split
- rm -rf validate
- rm -f diff.log