90 lines
3.6 KiB
YAML
90 lines
3.6 KiB
YAML
version: '3'
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silent: true
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env:
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OPENREFINE_MEMORY: 5120M
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OPENREFINE_PORT: 3333
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OPENREFINE_APPDIR:
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sh: readlink -m .openrefine
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OPENREFINE_TMPDIR:
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sh: mkdir -p .openrefine/tmp; readlink -m .openrefine/tmp
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tasks:
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default:
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desc: run workflow in batch mode
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cmds:
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- defer: { task: cleanup } # will always be executed last
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- task: start
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- task: example
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- task: check
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sources:
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- Taskfile.yml
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- input/**
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- config/**
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generates:
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- output/**
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preconditions:
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- sh: test -f "${OPENREFINE_APPDIR}/refine"
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msg: "OpenRefine missing; try task install"
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start:
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- echo "start OpenRefine with max. $OPENREFINE_MEMORY on port $OPENREFINE_PORT..."
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- | # launch OpenRefine with specific data directory and redirect its output to a log file
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"${OPENREFINE_APPDIR}/refine" -v warn -p "$OPENREFINE_PORT" -m "$OPENREFINE_MEMORY" -d "${OPENREFINE_TMPDIR}" > "${OPENREFINE_TMPDIR}/log.txt" 2>&1 &
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- | # wait until OpenRefine API is available
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timeout 30s bash -c "until wget -q -O - -o /dev/null http://localhost:${OPENREFINE_PORT} | cat | grep -q -o OpenRefine; do sleep 1; done"
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example:
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- | # import (requires absolute path)
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"${OPENREFINE_APPDIR}/client" \
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--create "$(readlink -m input/duplicates.csv)" \
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--projectName example
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- | # apply undo/redo history
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for f in config/*.json; do
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"${OPENREFINE_APPDIR}/client" example --apply "$f"
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done
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- | # export to TSV
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mkdir -p output
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"${OPENREFINE_APPDIR}/client" example \
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--output output/deduped.tsv
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check:
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- | # print stats
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PID="$(lsof -t -i:${OPENREFINE_PORT})"
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echo "used $(($(ps --no-headers -o rss -p "$PID") / 1024)) MB RAM"
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echo "used $(ps --no-headers -o cputime -p "$PID") CPU time"
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- | # check log file for any warnings
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if grep -i 'exception\|error' "${OPENREFINE_TMPDIR}/log.txt"
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then echo 1>&2 "log contains warnings!"; echo; cat "${OPENREFINE_TMPDIR}/log.txt"; exit 1
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fi
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cleanup:
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- | # kill OpenRefine immediately
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PID="$(lsof -t -i:${OPENREFINE_PORT})"
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kill -9 $PID
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- | # delete temporary files
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rm -rf "${OPENREFINE_TMPDIR}"
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install:
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desc: install OpenRefine and openrefine-client into subdirectory ${OPENREFINE_APPDIR}
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cmds:
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- mkdir -p "${OPENREFINE_APPDIR}"
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- | # install OpenRefine into subdirectory ${OPENREFINE_APPDIR}
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wget --no-verbose -O openrefine.tar.gz https://github.com/OpenRefine/OpenRefine/releases/download/3.5.2/openrefine-linux-3.5.2.tar.gz
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tar -xzf openrefine.tar.gz -C "${OPENREFINE_APPDIR}" --strip 1 && rm openrefine.tar.gz
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- | # optimize OpenRefine for batch processing
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sed -i 's/cd `dirname $0`/cd "$(dirname "$0")"/' "${OPENREFINE_APPDIR}/refine" # fix path issue in OpenRefine startup file
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sed -i '$ a JAVA_OPTIONS=-Drefine.headless=true' "${OPENREFINE_APPDIR}/refine.ini" # do not try to open OpenRefine in browser
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sed -i 's/#REFINE_AUTOSAVE_PERIOD=60/REFINE_AUTOSAVE_PERIOD=1440/' "${OPENREFINE_APPDIR}/refine.ini" # set autosave period from 5 minutes to 25 hours
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- | # install openrefine-client into subdirectory ${OPENREFINE_APPDIR}
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wget --no-verbose -O "${OPENREFINE_APPDIR}/client" https://github.com/opencultureconsulting/openrefine-client/releases/download/v0.3.10/openrefine-client_0-3-10_linux
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chmod +x "${OPENREFINE_APPDIR}/client"
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git:
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desc: commit and push if something changed
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cmds:
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- git add -A
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- git commit -m "latest change $(date -u)" || exit 0
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- git push
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