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| author | Bryan Newbold <bnewbold@archive.org> | 2019-11-13 16:45:04 -0800 |
|---|---|---|
| committer | Bryan Newbold <bnewbold@archive.org> | 2019-11-13 16:45:04 -0800 |
| commit | 885bff50bbe57322ad32f4fbfab8d846e54671f2 (patch) | |
| tree | 066479175dd722a64db9b7cdada07fcfa6f7fc55 | |
| parent | 0e971f17f0f6d377a341825f141338b3a1e0df56 (diff) | |
| download | sandcrawler-885bff50bbe57322ad32f4fbfab8d846e54671f2.tar.gz sandcrawler-885bff50bbe57322ad32f4fbfab8d846e54671f2.zip | |
notes about running 'regrobid' batches manually (not kafka)
| -rw-r--r-- | notes/job_log.txt | 41 |
1 files changed, 41 insertions, 0 deletions
diff --git a/notes/job_log.txt b/notes/job_log.txt index 06490d2..6051b91 100644 --- a/notes/job_log.txt +++ b/notes/job_log.txt @@ -101,3 +101,44 @@ joined-rows 0 14115453 14115453 job_1559844455575_118299 http://ia802401.us.archive.org:6988/proxy/application_1559844455575_118299 +## Re-GROBID batch (2019-11-12) + +Want to re-process "old" GROBID output with newer (0.5.5+fatcat) GROBID version +(vanilla training) plus biblio-glutton identification. Hoping to make a couple +million new fatcat matches; will probably do a later round of ML matching over +this batch as well. + + # in /grande/regrobid + + # as postgres + psql sandcrawler < dump_regrobid_pdf.sql > dump_regrobid_pdf.txt + + # as bnewbold + cat dump_regrobid_pdf.txt | sort -S 4G | uniq -w 40 | cut -f2 | pv -l > dump_regrobid_pdf.2019-11-12.json + # 41.5M lines, uniq by SHA1 + # NOTE: not the full 56m+ from GROBID table... some in archive.org, others + # not application/pdf type. Will need to follow-up on those later + + # intend to have 3 worker machines, but splitting 6 ways in case we need to + # re-balance load or get extra machines or something + split -n l/6 -a1 -d --additional-suffix=.json dump_regrobid_pdf.2019-11-12.json regrobid_cdx.split_ + + # distribute to tmp001, tmp002, tmp003: + tmp001: 0,1 + tmp002: 2,3 + tmp003: 4,5 + + # test local grobid config: + head /srv/sandcrawler/tasks/regrobid_cdx.split_0.json | pv -l | ./grobid_tool.py --grobid-host http://localhost:8070 -j0 extract-json - > example_out.json + # expect at least a couple fatcat matches + cat example_out.json | jq .tei_xml -r | rg fatcat + + # test GROBID+kafka config: + cat /srv/sandcrawler/tasks/regrobid_cdx.split_*.json | pv -l | head | parallel -j40 --linebuffer --round-robin --pipe ./grobid_tool.py --kafka-env prod --kafka-hosts wbgrp-svc263.us.archive.org:9092,wbgrp-svc284.us.archive.org:9092,wbgrp-svc285.us.archive.org:9092 --kafka-mode --grobid-host http://localhost:8070 -j0 extract-json - + + # full run, in a screen session + cat /srv/sandcrawler/tasks/regrobid_cdx.split_*.json | pv -l | parallel -j40 --linebuffer --round-robin --pipe ./grobid_tool.py --kafka-env prod --kafka-hosts wbgrp-svc263.us.archive.org:9092,wbgrp-svc284.us.archive.org:9092,wbgrp-svc285.us.archive.org:9092 --kafka-mode --grobid-host http://localhost:8070 -j0 extract-json - + +NOTE: really should get parallel kafka worker going soon. if there is a reboot +or something in the middle of this process, will need to re-run from the start. + |