From af140307a025738767e740fea8da8d15e20fb983 Mon Sep 17 00:00:00 2001
From: Bryan Newbold <bnewbold@archive.org>
Date: Wed, 5 Aug 2020 13:10:56 -0700
Subject: grobid+pdftext missing catch-up commands

---
 notes/tasks/2020-07-22_processing_holes.md | 101 +++++++++++++++++++++++++++++
 1 file changed, 101 insertions(+)
 create mode 100644 notes/tasks/2020-07-22_processing_holes.md

(limited to 'notes')

diff --git a/notes/tasks/2020-07-22_processing_holes.md b/notes/tasks/2020-07-22_processing_holes.md
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+
+Want to clean up missing/partial processing (GROBID, `pdf_meta`, `file_meta`)
+in sandcrawler database.
+
+
+## `pdf_meta` for petabox rows
+
+Ran `dump_unextracted_pdf_petabox.sql` SQL, which resulted in a .json file.
+
+    wc -l dump_unextracted_pdf_petabox.2020-07-22.json
+    1503086 dump_unextracted_pdf_petabox.2020-07-22.json
+
+Great, 1.5 million, not too many. Start small:
+
+    head -n1000 dump_unextracted_pdf_petabox.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.unextracted -p -1
+
+Full batch:
+
+    cat dump_unextracted_pdf_petabox.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.unextracted -p -1
+
+## `pdf_meta` missing CDX rows
+
+First, the GROBID-ized rows but only if has a fatcat file as well.
+
+10,755,365! That is a lot still to process.
+
+    cat dump_unextracted_pdf.fatcat.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.unextracted -p -1
+
+## `GROBID` missing petabox rows
+
+    wc -l /grande/snapshots/dump_ungrobided_pdf_petabox.2020-07-22.json 
+    972221 /grande/snapshots/dump_ungrobided_pdf_petabox.2020-07-22.json
+
+Start small:
+
+    head -n1000 dump_ungrobided_pdf_petabox.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.ungrobided-pg -p -1
+
+Full batch:
+
+    cat dump_ungrobided_pdf_petabox.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.ungrobided-pg -p -1
+
+## `GROBID` for missing CDX rows in fatcat
+
+    wc -l dump_ungrobided_pdf.fatcat.2020-07-22.json
+    1808580 dump_ungrobided_pdf.fatcat.2020-07-22.json
+
+Full batch:
+
+    cat dump_ungrobided_pdf.fatcat.2020-07-22.json | rg -v "\\\\" | jq . -c | pv -l | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.ungrobided-pg -p -1
+
+## `GROBID` for bad status
+
+Eg, wayback errors.
+
+TODO
+
+## `pdf_trio` for OA journal crawls
+
+TODO
+
+## `pdf_trio` for "included by heuristic", not in fatcat
+
+TODO
+
+## Live-ingest missing arxiv papers
+
+    ./fatcat_ingest.py --allow-non-oa --limit 10000 query arxiv_id:* > /srv/fatcat/snapshots/arxiv_10k_ingest_requests.json
+    => Expecting 1505184 release objects in search queries
+
+    cat /srv/fatcat/snapshots/arxiv_10k_ingest_requests.json | rg -v "\\\\" | jq . -c | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.ingest-file-requests -p 22
+
+Repeating this every few days should (?) result in all the backlog of arxiv
+papers getting indexed. Could focus on recent years to start (with query
+filter).
+
+## re-ingest spn2 errors (all time)
+
+Eg:
+
+    spn2-cdx-lookup-failure: 143963
+    spn-error: 101773
+    spn2-error: 16342
+
+TODO
+
+## re-try CDX errors
+
+Eg, for unpaywall only, bulk ingest all `cdx-error`.
+
+TODO
+
+## live ingest unpaywall `no-capture` URLs
+
+After re-trying the CDX errors for unpaywall URLs (see above), count all the
+no-capture URLs, and if reasonable recrawl them all in live more ("reasonable"
+meaning fewer than 200k or so URLs).
+
+Could also force recrawl (not using CDX lookups) for some publisher platforms
+if that made sense.
+
+TODO
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