2020-04 unpaywall ingest (in progress)

1 files changed, 63 insertions, 0 deletions

diff --git a/notes/ingest/2020-04-07_unpaywall.md b/notes/ingest/2020-04-07_unpaywall.md
new file mode 100644
index 0000000..e30d482
--- /dev/null
+++ b/notes/ingest/2020-04-07_unpaywall.md
@@ -0,0 +1,63 @@
+
+A new snapshot was released in April 2020 (the snapshot is from 2020-02-25, but
+not released for more than a month).
+
+Primary goal is:
+
+- generate ingest requests for only *new* URLs
+- bulk ingest these new URLs
+- crawl any no-capture URLs from that batch
+- re-bulk-ingest the no-capture batch
+- analytics on failed ingests. eg, any particular domains that are failing to crawl
+
+This ingest pipeline was started on 2020-04-07 by bnewbold.
+
+## Transform and Load
+
+    # in sandcrawler pipenv on aitio
+    zcat /schnell/UNPAYWALL-PDF-CRAWL-2020-04/unpaywall_snapshot_2020-02-25T115244.jsonl.gz | ./scripts/unpaywall2ingestrequest.py - | pv -l > /grande/snapshots/unpaywall_snapshot_2020-02-25.ingest_request.json
+    => 24.7M 5:17:03 [ 1.3k/s]
+
+    cat /grande/snapshots/unpaywall_snapshot_2020-02-25.ingest_request.json | pv -l | ./persist_tool.py ingest-request -
+    => 24.7M
+    => Worker: Counter({'total': 24712947, 'insert-requests': 4282167, 'update-requests': 0})
+
+## Dump new URLs and Bulk Ingest
+
+    COPY (
+        SELECT row_to_json(ingest_request.*)
+        FROM ingest_request
+        LEFT JOIN ingest_file_result
+            ON ingest_file_result.ingest_type = ingest_request.ingest_type
+            AND ingest_file_result.base_url = ingest_request.base_url
+        WHERE
+            ingest_request.ingest_type = 'pdf'
+            AND ingest_request.link_source = 'unpaywall'
+            AND date(ingest_request.created) > '2020-04-01'
+            AND ingest_file_result.status IS NULL
+    ) TO '/grande/snapshots/unpaywall_noingest_2020-04-08.rows.json';
+    => 3696189
+
+    cat /grande/snapshots/unpaywall_noingest_2020-04-08.rows.json | rg -v "\\\\" | jq . -c | kafkacat -P -b wbgrp-svc263.us.archive.org -t sandcrawler-prod.ingest-file-requests-bulk -p -1
+
+## Dump no-capture
+
+    COPY (
+        SELECT row_to_json(ingest_request.*)
+        FROM ingest_request
+        LEFT JOIN ingest_file_result
+            ON ingest_file_result.ingest_type = ingest_request.ingest_type
+            AND ingest_file_result.base_url = ingest_request.base_url
+        WHERE
+            ingest_request.ingest_type = 'pdf'
+            AND ingest_request.link_source = 'unpaywall'
+            AND date(ingest_request.created) > '2020-04-01'
+            AND ingest_file_result.status = 'no-capture'
+            AND ingest_request.base_url NOT LIKE '%journals.sagepub.com%'
+            AND ingest_request.base_url NOT LIKE '%pubs.acs.org%'
+            AND ingest_request.base_url NOT LIKE '%ahajournals.org%'
+            AND ingest_request.base_url NOT LIKE '%www.journal.csj.jp%'
+            AND ingest_request.base_url NOT LIKE '%aip.scitation.org%'
+            AND ingest_request.base_url NOT LIKE '%academic.oup.com%'
+            AND ingest_request.base_url NOT LIKE '%tandfonline.com%'
+    ) TO '/grande/snapshots/unpaywall_nocapture_2020-04-XX.rows.json';