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|
Date: Sat 27 Nov 2021 03:33:30 AM UTC
## SQL Table Sizes
Size: 937.28G
SELECT
table_name,
pg_size_pretty(table_size) AS table_size,
pg_size_pretty(indexes_size) AS indexes_size,
pg_size_pretty(total_size) AS total_size
FROM (
SELECT
table_name,
pg_table_size(table_name) AS table_size,
pg_indexes_size(table_name) AS indexes_size,
pg_total_relation_size(table_name) AS total_size
FROM (
SELECT ('"' || table_schema || '"."' || table_name || '"') AS table_name
FROM information_schema.tables
WHERE table_schema = 'public'
) AS all_tables
ORDER BY total_size DESC
) AS pretty_sizes;
table_name | table_size | indexes_size | total_size
------------------------------------+------------+--------------+------------
"public"."crossref" | 393 GB | 10127 MB | 403 GB
"public"."ingest_request" | 44 GB | 41 GB | 84 GB
"public"."cdx" | 52 GB | 28 GB | 80 GB
"public"."grobid" | 72 GB | 6963 MB | 79 GB
"public"."ingest_file_result" | 38 GB | 40 GB | 78 GB
"public"."grobid_shadow" | 67 GB | 5455 MB | 73 GB
"public"."file_meta" | 34 GB | 21 GB | 55 GB
"public"."pdf_meta" | 20 GB | 5869 MB | 26 GB
"public"."grobid_refs" | 19 GB | 1690 MB | 21 GB
"public"."fatcat_file" | 12 GB | 6602 MB | 18 GB
"public"."shadow" | 9517 MB | 8026 MB | 17 GB
"public"."html_meta" | 1200 MB | 8072 kB | 1208 MB
"public"."petabox" | 403 MB | 461 MB | 864 MB
"public"."pdftrio" | 550 MB | 297 MB | 847 MB
"public"."ingest_fileset_platform" | 8192 bytes | 16 kB | 24 kB
"public"."crossref_with_refs" | 0 bytes | 0 bytes | 0 bytes
(16 rows)
## File Metadata
Counts and total file size:
SELECT COUNT(*) as total_count, SUM(size_bytes) as total_size FROM file_meta;
total_count | total_size
-------------+-----------------
179761501 | 244453538203113
# 179m files, 244 TB
Top mimetypes:
SELECT mimetype, COUNT(*) FROM file_meta GROUP BY mimetype ORDER BY COUNT DESC LIMIT 30;
mimetype | count
---------------------------------------------------------------------------+-----------
application/pdf | 179376819
application/octet-stream | 155379
text/html | 116102
application/xml | 42170
application/xhtml+xml | 24347
text/plain | 15990
application/jats+xml | 6899
application/gzip | 6491
| 6034
application/postscript | 4912
application/vnd.ms-powerpoint | 1672
application/msword | 921
application/x-bzip2 | 891
image/jpeg | 794
image/gif | 389
application/vnd.openxmlformats-officedocument.wordprocessingml.document | 303
application/x-compress | 272
application/zip | 131
image/png | 121
application/CDFV2-unknown | 99
application/mac-binhex40 | 79
application/vnd.openxmlformats-officedocument.spreadsheetml.sheet | 57
application/x-dosexec | 51
text/x-tex | 44
application/vnd.openxmlformats-officedocument.presentationml.presentation | 39
text/x-php | 37
text/rtf | 33
application/x-dvi | 29
application/x-rar | 29
video/mp4 | 29
(30 rows)
Missing full metadata:
SELECT COUNT(*) FROM file_meta WHERE sha256hex IS NULL;
count
-------
62196
## CDX
Total and unique-by-sha1 counts:
SELECT COUNT(DISTINCT sha1hex) as unique_sha1, COUNT(*) as total FROM cdx;
unique_sha1 | total
-------------+-----------
119049962 | 149169240
mimetype counts:
SELECT mimetype, COUNT(*) FROM cdx GROUP BY mimetype ORDER BY COUNT(*) DESC LIMIT 30;
mimetype | count
----------------------------+-----------
application/pdf | 137271670
warc/revisit | 9709493
application/octet-stream | 590443
text/xml | 525481
text/html | 421030
unk | 207442
application/postscript | 81123
application/save | 80988
binary/octet-stream | 67476
image/pdf | 39419
application/x-download | 38278
text/plain | 36159
application/download | 34328
application/force-download | 19729
multipart/form-data | 9105
application | 5299
application/x-msdownload | 3851
application/x-octetstream | 3649
.pdf | 3318
application/x-pdf | 2992
pdf | 1484
file | 1364
application/binary | 1354
file/unknown | 1345
application/pdf' | 1196
application/octetstream | 1029
application/unknown | 1000
0 | 764
text/pdf | 704
application/blob | 673
(30 rows)
## GROBID
Counts:
SELECT COUNT(*) AS total_files FROM grobid;
total_files
-------------
111236904
Status?
SELECT status_code, COUNT(*) FROM grobid GROUP BY status_code ORDER BY COUNT DESC LIMIT 25;
status_code | count
-------------+-----------
200 | 102962304
500 | 8269129
-4 | 5013
503 | 548
TODO: how many failed, by mimetype? to check if we are (or have) run non-PDF
files through by mistake
What version used?
SELECT grobid_version, COUNT(*) FROM grobid WHERE status_code = 200 GROUP BY grobid_version ORDER BY COUNT DESC LIMIT 25;
grobid_version | count
----------------------+----------
0.5.5-fatcat | 89983404
| 12892161
0.7.0-104-gbeebd9a6b | 86739
## Petabox
Counts:
SELECT COUNT(DISTINCT sha1hex) as unique_sha1, COUNT(*) as total FROM petabox;
unique_sha1 | total
-------------+---------
2868825 | 2887834
## Ingests
Requests by source:
SELECT ingest_type, link_source, COUNT(*) FROM ingest_request GROUP BY ingest_type, link_source ORDER BY COUNT DESC LIMIT 25;
ingest_type | link_source | count
-------------+-----------------+----------
pdf | oai | 51185088
pdf | mag | 43701948
pdf | unpaywall | 37802895
pdf | doi | 28736398
pdf | doaj | 4264610
html | doaj | 2429003
pdf | pmc | 2383398
pdf | arxiv | 2330054
html | doi | 39725
xml | doaj | 9442
pdf | cnki_covid19 | 2034
pdf | wanfang_covid19 | 975
pdf | spn | 689
html | spn | 48
xml | spn | 1
(15 rows)
SELECT ingest_type, link_source, ingest_request_source, COUNT(*) FROM ingest_request GROUP BY ingest_type, link_source, ingest_request_source ORDER BY COUNT DESC LIMIT 35;
ingest_type | link_source | ingest_request_source | count
-------------+-----------------+-------------------------+----------
pdf | oai | metha-bulk | 51185088
pdf | mag | mag-corpus | 43701948
pdf | unpaywall | unpaywall | 37802895
pdf | doi | fatcat-changelog | 16207728
pdf | doi | fatcat-ingest | 9012282
pdf | doaj | doaj | 4264610
pdf | doi | fatcat-ingest-container | 3515873
html | doaj | doaj | 2429003
pdf | pmc | fatcat-ingest-container | 2028825
pdf | arxiv | fatcat-ingest | 1767705
pdf | arxiv | fatcat-changelog | 562320
pdf | pmc | fatcat-ingest | 297527
pdf | pmc | fatcat-changelog | 57046
html | doi | fatcat-ingest | 37788
xml | doaj | doaj | 9442
pdf | cnki_covid19 | scrape-covid19 | 2034
html | doi | fatcat-changelog | 1897
pdf | wanfang_covid19 | scrape-covid19 | 975
pdf | spn | savepapernow-web | 689
pdf | doi | savepapernow-web | 613
html | spn | savepapernow-web | 48
html | doi | savepapernow-web | 40
pdf | arxiv | fatcat-ingest-container | 26
pdf | arxiv | savepapernow-web | 3
xml | spn | savepapernow-web | 1
(25 rows)
Uncrawled requests by source:
# TODO: verify this?
SELECT ingest_request.ingest_type, ingest_request.link_source, COUNT(*)
FROM ingest_request
LEFT JOIN ingest_file_result
ON ingest_request.base_url = ingest_file_result.base_url
AND ingest_request.ingest_type = ingest_file_result.ingest_type
WHERE ingest_file_result.base_url IS NULL
GROUP BY ingest_request.ingest_type, ingest_request.link_source ORDER BY COUNT DESC LIMIT 35;
ingest_type | link_source | count
-------------+-------------+--------
pdf | mag | 169076
pdf | oai | 15283
pdf | doaj | 2063
html | doaj | 620
pdf | doi | 22
pdf | unpaywall | 17
Results by source:
SELECT
ingest_request.ingest_type,
ingest_request.link_source,
COUNT(*) as attempts,
COUNT(CASE WHEN ingest_file_result.hit THEN 1 END) hits,
ROUND(1.0 * COUNT(CASE WHEN ingest_file_result.hit THEN 1 END) / COUNT(*), 3) as fraction
FROM ingest_request
LEFT JOIN ingest_file_result
ON ingest_request.base_url = ingest_file_result.base_url
AND ingest_request.ingest_type = ingest_file_result.ingest_type
AND ingest_file_result.ingest_type IS NOT NULL
GROUP BY ingest_request.ingest_type, ingest_request.link_source ORDER BY attempts DESC LIMIT 35;
ingest_type | link_source | attempts | hits | fraction
-------------+-----------------+----------+----------+----------
pdf | oai | 51185088 | 14554221 | 0.284
pdf | mag | 43701948 | 32643175 | 0.747
pdf | unpaywall | 37802895 | 29989257 | 0.793
pdf | doi | 28736547 | 7690393 | 0.268
pdf | doaj | 4264610 | 2851601 | 0.669
html | doaj | 2429003 | 122937 | 0.051
pdf | pmc | 2383398 | 1821071 | 0.764
pdf | arxiv | 2330054 | 2159738 | 0.927
html | doi | 39725 | 1235 | 0.031
xml | doaj | 9442 | 6897 | 0.730
pdf | cnki_covid19 | 2034 | 0 | 0.000
pdf | wanfang_covid19 | 975 | 764 | 0.784
pdf | spn | 689 | 503 | 0.730
html | spn | 48 | 5 | 0.104
xml | spn | 1 | 0 | 0.000
Ingest result by status:
SELECT ingest_type, status, COUNT(*) FROM ingest_file_result GROUP BY ingest_type, status ORDER BY COUNT DESC LIMIT 50;
ingest_type | status | count
-------------+-------------------------------+----------
pdf | success | 78944243
pdf | no-pdf-link | 26270027
pdf | no-capture | 23267156
pdf | redirect-loop | 9837466
pdf | terminal-bad-status | 4147454
pdf | skip-url-blocklist | 3088907
pdf | link-loop | 2953891
pdf | blocked-cookie | 1855541
html | wrong-scope | 1106171
pdf | wrong-mimetype | 859941
pdf | gateway-timeout | 729771
pdf | spn2-cdx-lookup-failure | 584856
html | no-capture | 423917
pdf | forbidden | 390804
pdf | cdx-error | 363091
pdf | wayback-content-error | 354894
pdf | null-body | 341698
pdf | too-many-redirects | 307096
pdf | not-found | 294592
html | redirect-loop | 213032
html | unknown-scope | 207923
pdf | spn2-error | 192046
html | html-resource-no-capture | 166119
html | success | 124177
pdf | wayback-error | 105385
html | null-body | 100296
pdf | spn2-wayback-error | 73176
pdf | remote-server-error | 60908
pdf | spn2-error:too-many-redirects | 58076
pdf | skip-wall | 57744
html | wayback-content-error | 53928
pdf | read-timeout | 42465
pdf | invalid-host-resolution | 37221
pdf | petabox-error | 28765
pdf | spn2-error:unknown | 23885
html | wrong-mimetype | 18930
pdf | bad-redirect | 14708
html | terminal-bad-status | 14070
html | petabox-error | 13770
html | spn2-cdx-lookup-failure | 13002
pdf | spn2-error:job-failed | 9721
html | cdx-error | 7167
xml | success | 6897
pdf | spn2-error:bad-request | 4433
pdf | spn-remote-error | 4206
pdf | body-too-large | 3019
xml | null-body | 2353
pdf | other-mimetype | 2304
pdf | error | 1900
pdf | spn2-error:proxy-error | 1850
(50 rows)
Failed ingest by terminal status code:
SELECT ingest_type, terminal_status_code, COUNT(*) FROM ingest_file_result WHERE hit = false GROUP BY ingest_type, terminal_status_code ORDER BY COUNT DESC LIMIT 50;
ingest_type | terminal_status_code | count
-------------+----------------------+----------
pdf | 200 | 36821458
pdf | | 26058729
pdf | 301 | 8466302
html | 200 | 1676730
pdf | 503 | 1028504
pdf | 302 | 949465
pdf | 403 | 936737
pdf | 404 | 687661
pdf | 400 | 507303
html | | 439356
pdf | 401 | 288994
pdf | 500 | 263775
html | 301 | 211796
pdf | 303 | 130719
pdf | 410 | 66495
pdf | 502 | 41760
pdf | 429 | 35266
pdf | 420 | 26722
pdf | 409 | 15204
pdf | 509 | 15113
pdf | 999 | 11409
html | 404 | 9578
pdf | 307 | 8404
pdf | 308 | 5514
pdf | 202 | 4724
html | 500 | 3628
xml | 200 | 2537
pdf | 520 | 2199
pdf | 206 | 1694
html | 302 | 1138
pdf | 504 | 1124
pdf | 521 | 1085
pdf | 412 | 921
pdf | 421 | 714
pdf | 300 | 461
pdf | 505 | 436
pdf | 406 | 427
pdf | 508 | 408
html | 403 | 382
html | 503 | 378
html | 303 | 268
pdf | 204 | 252
pdf | 226 | 166
pdf | 402 | 70
html | 502 | 68
pdf | 523 | 55
pdf | 408 | 53
pdf | 432 | 45
pdf | 530 | 31
pdf | 416 | 31
(50 rows)
|
