1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
|
import requests
from grobid2json import teixml2json
from .workers import SandcrawlerWorker
from .misc import gen_file_metadata
from .ia import WaybackClient, WaybackError
class GrobidClient(object):
def __init__(self, host_url="http://grobid.qa.fatcat.wiki", **kwargs):
self.host_url = host_url
self.consolidate_mode = int(kwargs.get('consolidate_mode', 2))
def process_fulltext(self, blob, consolidate_mode=None):
"""
Returns dict with keys:
- status_code
- status (slug)
- error_msg (if status == 'error')
- tei_xml (if status is 200)
TODO: persist connection for performance?
"""
assert blob
if consolidate_mode == None:
consolidate_mode = self.consolidate_mode
grobid_response = requests.post(
self.host_url + "/api/processFulltextDocument",
files={
'input': blob,
'consolidateHeader': self.consolidate_mode,
'consolidateCitations': 0, # too expensive for now
'includeRawCitations': 1,
}
)
info = dict(
status_code=grobid_response.status_code,
)
if grobid_response.status_code == 200:
info['status'] = 'success'
info['tei_xml'] = grobid_response.text
if len(info['tei_xml']) > 12000000:
# XML is larger than Kafka message size, and much larger than
# an article in general; bail out
info['status'] = 'error'
info['error_msg'] = "response XML too large: {} bytes".format(len(info['tei_xml']))
info.pop('tei_xml')
else:
# response.text is .content decoded as utf-8
info['status'] = 'error'
info['error_msg'] = grobid_response.text[:10000]
return info
def metadata(self, result):
if result['status'] != 'success':
return None
tei_json = teixml2json(result['tei_xml'], encumbered=False)
meta = dict()
biblio = dict()
for k in ('title', 'authors', 'journal', 'date', 'doi', ):
if tei_json.get(k):
biblio[k] = tei_json[k]
meta['biblio'] = biblio
for k in ('grobid_version', 'grobid_timestamp', 'fatcat_release', 'language_code'):
if tei_json.get(k):
meta[k] = tei_json[k]
return meta
class GrobidWorker(SandcrawlerWorker):
def __init__(self, grobid_client, wayback_client=None, sink=None, **kwargs):
super().__init__()
self.grobid_client = grobid_client
self.wayback_client = wayback_client
self.sink = sink
self.consolidate_mode = 2
def process(self, record):
if record.get('warc_path') and record.get('warc_offset'):
# it's a full CDX dict. fetch using WaybackClient
if not self.wayback_client:
raise Exception("wayback client not configured for this GrobidWorker")
try:
blob = self.wayback_client.fetch_warc_content(record['warc_path'],
record['warc_offset'], record['warc_csize'])
except WaybackError as we:
return dict(status="error-wayback", error_msg=str(we), source=record)
elif record.get('url') and record.get('datetime'):
# it's a partial CDX dict or something? fetch using WaybackClient
if not self.wayback_client:
raise Exception("wayback client not configured for this GrobidWorker")
try:
blob = self.wayback_client.fetch_url_datetime(record['url'], record['datetime'])
except WaybackError as we:
return dict(status="error-wayback", error_msg=str(we), source=record)
elif record.get('item') and record.get('path'):
# it's petabox link; fetch via HTTP
resp = requests.get("https://archive.org/serve/{}/{}".format(
record['item'], record['path']))
try:
resp.raise_for_status()
except Exception as e:
return dict(status="error-petabox", error_msg=str(e), source=record)
blob = resp.body
else:
raise ValueError("not a CDX (wayback) or petabox (archive.org) dict; not sure how to proceed")
if not blob:
return dict(status="error", error_msg="empty blob", source=record)
result = self.grobid_client.process_fulltext(blob, consolidate_mode=self.consolidate_mode)
result['file_meta'] = gen_file_metadata(blob)
result['source'] = record
result['key'] = result['file_meta']['sha1hex']
return result
class GrobidBlobWorker(SandcrawlerWorker):
"""
This is sort of like GrobidWorker, except it receives blobs directly,
instead of fetching blobs from some remote store.
"""
def __init__(self, grobid_client, sink=None, **kwargs):
super().__init__()
self.grobid_client = grobid_client
self.sink = sink
self.consolidate_mode = 2
def process(self, blob):
if not blob:
return None
result = self.grobid_client.process_fulltext(blob, consolidate_mode=self.consolidate_mode)
result['file_meta'] = gen_file_metadata(blob)
result['key'] = result['file_meta']['sha1hex']
return result
|
