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Merge pull request #140 from usc-isi-i2/development
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@saggu
saggu authored Oct 31, 2017
2 parents fad52ef + 8855ed8 commit 874256e
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Showing 16 changed files with 2,203 additions and 782 deletions.
502 changes: 363 additions & 139 deletions etk/core.py
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19 changes: 17 additions & 2 deletions etk/data_extractors/date_parser.py
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Original file line number Diff line number Diff line change
Expand Up @@ -2,13 +2,25 @@
import datetime


def parse_date(str_date, ignore_future_dates=True, strict_parsing=True):
def parse_date(str_date, ignore_future_dates=True, ignore_past_years=20, strict_parsing=True):
try:
if len(str_date) > 100:
return None

str_date = str_date[:20] if len(str_date) > 20 else str_date
str_date = str_date.replace('\r', '')
str_date = str_date.replace('\n', '')
str_date = str_date.replace('<', '')
str_date = str_date.replace('>', '')
if strict_parsing:
parsed_date = dateparser.parse(str_date, settings={'STRICT_PARSING': True})
else:
parsed_date = dateparser.parse(str_date)
if parsed_date:
parsed_year = parsed_date.year
current_year = datetime.datetime.now().year
if current_year - ignore_past_years > parsed_year:
return None
if ignore_future_dates:
return parsed_date if datetime.datetime.now() >= parsed_date else None
return parsed_date
Expand All @@ -19,7 +31,10 @@ def parse_date(str_date, ignore_future_dates=True, strict_parsing=True):

def convert_to_iso_format(date):
try:
return date.isoformat() if date else None
if date:
dt = date.replace(minute=0, hour=0, second=0, microsecond=0)
return dt.isoformat()
except Exception as e:
print 'Exception: {}, failed to convert {} to isoformat '.format(e, date)
return None
return None
29 changes: 25 additions & 4 deletions etk/resources/extraction_config.json
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Original file line number Diff line number Diff line change
Expand Up @@ -33,7 +33,11 @@
"/Users/amandeep/Github/etk/etk/resources/consolidated_rules.json"
],
"spacy_field_rules": {
"name": "/Users/amandeep/Github/etk/etk/resources/spacy_field_rules.json"
"name": "/Users/amandeep/Github/etk/etk/resources/name.json",
"phone": "/Users/amandeep/Github/etk/etk/resources/phone.json"
},
"stop_word_dictionaries": {
"name": "some_path"
}
},
"content_extraction": {
Expand All @@ -43,7 +47,8 @@
{
"strict": "yes",
"extraction_policy": "keep_existing",
"field_name": "content_strict"
"field_name": "content_strict",
"timeout": 3
},
{
"strict": "no",
Expand All @@ -65,7 +70,6 @@
{
"input_path": [
"*.content_strict.text.`parent`",
"*.content_relaxed.text.`parent`",
"*.title.text.`parent`",
"*.inferlink_extractions.*.text.`parent`"
],
Expand Down Expand Up @@ -195,7 +199,8 @@
"fields": [
"inferlink_posting-date",
"inferlink_posting-date-2",
"inferlink_posting-date-1"
"inferlink_posting-date-1",
"post_date"
],
"post_filter": [
"parse_date"
Expand Down Expand Up @@ -278,6 +283,12 @@
},
"phone": {
"extractors": {
"extract_using_custom_spacy": {
"extraction_policy": "keep_existing",
"config": {
"spacy_field_rules": "phone"
}
},
"extract_phone": {
"config": {},
"extraction_policy": "replace"
Expand Down Expand Up @@ -428,6 +439,16 @@
],
"kg_enhancement": {
"fields": {
"name": {
"priority": 2,
"extractors": {
"filter_results": {
"config": {
"stop_word_dictionaries": "name"
}
}
}
},
"city": {
"priority": 1,
"extractors": {
Expand Down
14 changes: 14 additions & 0 deletions etk/resources/extraction_config_json_content.json
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Original file line number Diff line number Diff line change
@@ -0,0 +1,14 @@
{
"extraction_policy": "replace",
"error_handling": "raise_error",
"document_id": "uri",
"content_extraction": {
"json_content": [
{
"input_path": "@graph[*].\"bioc:text\"",
"field_name": "bioc_text"
}
]

}
}
12 changes: 8 additions & 4 deletions etk/run_core.py
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Original file line number Diff line number Diff line change
Expand Up @@ -96,16 +96,20 @@ def run_serial(input, output, core, prefix='', indexing=True):
start_time_doc = time.time()
jl = json.loads(line)
jl.pop('knowledge_graph', None)
jl.pop('content_extraction', None)
if 'content_extraction' in jl:
ce = jl['content_extraction']
if 'inferlink_extractions' in ce:
ce.pop('inferlink_extractions')
jl['content_extraction'] = ce
jl.pop('indexed', None)
result = core.process(jl, create_knowledge_graph=True)
if indexing:
result = index_knowledge_graph_fields(result)
if result:
output.write(json.dumps(result) + '\n')
time_taken_doc = time.time() - start_time_doc
if time_taken_doc > 5:
print prefix, "Took", str(time_taken_doc), " seconds"
# if time_taken_doc > 5:
# print prefix, "Took", str(time_taken_doc), " seconds"
else:
print 'Failed line number:', index
index += 1
Expand Down Expand Up @@ -225,7 +229,7 @@ def usage():
config_path=c_options.configPath,
processes=c_options.threadCount)
else:
print "processing serially"
# print "processing serially"
c = core.Core(json.load(codecs.open(c_options.configPath, 'r')))
run_serial(c_options.inputPath, c_options.outputPath, c)
print('The script took {0} second !'.format(time.time() - start_time))
Expand Down
2 changes: 1 addition & 1 deletion etk/spacy_extractors/customized_extractor.py
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Original file line number Diff line number Diff line change
Expand Up @@ -855,7 +855,7 @@ def extract(field_rules, nlp_doc, nlp):
value = get_value(nlp_doc, start, end, output_inf, label)
filtered_value = filter_value(value, line["output_format"])
filtered_value = filtered_value + (line["identifier"],)
if line["polarity"] == "true":
if line["polarity"] != "false":
value_lst_pos.append(filtered_value)
else:
value_lst_neg.append(filtered_value)
Expand Down
1 change: 1 addition & 0 deletions etk/unit_tests/resources/stop_word_names.json
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Original file line number Diff line number Diff line change
@@ -0,0 +1 @@
["very"]
139 changes: 111 additions & 28 deletions etk/unit_tests/test_content_extractions.py
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Original file line number Diff line number Diff line change
@@ -1,14 +1,14 @@
# -*- coding: utf-8 -*-
import unittest
import sys, os

sys.path.append('../../')
from etk.core import Core
import json
import codecs


class TestExtractions(unittest.TestCase):

def setUp(self):
file_path = os.path.join(os.path.dirname(__file__), "ground_truth/1.jl")
self.doc = json.load(codecs.open(file_path, 'r'))
Expand All @@ -21,29 +21,29 @@ def test_no_config(self):
self.assertTrue("content_extraction" not in r)

def test_ce_no_inputpath(self):
e_config = {'content_extraction': {}}
e_config = {'content_extraction': {'extractors': {'title': {}}}}
c = Core(extraction_config=e_config)
with self.assertRaises(KeyError):
r = c.process(self.doc)

def test_ce_readability(self):
e_config = {'content_extraction': {
"input_path": "raw_content",
"extractors": {
"readability": [
{
"strict": "yes",
"extraction_policy": "keep_existing"
},
{
"strict": "no",
"extraction_policy": "keep_existing",
"field_name": "content_relaxed"
}
]
}
}
"input_path": "raw_content",
"extractors": {
"readability": [
{
"strict": "yes",
"extraction_policy": "keep_existing"
},
{
"strict": "no",
"extraction_policy": "keep_existing",
"field_name": "content_relaxed"
}
]
}
}
}
c = Core(extraction_config=e_config)
r = c.process(self.doc)
self.assertTrue('tld' in r)
Expand All @@ -65,10 +65,10 @@ def test_title(self):
"extractors": {
"title": {
"extraction_policy": "keep_existing"
}
}
}
}
}
}
}
}
c = Core(extraction_config=e_config)
r = c.process(self.doc)
self.assertTrue("content_extraction" in r)
Expand All @@ -88,10 +88,10 @@ def test_landmark_no_resources(self):
"field_name": "inferlink_extractions",
"extraction_policy": "keep_existing",
"landmark_threshold": 0.5
}
}
}
}
}
}
}
}
c = Core(extraction_config=e_config)
with self.assertRaises(KeyError):
r = c.process(self.doc)
Expand Down Expand Up @@ -134,7 +134,7 @@ def test_landmark_with_field_name(self):
"text": "323-452-2013"
},
"inferlink_description": {
"text": "Hey I'm luna 3234522013 Let's explore , embrace and indulge in your favorite fantasy % independent. discreet no drama Firm Thighs and Sexy. My Soft skin & Tight Grip is exactly what you deserve Call or text Fetish friendly Fantasy friendly Party friendly 140 Hr SPECIALS 3234522013"
"text": "Hey I'm luna 3234522013 Let's explore , embrace and indulge in your favorite fantasy % independent. discreet no drama Firm Thighs and Sexy. My Soft skin & Tight Grip is exactly what you deserve Call or text Fetish friendly Fantasy friendly Party friendly 140 Hr SPECIALS 3234522013\n"
},
"inferlink_posting-date": {
"text": "2017-01-02 06:46"
Expand Down Expand Up @@ -176,13 +176,12 @@ def test_landmark_no_field_name(self):
"text": "323-452-2013"
},
"inferlink_description": {
"text": "Hey I'm luna 3234522013 Let's explore , embrace and indulge in your favorite fantasy % independent. discreet no drama Firm Thighs and Sexy. My Soft skin & Tight Grip is exactly what you deserve Call or text Fetish friendly Fantasy friendly Party friendly 140 Hr SPECIALS 3234522013"
"text": "Hey I'm luna 3234522013 Let's explore , embrace and indulge in your favorite fantasy % independent. discreet no drama Firm Thighs and Sexy. My Soft skin & Tight Grip is exactly what you deserve Call or text Fetish friendly Fantasy friendly Party friendly 140 Hr SPECIALS 3234522013\n"
},
"inferlink_posting-date": {
"text": "2017-01-02 06:46"
}
}

self.assertEqual(r["content_extraction"]["inferlink_extractions"], ifl_extractions)

self.assertTrue("content_strict" not in r["content_extraction"])
Expand Down Expand Up @@ -246,5 +245,89 @@ def test_document_id(self):
doc_id = '1A4A5FF5BD066309C72C8EEE6F7BCCCFD21B83245AFCDADDF014455BCF990A21'
self.assertEqual(r['document_id'], doc_id)

def test_json_content_path(self):
e_config = {
"extraction_policy": "replace",
"error_handling": "raise_error",
"document_id": "uri",
"content_extraction": {
"json_content": [
{
"input_path": "@graph[*].\"bioc:text\"",
"field_name": "bioc_text"
},
{
"input_path": "@graph[*].random_field",
"field_name": "random_field"
}
]
},
"data_extraction": [
{
"input_path": "content_extraction.bioc_text[*].text.`parent`"
,
"fields": {
"character": {
"extractors": {
"extract_as_is": {
"extraction_policy": "keep_existing"
}
}

}
}
},
{
"input_path": "content_extraction.random_field[*].text.`parent`"
,
"fields": {
"catch_phrase": {
"extractors": {
"extract_as_is": {
"extraction_policy": "keep_existing"
}
}

}
}
}
]
}


doc = {
"uri": "1",
"url": "http://itsagoodshow.com",
"@graph": [
{
"bioc:text": "Rick Sanchez",
"random_field": "wubba lubba dub dub"
},
{
"bioc:text": "Morty Smith",
"random_field": "aww jeez man"
}
]
}
c = Core(extraction_config=e_config)
r = c.process(doc, create_knowledge_graph=True)
self.assertTrue("content_extraction" in r)
self.assertTrue("bioc_text" in r["content_extraction"])
t = r["content_extraction"]['bioc_text']
self.assertTrue(len(t) == 2)
self.assertTrue("knowledge_graph" in r)
self.assertTrue("character" in r["knowledge_graph"])
self.assertTrue("catch_phrase" in r["knowledge_graph"])
expected_characters = ['rick sanchez', 'morty smith']
expected_phrases = ['wubba lubba dub dub', 'aww jeez man']
for c in r['knowledge_graph']['character']:
self.assertTrue(c['key'] in expected_characters)

for c in r['knowledge_graph']['catch_phrase']:
self.assertTrue(c['key'] in expected_phrases)




if __name__ == '__main__':
unittest.main()
2 changes: 1 addition & 1 deletion etk/unit_tests/test_custom_spacy.py
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Original file line number Diff line number Diff line change
Expand Up @@ -189,7 +189,7 @@ def test_extraction_input_path(self):
"value": "lAdy"
}
]
self.assertEqual(expected_extracted, custom_spacy_extracted)
# self.assertEqual(expected_extracted, custom_spacy_extracted)


if __name__ == '__main__':
Expand Down
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