-
Notifications
You must be signed in to change notification settings - Fork 0
/
flow_0.py
176 lines (163 loc) · 7.11 KB
/
flow_0.py
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
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
import mysql.connector as mariadb
import json
import gzip, toml
import os
import prefect
from prefect import flow, task, get_run_logger
from pathlib import Path
from utils.utils import *
from utils.components import *
from utils.diff import *
import warnings
warnings.filterwarnings("ignore")
from pathlib import Path
@task(name="extract_text_init", log_prints=True)
def extract_text_init(database: dict, logger) -> Path:
"""
Get text labdocs and possible initial texts (teacher)
"""
# query = """
# SELECT t1.id_labdoc, t1.id_report, t1.id_ld_origin, t1.type_labdoc, t2.name, t2.labdoc_data
# FROM labdoc t1
# LEFT JOIN labdoc t2 ON t2.id_labdoc = t1.id_ld_origin
# WHERE t1.type_labdoc = 'text' AND t1.id_report IS NOT NULL
# AND t2.labdoc_data IS NOT NULL AND t2.labdoc_data != '' AND t2.labdoc_data != '<p>.</p>'
# ORDER BY t1.id_labdoc ASC
# """
if not os.path.exists("data/tmp"):
os.makedirs("data/tmp")
query = """
SELECT t1.id_labdoc, t1.id_report, t1.id_ld_origin, t1.type_labdoc, t2.name, t2.labdoc_data
FROM labdoc t1
LEFT JOIN labdoc t2 ON t2.id_labdoc = t1.id_ld_origin
WHERE t1.type_labdoc = 'text' AND t1.id_report IS NOT NULL
ORDER BY t1.id_labdoc ASC
"""
try:
conn = mariadb.connect(
user=database["user"],
password=database["password"],
host=database["host"],
database=database["database_name"],
)
except mariadb.Error as e:
logger.critical(f"Error connecting to MariaDB Platform: {e}")
cur = conn.cursor()
cur.execute(query)
# data is on the form {'id_labdoc': labdoc_data}
data = {}
for row in cur:
data[row[0]] = row[5]
cur.close()
conn.close()
with gzip.open(
"data/tmp/0_labdocs_texts_init.json.gz", "wt", encoding="utf-8"
) as zipfile:
json.dump(data, zipfile, ensure_ascii=False, indent=4)
logger.info(f"The total number of LabDoc is {len(data.keys())}")
return Path("data/tmp/0_labdocs_texts_init.json.gz")
# ----------------------------------------------------------------------------------------
@task(name="extract_text", log_prints=True)
def extract_text(config: dict, logger, path:Path) -> Path:
"""
Description:
Extracts the text of each version of labdoc by removing the html tags and clean texts according to regex patterns.
-------
output:
dict[id_report][id_labdoc] = list([text, user, id_trace])`
exemple:
{"29502":
{"272580": [
["Les plus importantes...", "8514", 5541929],
["Les Plus importantes...", "8513", 5541935]]
}
}
"""
regex_text_patterns = config["regex_text_patterns"]
id_missions = selected_missions(config["missions"])
# Get id's of initial labdocs texts
with gzip.open(
path, "rt", encoding="utf-8"
) as zipfile:
labdoc_text_init = json.load(zipfile)
# pbar = tqdm.tqdm(total=len(id_missions),ascii=' >=',colour='green',desc='Missions')
nb_missions = 0
nb_labdocs = 0
logger.info(f"Number of missions in the versioning folder = {len(id_missions)}")
for id_mission in id_missions:
data_out = {}
path = f"data/versioning/{id_mission}/"
labdocs_filenames = [
f
for f in os.listdir(path)
if os.path.isfile(os.path.join(path, f)) and not f.startswith(".")
]
for labdoc_filename in labdocs_filenames:
labdoc = str(int(labdoc_filename[:-8]))
if labdoc in labdoc_text_init:
nb_labdocs += 1
with gzip.open(
path + labdoc_filename, "rt", encoding="utf-8"
) as zipfile:
if zipfile:
data_in = json.load(zipfile)
id_report = data_in["id_report"]
id_labdoc = data_in["id_labdoc"]
if id_report not in data_out:
data_out[id_report] = {}
if id_labdoc not in data_out[id_report]:
data_out[id_report][id_labdoc] = []
# Etat initial
initial_html = labdoc_text_init[labdoc]
if initial_html:
initial_text = clean_text(
initial_html, regex_text_patterns
)
if initial_text:
# data_out[id_report][id_labdoc].append([{'text':initial_text,'id_user':'ens','id_trace':0}])
data_out[id_report][id_labdoc].append(
[initial_text, "ens", 0]
)
for content in data_in["contents"]:
id_user = content["id_user"]
id_trace = content["id_trace"]
html = content["data"]
if html:
text = clean_text(html, regex_text_patterns)
if text:
# data_out[id_report][id_labdoc].append([{'text':text,'id_user':str(id_user),'id_trace':id_trace}])
data_out[id_report][id_labdoc].append(
[text, str(id_user), id_trace]
)
if not data_out[id_report][id_labdoc]:
del data_out[id_report][id_labdoc]
if data_out:
Path("data/tmp/0_missions_texts").mkdir(parents=True, exist_ok=True)
with gzip.open(
f"data/tmp/0_missions_texts/{id_mission}.json.gz", "wt", encoding="utf-8"
) as zipfile:
json.dump(data_out, zipfile, ensure_ascii=False, indent=-1)
nb_missions += 1
logger.info(
f"Mission {id_mission} finished. There is still {len(id_missions) - nb_missions} missions"
)
logger.info(f"Number of mission treated = {nb_missions}")
logger.info(f"Number of labdoc treated = {nb_labdocs}")
return Path("data/tmp/0_missions_texts")
# ----------------------------------------------------------------
@flow(
name="flow_0",
description="First, get the id of text labdocs as well as the initial texts (with html tags) written by teachers. These step need access to the local database LabNbook, Secondly, extracts the text of each version of labdoc by removing the html tags and clean texts according to regex patterns.",
)
def run_flow_0(config: dict):
logger = get_run_logger()
try:
path = extract_text_init(config["database"], logger=logger)
path_for_flow_1 = extract_text(config, logger=logger, path=path)
except Exception as e:
logger.critical(f"The following Exception occurred {e}")
return path_for_flow_1
# if __name__ == "__main__":
# with open("pyproject.toml", "r") as f:
# config = toml.loads(f.read())
# run_flow_0(config=config)