-
Notifications
You must be signed in to change notification settings - Fork 5
/
file.py
417 lines (350 loc) · 11.6 KB
/
file.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
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
211
212
213
214
215
216
217
218
219
220
221
222
223
224
225
226
227
228
229
230
231
232
233
234
235
236
237
238
239
240
241
242
243
244
245
246
247
248
249
250
251
252
253
254
255
256
257
258
259
260
261
262
263
264
265
266
267
268
269
270
271
272
273
274
275
276
277
278
279
280
281
282
283
284
285
286
287
288
289
290
291
292
293
294
295
296
297
298
299
300
301
302
303
304
305
306
307
308
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
326
327
328
329
330
331
332
333
334
335
336
337
338
339
340
341
342
343
344
345
346
347
348
349
350
351
352
353
354
355
356
357
358
359
360
361
362
363
364
365
366
367
368
369
370
371
372
373
374
375
376
377
378
379
380
381
382
383
384
385
386
387
388
389
390
391
392
393
394
395
396
397
398
399
400
401
402
403
404
405
406
407
408
409
410
411
412
413
414
415
416
417
"""Api routes"""
import requests
import sys
import traceback
import urllib
from askomics.api.auth import login_required, api_auth
from askomics.libaskomics.FilesHandler import FilesHandler
from askomics.libaskomics.FilesUtils import FilesUtils
from askomics.libaskomics.Dataset import Dataset
from askomics.libaskomics.RdfFile import RdfFile
from flask import (Blueprint, current_app, jsonify, request, send_from_directory, session)
file_bp = Blueprint('file', __name__, url_prefix='/')
@file_bp.route('/api/files', methods=['GET', 'POST'])
@api_auth
@login_required
def get_files():
"""Get files info of the logged user
Returns
-------
json
files: list of all files of current user
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
files_id = None
if request.method == 'POST':
data = request.get_json()
if data:
files_id = data.get('filesId')
try:
files_handler = FilesHandler(current_app, session)
files = files_handler.get_files_infos(files_id=files_id)
disk_space = files_handler.get_size_occupied_by_user()
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
'files': [],
'diskSpace': 0,
'error': True,
'errorMessage': str(e)
}), 500
return jsonify({
'files': files,
'diskSpace': disk_space,
'error': False,
'errorMessage': ''
})
@file_bp.route('/api/files/editname', methods=['POST'])
@api_auth
@login_required
def edit_file():
"""Edit file name
Returns
-------
json
files: list of all files of current user
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
data = request.get_json()
current_app.logger.debug(data)
if not (data and data.get("id") and data.get("newName")):
return jsonify({
'files': [],
'diskSpace': 0,
'error': True,
'errorMessage': "Missing parameters"
}), 400
files_id = [data["id"]]
new_name = data["newName"]
try:
files_handler = FilesHandler(current_app, session)
files_handler.handle_files(files_id)
for file in files_handler.files:
file.edit_name_in_db(new_name)
files = files_handler.get_files_infos()
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
'files': [],
'diskSpace': 0,
'error': True,
'errorMessage': str(e)
}), 500
return jsonify({
'files': files,
'diskSpace': files_handler.get_size_occupied_by_user(),
'error': False,
'errorMessage': ''
})
@file_bp.route('/api/files/upload_chunk', methods=['POST'])
@api_auth
@login_required
def upload_chunk():
"""Upload a file chunk
Returns
-------
json
path: name of the local file. To append the next chunk into it
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
files_utils = FilesUtils(current_app, session)
disk_space = files_utils.get_size_occupied_by_user() if "user" in session else None
if session["user"]["quota"] > 0 and disk_space >= session["user"]["quota"]:
return jsonify({
'errorMessage': "Exceeded quota",
"path": '',
"error": True
}), 400
data = request.get_json()
if not (data and all([key in data for key in ["first", "last", "size", "name", "type", "size", "chunk"]])):
return jsonify({
"path": '',
"error": True,
"errorMessage": "Missing parameters"
}), 400
if not (data["first"] or data.get("path")):
return jsonify({
"path": '',
"error": True,
"errorMessage": "Missing path parameter"
}), 400
try:
files = FilesHandler(current_app, session)
path = files.persist_chunk(data)
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
"path": '',
"error": True,
"errorMessage": str(e)
}), 500
return jsonify({
"path": path,
"error": False,
"errorMessage": ""
})
@file_bp.route('/api/files/upload_url', methods=["POST"])
@api_auth
@login_required
def upload_url():
"""Upload a distant file with an URL
Returns
-------
json
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
files_utils = FilesUtils(current_app, session)
disk_space = files_utils.get_size_occupied_by_user() if "user" in session else None
if session["user"]["quota"] > 0 and disk_space >= session["user"]["quota"]:
return jsonify({
'errorMessage': "Exceeded quota",
"error": True
}), 400
data = request.get_json()
if not (data and data.get("url")):
return jsonify({
"error": True,
"errorMessage": "Missing url parameter"
}), 400
try:
if session["user"]["quota"] > 0:
with requests.get(data["url"], stream=True) as r:
# Check header for total size, and check quota.
if r.headers.get('Content-length'):
total_size = int(r.headers.get('Content-length')) + disk_space
if total_size >= session["user"]["quota"]:
return jsonify({
'errorMessage': "File will exceed quota",
"error": True
}), 400
session_dict = {'user': session['user']}
current_app.celery.send_task('download_file', (session_dict, data["url"]))
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
"error": True,
"errorMessage": str(e)
}), 500
return jsonify({
"error": False,
"errorMessage": ""
})
@file_bp.route('/api/files/preview', methods=['POST'])
@api_auth
@login_required
def get_preview():
"""Get files preview
Returns
-------
json
previewFiles: preview of selected files
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
data = request.get_json()
if not (data and data.get('filesId')):
return jsonify({
'previewFiles': [],
'error': True,
'errorMessage': "Missing filesId parameter"
}), 400
try:
files_handler = FilesHandler(current_app, session)
files_handler.handle_files(data['filesId'])
results = []
for file in files_handler.files:
file.set_preview()
res = file.get_preview()
results.append(res)
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
'previewFiles': [],
'error': True,
'errorMessage': str(e)
}), 500
return jsonify({
'previewFiles': results,
'error': False,
'errorMessage': ''
})
@file_bp.route('/api/files/delete', methods=['POST'])
@api_auth
@login_required
def delete_files():
"""Delete files
Returns
-------
json
files: list of all files of current user
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
data = request.get_json()
if not (data and data.get('filesIdToDelete')):
return jsonify({
'files': [],
'error': True,
'errorMessage': "Missing filesIdToDelete parameter"
}), 400
try:
files = FilesHandler(current_app, session)
remaining_files = files.delete_files(data.get('filesIdToDelete', []))
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
'files': [],
'error': True,
'errorMessage': str(e)
}), 500
return jsonify({
'files': remaining_files,
'error': False,
'errorMessage': ''
})
@file_bp.route('/api/files/integrate', methods=['POST'])
@api_auth
@login_required
def integrate():
"""Integrate a file
Returns
-------
json
datasets_id: dataset ids
error: True if error, else False
errorMessage: the error message of error, else an empty string
"""
data = request.get_json()
if not (data and data.get("fileId")):
return jsonify({
'error': True,
'errorMessage': "Missing fileId parameter",
'dataset_ids': None
}), 400
session_dict = {'user': session['user']}
task = None
dataset_ids = []
try:
files_handler = FilesHandler(current_app, session, host_url=request.host_url)
files_handler.handle_files([data["fileId"], ])
for file in files_handler.files:
data["externalEndpoint"] = data["externalEndpoint"] if (data.get("externalEndpoint") and isinstance(file, RdfFile)) else None
data["externalGraph"] = data["externalGraph"] if (data.get("externalGraph") and isinstance(file, RdfFile)) else None
data["customUri"] = data["customUri"] if (data.get("customUri") and not isinstance(file, RdfFile)) else None
dataset_info = {
"celery_id": None,
"file_id": file.id,
"name": file.human_name,
"graph_name": file.file_graph,
"public": (data.get("public", False) if session["user"]["admin"] else False) or current_app.iniconfig.getboolean("askomics", "single_tenant", fallback=False)
}
endpoint = data["externalEndpoint"] or current_app.iniconfig.get('triplestore', 'endpoint')
dataset = Dataset(current_app, session, dataset_info)
dataset.save_in_db(endpoint, data["externalGraph"])
data["dataset_id"] = dataset.id
dataset_ids.append(dataset.id)
task = current_app.celery.send_task('integrate', (session_dict, data, request.host_url))
dataset.update_celery(task.id)
except Exception as e:
traceback.print_exc(file=sys.stdout)
return jsonify({
'error': True,
'errorMessage': str(e),
'dataset_ids': None
}), 500
return jsonify({
'error': False,
'errorMessage': '',
'dataset_ids': dataset_ids
})
@file_bp.route('/api/files/ttl/<path:user_id>/<path:username>/<path:path>', methods=['GET'])
@api_auth
def serve_file(path, user_id, username):
"""Serve a static ttl file of a user
Parameters
----------
path : string
The file path to serve
user_id : int
user id
username : string
username
Returns
-------
file
the file
"""
# Re-encode the path because we stored the encoded file name
path = urllib.parse.quote(path)
dir_path = "{}/{}_{}/ttl".format(
current_app.iniconfig.get('askomics', 'data_directory'),
user_id,
username
)
return send_from_directory(dir_path, path)
@file_bp.route('/api/files/columns', methods=['GET'])
def get_column_types():
"""Give the list of available column types
Returns
-------
json
types: list of available column types
"""
data = ["numeric", "text", "category", "boolean", "date", "reference", "strand", "start", "end", "general_relation", "symetric_relation", "indirect_relation", "label"]
return jsonify({
"types": data
})