test_api.py 38.3 KB
Newer Older
Markus Scheidgen's avatar
Markus Scheidgen committed
1
2
3
4
5
6
7
8
9
10
11
12
13
14
# Copyright 2018 Markus Scheidgen
#
# Licensed under the Apache License, Version 2.0 (the "License");
# you may not use this file except in compliance with the License.
# You may obtain a copy of the License at
#
#   http://www.apache.org/licenses/LICENSE-2.0
#
# Unless required by applicable law or agreed to in writing, software
# distributed under the License is distributed on an"AS IS" BASIS,
# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
# See the License for the specific language governing permissions and
# limitations under the License.

15
16
17
import pytest
import time
import json
18
import base64
19
20
import zipfile
import io
21
import inspect
22
from passlib.hash import bcrypt
Markus Scheidgen's avatar
Markus Scheidgen committed
23
import datetime
24

Markus Scheidgen's avatar
Markus Scheidgen committed
25
from nomad.api.app import rfc3339DateTime
Markus Scheidgen's avatar
Markus Scheidgen committed
26
from nomad import coe_repo, search, parsing, files, config
27
28
from nomad.files import UploadFiles, PublicUploadFiles
from nomad.processing import Upload, Calc, SUCCESS
29
from nomad.datamodel import UploadWithMetadata, CalcWithMetadata
30

31
from tests.conftest import create_auth_headers, clear_elastic
32
from tests.test_files import example_file, example_file_mainfile, example_file_contents
33
from tests.test_files import create_staging_upload, create_public_upload, assert_upload_files
34
from tests.test_coe_repo import assert_coe_upload
35
from tests.test_search import assert_search_upload
36
37


38
39
40
41
42
def test_alive(client):
    rv = client.get('/alive')
    assert rv.status_code == 200


43
44
45
46
47
48
49
@pytest.fixture(scope='function')
def test_user_signature_token(client, test_user_auth):
    rv = client.get('/auth/token', headers=test_user_auth)
    assert rv.status_code == 200
    return json.loads(rv.data)['token']


50
51
52
53
54
55
56
57
def get_upload_with_metadata(upload: dict) -> UploadWithMetadata:
    """ Create a :class:`UploadWithMetadata` from a API upload json record. """
    return UploadWithMetadata(
        upload_id=upload['upload_id'], calcs=[
            CalcWithMetadata(calc_id=calc['calc_id'], mainfile=calc['mainfile'])
            for calc in upload['calcs']['results']])


58
59
60
61
62
class TestInfo:
    def test_info(self, client):
        rv = client.get('/info/')
        assert rv.status_code == 200

63

64
class TestAdmin:
Markus Scheidgen's avatar
Markus Scheidgen committed
65
    @pytest.mark.timeout(config.tests.default_timeout)
66
67
    def test_reset(self, client, admin_user_auth, expandable_postgres, monkeypatch):
        monkeypatch.setattr('nomad.config.services.disable_reset', False)
68
69
70
        rv = client.post('/admin/reset', headers=admin_user_auth)
        assert rv.status_code == 200

Markus Scheidgen's avatar
Markus Scheidgen committed
71
    @pytest.mark.timeout(config.tests.default_timeout)
72
73
    def test_remove(self, client, admin_user_auth, expandable_postgres, monkeypatch):
        monkeypatch.setattr('nomad.config.services.disable_reset', False)
74
75
        rv = client.post('/admin/remove', headers=admin_user_auth)
        assert rv.status_code == 200
76
77
78
79
80
81

    def test_doesnotexist(self, client, admin_user_auth):
        rv = client.post('/admin/doesnotexist', headers=admin_user_auth)
        assert rv.status_code == 404

    def test_only_admin(self, client, test_user_auth):
Markus Scheidgen's avatar
Markus Scheidgen committed
82
        rv = client.post('/admin/reset', headers=test_user_auth)
83
84
        assert rv.status_code == 401

85
86
    def test_disabled(self, client, admin_user_auth, expandable_postgres, monkeypatch):
        monkeypatch.setattr('nomad.config.services.disable_reset', True)
87
88
89
90
        rv = client.post('/admin/reset', headers=admin_user_auth)
        assert rv.status_code == 400


91
class TestAuth:
92
    def test_xtoken_auth(self, client, test_user: coe_repo.User, no_warn):
93
        rv = client.get('/uploads/', headers={
94
            'X-Token': test_user.first_name.lower()  # the test users have their firstname as tokens for convinience
95
        })
96

97
        assert rv.status_code == 200
Markus Scheidgen's avatar
Markus Scheidgen committed
98

99
    def test_xtoken_auth_denied(self, client, no_warn, postgres):
100
101
102
        rv = client.get('/uploads/', headers={
            'X-Token': 'invalid'
        })
Markus Scheidgen's avatar
Markus Scheidgen committed
103

104
        assert rv.status_code == 401
105

106
107
108
    def test_basic_auth(self, client, test_user_auth, no_warn):
        rv = client.get('/uploads/', headers=test_user_auth)
        assert rv.status_code == 200
109

110
111
112
113
114
115
116
    def test_basic_auth_denied(self, client, no_warn):
        basic_auth_base64 = base64.b64encode('invalid'.encode('utf-8')).decode('utf-8')
        rv = client.get('/uploads/', headers={
            'Authorization': 'Basic %s' % basic_auth_base64
        })
        assert rv.status_code == 401

117
    def test_get_user(self, client, test_user_auth, test_user: coe_repo.User, no_warn):
118
119
        rv = client.get('/auth/user', headers=test_user_auth)
        assert rv.status_code == 200
120
121
122
        self.assert_user(client, json.loads(rv.data))

    def assert_user(self, client, user):
123
124
125
126
127
128
129
        for key in ['first_name', 'last_name', 'email', 'token']:
            assert key in user

        rv = client.get('/uploads/', headers={
            'X-Token': user['token']
        })

130
131
        assert rv.status_code == 200

132
133
134
    def test_signature_token(self, test_user_signature_token, no_warn):
        assert test_user_signature_token is not None

135
136
137
138
139
140
141
142
143
144
145
    @pytest.mark.parametrize('token, affiliation', [
        ('test_token', dict(name='HU Berlin', address='Unter den Linden 6')),
        (None, None)])
    def test_put_user(self, client, postgres, admin_user_auth, token, affiliation):
        data = dict(
            email='test@email.com', last_name='Tester', first_name='Testi',
            token=token, affiliation=affiliation,
            password=bcrypt.encrypt('test_password', ident='2y'))

        data = {key: value for key, value in data.items() if value is not None}

146
147
        rv = client.put(
            '/auth/user', headers=admin_user_auth,
148
            content_type='application/json', data=json.dumps(data))
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

        assert rv.status_code == 200
        self.assert_user(client, json.loads(rv.data))

    def test_put_user_admin_only(self, client, test_user_auth):
        rv = client.put(
            '/auth/user', headers=test_user_auth,
            content_type='application/json', data=json.dumps(dict(
                email='test@email.com', last_name='Tester', first_name='Testi',
                password=bcrypt.encrypt('test_password', ident='2y'))))
        assert rv.status_code == 401

    def test_put_user_required_field(self, client, admin_user_auth):
        rv = client.put(
            '/auth/user', headers=admin_user_auth,
            content_type='application/json', data=json.dumps(dict(
                email='test@email.com', password=bcrypt.encrypt('test_password', ident='2y'))))
        assert rv.status_code == 400

    def test_post_user(self, client, postgres, admin_user_auth):
        rv = client.put(
            '/auth/user', headers=admin_user_auth,
            content_type='application/json', data=json.dumps(dict(
                email='test@email.com', last_name='Tester', first_name='Testi',
                password=bcrypt.encrypt('test_password', ident='2y'))))

        assert rv.status_code == 200
        user = json.loads(rv.data)

        rv = client.post(
            '/auth/user', headers={'X-Token': user['token']},
            content_type='application/json', data=json.dumps(dict(
                last_name='Tester', first_name='Testi v.',
                password=bcrypt.encrypt('test_password_changed', ident='2y'))))
        assert rv.status_code == 200
        self.assert_user(client, json.loads(rv.data))

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

class TestUploads:

    def assert_uploads(self, upload_json_str, count=0, **kwargs):
        data = json.loads(upload_json_str)
        assert isinstance(data, list)
        assert len(data) == count

        if count > 0:
            self.assert_upload(json.dumps(data[0]), **kwargs)

    def assert_upload(self, upload_json_str, id=None, **kwargs):
        data = json.loads(upload_json_str)
        assert 'upload_id' in data
        if id is not None:
            assert id == data['upload_id']
        assert 'create_time' in data

        for key, value in kwargs.items():
            assert data.get(key, None) == value

        return data

    def assert_processing(self, client, test_user_auth, upload_id):
        upload_endpoint = '/uploads/%s' % upload_id

        # poll until completed
213
        upload = self.block_until_completed(client, upload_id, test_user_auth)
214
215

        assert len(upload['tasks']) == 4
216
        assert upload['tasks_status'] == SUCCESS
217
        assert upload['current_task'] == 'cleanup'
218
        assert not upload['process_running']
219

220
221
        calcs = upload['calcs']['results']
        for calc in calcs:
222
            assert calc['tasks_status'] == SUCCESS
223
224
            assert calc['current_task'] == 'archiving'
            assert len(calc['tasks']) == 3
225
            assert client.get('/archive/logs/%s/%s' % (calc['upload_id'], calc['calc_id']), headers=test_user_auth).status_code == 200
226
227

        if upload['calcs']['pagination']['total'] > 1:
228
            rv = client.get('%s?page=2&per_page=1&order_by=tasks_status' % upload_endpoint, headers=test_user_auth)
229
230
231
232
            assert rv.status_code == 200
            upload = self.assert_upload(rv.data)
            assert len(upload['calcs']['results']) == 1

233
234
        upload_with_metadata = get_upload_with_metadata(upload)
        assert_upload_files(upload_with_metadata, files.StagingUploadFiles)
235
        assert_search_upload(upload_with_metadata, additional_keys=['atoms', 'system'])
236

237
    def assert_published(self, client, test_user_auth, upload_id, proc_infra, with_coe_repo=True, metadata={}):
238
239
        rv = client.get('/uploads/%s' % upload_id, headers=test_user_auth)
        upload = self.assert_upload(rv.data)
240
241

        upload_with_metadata = get_upload_with_metadata(upload)
242

243
244
245
        rv = client.post(
            '/uploads/%s' % upload_id,
            headers=test_user_auth,
246
            data=json.dumps(dict(operation='publish', metadata=metadata)),
247
            content_type='application/json')
248
        assert rv.status_code == 200
249
        upload = self.assert_upload(rv.data)
250
        assert upload['current_process'] == 'publish_upload'
251
        assert upload['process_running']
252

253
        additional_keys = ['with_embargo']
254
        if with_coe_repo:
255
            additional_keys.append('pid')
256

257
258
259
260
261
262
263
        self.block_until_completed(client, upload_id, test_user_auth)
        upload_proc = Upload.objects(upload_id=upload_id).first()
        assert upload_proc is not None
        assert upload_proc.published is True

        if with_coe_repo:
            assert_coe_upload(upload_with_metadata.upload_id, user_metadata=metadata)
264
        assert_upload_files(upload_with_metadata, files.PublicUploadFiles, published=True)
265
266
267
        assert_search_upload(upload_with_metadata, additional_keys=additional_keys, published=True)

    def block_until_completed(self, client, upload_id: str, test_user_auth):
268
269
270
271
272
        while True:
            time.sleep(0.1)
            rv = client.get('/uploads/%s' % upload_id, headers=test_user_auth)
            if rv.status_code == 200:
                upload = self.assert_upload(rv.data)
273
274
                if not upload['process_running'] and not upload['tasks_running']:
                    return upload
275
            elif rv.status_code == 404:
276
277
278
279
                return None

    def assert_upload_does_not_exist(self, client, upload_id: str, test_user_auth):
        self.block_until_completed(client, upload_id, test_user_auth)
280

281
282
283
284
285
286
        rv = client.get('/uploads/%s' % upload_id, headers=test_user_auth)
        assert rv.status_code == 404
        assert Upload.objects(upload_id=upload_id).first() is None
        assert Calc.objects(upload_id=upload_id).count() is 0
        upload_files = UploadFiles.get(upload_id)
        assert upload_files is None or isinstance(upload_files, PublicUploadFiles)
Markus Scheidgen's avatar
Markus Scheidgen committed
287

288
289
290
291
292
293
294
    def test_get_command(self, client, test_user_auth, no_warn):
        rv = client.get('/uploads/command', headers=test_user_auth)
        assert rv.status_code == 200
        data = json.loads(rv.data)
        assert 'upload_command' in data
        assert 'upload_url' in data

295
296
    def test_get_empty(self, client, test_user_auth, no_warn):
        rv = client.get('/uploads/', headers=test_user_auth)
Markus Scheidgen's avatar
Markus Scheidgen committed
297

298
299
        assert rv.status_code == 200
        self.assert_uploads(rv.data, count=0)
Markus Scheidgen's avatar
Markus Scheidgen committed
300

301
302
303
    def test_get_not_existing(self, client, test_user_auth, no_warn):
        rv = client.get('/uploads/123456789012123456789012', headers=test_user_auth)
        assert rv.status_code == 404
304

305
306
    @pytest.mark.parametrize('mode', ['multipart', 'stream', 'local_path'])
    @pytest.mark.parametrize('name', [None, 'test_name'])
Markus Scheidgen's avatar
Markus Scheidgen committed
307
    def test_put(self, client, test_user_auth, proc_infra, example_upload, mode, name, no_warn):
308
        file = example_upload
309
310
311
312
313
314
315
316
317
318
319
320
321
322
323
324
325
        if name:
            url = '/uploads/?name=%s' % name
        else:
            url = '/uploads/'

        if mode == 'multipart':
            rv = client.put(
                url, data=dict(file=(open(file, 'rb'), 'file')), headers=test_user_auth)
        elif mode == 'stream':
            with open(file, 'rb') as f:
                rv = client.put(url, data=f.read(), headers=test_user_auth)
        elif mode == 'local_path':
            url += '&' if name else '?'
            url += 'local_path=%s' % file
            rv = client.put(url, headers=test_user_auth)
        else:
            assert False
326

327
328
        assert rv.status_code == 200
        if mode == 'local_path':
329
            upload = self.assert_upload(rv.data, upload_path=file, name=name)
330
331
        else:
            upload = self.assert_upload(rv.data, name=name)
332
        assert upload['tasks_running']
333

334
        self.assert_processing(client, test_user_auth, upload['upload_id'])
335

336
337
338
    def test_delete_not_existing(self, client, test_user_auth, no_warn):
        rv = client.delete('/uploads/123456789012123456789012', headers=test_user_auth)
        assert rv.status_code == 404
339

340
341
342
343
344
345
346
347
348
349
350
351
    @pytest.fixture(scope='function')
    def slow_processing(self, monkeypatch):
        old_cleanup = Upload.cleanup

        def slow_cleanup(self):
            time.sleep(0.5)
            old_cleanup(self)

        monkeypatch.setattr('nomad.processing.data.Upload.cleanup', slow_cleanup)
        yield True
        monkeypatch.setattr('nomad.processing.data.Upload.cleanup', old_cleanup)

352
    def test_delete_published(self, client, test_user_auth, proc_infra, no_warn, with_publish_to_coe_repo):
353
354
355
        rv = client.put('/uploads/?local_path=%s' % example_file, headers=test_user_auth)
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
356
        self.assert_published(client, test_user_auth, upload['upload_id'], proc_infra, with_coe_repo=with_publish_to_coe_repo)
357
        rv = client.delete('/uploads/%s' % upload['upload_id'], headers=test_user_auth)
358
        assert rv.status_code == 404
359

Markus Scheidgen's avatar
Markus Scheidgen committed
360
    def test_delete(self, client, test_user_auth, proc_infra, no_warn):
361
362
363
364
365
        rv = client.put('/uploads/?local_path=%s' % example_file, headers=test_user_auth)
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
        rv = client.delete('/uploads/%s' % upload['upload_id'], headers=test_user_auth)
        assert rv.status_code == 200
366
        self.assert_upload_does_not_exist(client, upload['upload_id'], test_user_auth)
367

368
369
370
371
372
373
374
375
376
377
378
379
380
381
    def test_post_empty(self, client, test_user_auth, empty_upload, proc_infra, no_warn):
        rv = client.put('/uploads/?local_path=%s' % empty_upload, headers=test_user_auth)
        assert rv.status_code == 200
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
        rv = client.post(
            '/uploads/%s' % upload['upload_id'], headers=test_user_auth,
            data=json.dumps(dict(operation='publish')),
            content_type='application/json')
        assert rv.status_code == 400

    def test_post(self, client, test_user_auth, non_empty_example_upload, proc_infra, no_warn, with_publish_to_coe_repo):
        rv = client.put('/uploads/?local_path=%s' % non_empty_example_upload, headers=test_user_auth)
        assert rv.status_code == 200
382
383
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
384
        self.assert_published(client, test_user_auth, upload['upload_id'], proc_infra, with_coe_repo=with_publish_to_coe_repo)
385

386
387
    def test_post_metadata(
            self, client, proc_infra, admin_user_auth, test_user_auth, test_user,
388
            other_test_user, no_warn, example_user_metadata):
389
390
391
        rv = client.put('/uploads/?local_path=%s' % example_file, headers=test_user_auth)
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
392
        metadata = dict(**example_user_metadata)
Markus Scheidgen's avatar
Markus Scheidgen committed
393
        metadata['_upload_time'] = datetime.datetime.now().isoformat()
394
        self.assert_published(client, admin_user_auth, upload['upload_id'], proc_infra, metadata)
395

Markus Scheidgen's avatar
Markus Scheidgen committed
396
    def test_post_metadata_forbidden(self, client, proc_infra, test_user_auth, no_warn):
397
398
399
400
401
402
        rv = client.put('/uploads/?local_path=%s' % example_file, headers=test_user_auth)
        upload = self.assert_upload(rv.data)
        self.assert_processing(client, test_user_auth, upload['upload_id'])
        rv = client.post(
            '/uploads/%s' % upload['upload_id'],
            headers=test_user_auth,
403
            data=json.dumps(dict(operation='publish', metadata=dict(_pid=256))),
404
405
406
407
            content_type='application/json')
        assert rv.status_code == 401

    # TODO validate metadata (or all input models in API for that matter)
408
    # def test_post_bad_metadata(self, client, proc_infra, test_user_auth, postgres):
409
410
411
412
413
414
    #     rv = client.put('/uploads/?local_path=%s' % example_file, headers=test_user_auth)
    #     upload = self.assert_upload(rv.data)
    #     self.assert_processing(client, test_user_auth, upload['upload_id'])
    #     rv = client.post(
    #         '/uploads/%s' % upload['upload_id'],
    #         headers=test_user_auth,
415
    #         data=json.dumps(dict(operation='publish', metadata=dict(doesnotexist='hi'))),
416
417
418
    #         content_type='application/json')
    #     assert rv.status_code == 400

419

420
421
422
423
424
425
426
427
428
429
430
431
432
433
434
435
436
437
438
439
440
441
442
443
444
445
446
447
448
449
450
451
452
453
454
455
456
457
458
459
460
461
462
463
464
465
466
467
468
469
470
471
472
473
class UploadFilesBasedTests:

    @staticmethod
    def fix_signature(func, wrapper):
        additional_args = list(inspect.signature(func).parameters.values())[4:]
        wrapper_sig = inspect.signature(wrapper)
        wrapper_args = list(wrapper_sig.parameters.values())[:3] + additional_args
        wrapper_sig = wrapper_sig.replace(parameters=tuple(wrapper_args))
        wrapper.__signature__ = wrapper_sig

    @staticmethod
    def check_authorizaton(func):
        @pytest.mark.parametrize('test_data', [
            [True, None, True],     # in staging for upload
            [True, None, False],    # in staging for different user
            [True, None, None],     # in staging for guest
            [False, True, True],    # in public, restricted for uploader
            [False, True, False],   # in public, restricted for different user
            [False, True, None],    # in public, restricted for guest
            [False, False, True],   # in public, public, for uploader
            [False, False, False],  # in public, public, for different user
            [False, False, None]    # in public, public, for guest
        ], indirect=True)
        def wrapper(self, client, test_data, *args, **kwargs):
            upload, authorized, auth_headers = test_data
            try:
                func(self, client, upload, auth_headers, *args, **kwargs)
            except AssertionError as assertion:
                assertion_str = str(assertion)
                if not authorized:
                    if '0 == 5' in assertion_str and 'ZipFile' in assertion_str:
                        # the user is not authorized an gets an empty zip as expected
                        return
                    if '401' in assertion_str:
                        # the user is not authorized and gets a 401 as expected
                        return
                raise assertion

            if not authorized:
                assert False
        UploadFilesBasedTests.fix_signature(func, wrapper)
        return wrapper

    @staticmethod
    def ignore_authorization(func):
        @pytest.mark.parametrize('test_data', [
            [True, None, True],      # in staging
            [False, False, None],    # in public
        ], indirect=True)
        def wrapper(self, client, test_data, *args, **kwargs):
            upload, _, auth_headers = test_data
            func(self, client, upload, auth_headers, *args, **kwargs)
        UploadFilesBasedTests.fix_signature(func, wrapper)
        return wrapper
474

475
    @pytest.fixture(scope='function')
476
    def test_data(self, request, postgres, mongo, raw_files, no_warn, test_user, other_test_user):
477
478
479
480
481
        # delete potential old test files
        for _ in [0, 1]:
            upload_files = UploadFiles.get('test_upload')
            if upload_files:
                upload_files.delete()
482

483
        in_staging, restricted, for_uploader = request.param
484

485
486
487
488
        if in_staging:
            authorized = for_uploader
        else:
            authorized = not restricted or for_uploader
489

490
491
492
493
494
495
        if for_uploader:
            auth_headers = create_auth_headers(test_user)
        elif for_uploader is False:
            auth_headers = create_auth_headers(other_test_user)
        else:
            auth_headers = None
496

497
498
        calc_specs = 'r' if restricted else 'p'
        if in_staging:
499
            Upload.create(user=test_user, upload_id='test_upload')
500
            _, upload_files = create_staging_upload('test_upload', calc_specs=calc_specs)
501
        else:
502
            _, upload_files = create_public_upload('test_upload', calc_specs=calc_specs)
503
            postgres.begin()
504
505
506
            coe_upload = coe_repo.Upload(
                upload_name='test_upload',
                user_id=test_user.user_id, is_processed=True)
507
508
            postgres.add(coe_upload)
            postgres.commit()
509

510
        yield 'test_upload', authorized, auth_headers
511

512
        upload_files.delete()
513
514


515
516
517
518
class TestArchive(UploadFilesBasedTests):
    @UploadFilesBasedTests.check_authorizaton
    def test_get(self, client, upload, auth_headers):
        rv = client.get('/archive/%s/0' % upload, headers=auth_headers)
519
        assert rv.status_code == 200
520
        assert json.loads(rv.data) is not None
521

522
523
524
525
526
527
    @UploadFilesBasedTests.ignore_authorization
    def test_get_signed(self, client, upload, _, test_user_signature_token):
        rv = client.get('/archive/%s/0?token=%s' % (upload, test_user_signature_token))
        assert rv.status_code == 200
        assert json.loads(rv.data) is not None

528
529
530
    @UploadFilesBasedTests.check_authorizaton
    def test_get_calc_proc_log(self, client, upload, auth_headers):
        rv = client.get('/archive/logs/%s/0' % upload, headers=auth_headers)
531
        assert rv.status_code == 200
532
        assert len(rv.data) > 0
533

534
535
536
537
538
539
    @UploadFilesBasedTests.ignore_authorization
    def test_get_calc_proc_log_signed(self, client, upload, _, test_user_signature_token):
        rv = client.get('/archive/logs/%s/0?token=%s' % (upload, test_user_signature_token))
        assert rv.status_code == 200
        assert len(rv.data) > 0

540
541
542
    @UploadFilesBasedTests.ignore_authorization
    def test_get_non_existing_archive(self, client, upload, auth_headers):
        rv = client.get('/archive/%s' % 'doesnt/exist', headers=auth_headers)
543
        assert rv.status_code == 404
Markus Scheidgen's avatar
Markus Scheidgen committed
544

545
546
547
548
    def test_get_metainfo(self, client):
        rv = client.get('/archive/metainfo/all.nomadmetainfo.json')
        assert rv.status_code == 200

Markus Scheidgen's avatar
Markus Scheidgen committed
549

550
class TestRepo():
551
552
553
554
555
556
    @pytest.fixture(scope='class')
    def example_elastic_calcs(
            self, elastic_infra, normalized: parsing.LocalBackend,
            test_user: coe_repo.User, other_test_user: coe_repo.User):
        clear_elastic(elastic_infra)

Markus Scheidgen's avatar
Markus Scheidgen committed
557
        calc_with_metadata = CalcWithMetadata(upload_id=0, calc_id=0, upload_time=datetime.date.today())
558
        calc_with_metadata.files = ['test/mainfile.txt']
559
        calc_with_metadata.apply_domain_metadata(normalized)
560

Markus Scheidgen's avatar
Markus Scheidgen committed
561
562
        calc_with_metadata.update(
            calc_id='1', uploader=test_user.to_popo(), published=True, with_embargo=False)
563
564
        search.Entry.from_calc_with_metadata(calc_with_metadata).save(refresh=True)

Markus Scheidgen's avatar
Markus Scheidgen committed
565
566
567
568
569
        calc_with_metadata.update(
            calc_id='2', uploader=other_test_user.to_popo(), published=True, with_embargo=False,
            upload_time=datetime.date.today() - datetime.timedelta(days=5))
        calc_with_metadata.update(
            atoms=['Fe'], comment='this is a specific word', formula='AAA', basis_set='zzz')
570
571
        search.Entry.from_calc_with_metadata(calc_with_metadata).save(refresh=True)

Markus Scheidgen's avatar
Markus Scheidgen committed
572
573
        calc_with_metadata.update(
            calc_id='3', uploader=other_test_user.to_popo(), published=False, with_embargo=False)
574
575
        search.Entry.from_calc_with_metadata(calc_with_metadata).save(refresh=True)

Markus Scheidgen's avatar
Markus Scheidgen committed
576
577
        calc_with_metadata.update(
            calc_id='4', uploader=other_test_user.to_popo(), published=True, with_embargo=True)
578
579
        search.Entry.from_calc_with_metadata(calc_with_metadata).save(refresh=True)

580
581
    def test_own_calc(self, client, example_elastic_calcs, no_warn, test_user_auth):
        rv = client.get('/repo/0/1', headers=test_user_auth)
582
583
        assert rv.status_code == 200

584
585
586
587
588
589
590
591
    def test_public_calc(self, client, example_elastic_calcs, no_warn, other_test_user_auth):
        rv = client.get('/repo/0/1', headers=other_test_user_auth)
        assert rv.status_code == 200

    def test_embargo_calc(self, client, example_elastic_calcs, no_warn, test_user_auth):
        rv = client.get('/repo/0/4', headers=test_user_auth)
        assert rv.status_code == 401

592
593
594
595
    def test_own_embargo_calc(self, client, example_elastic_calcs, no_warn, other_test_user_auth):
        rv = client.get('/repo/0/4', headers=other_test_user_auth)
        assert rv.status_code == 200

596
597
598
599
    def test_staging_calc(self, client, example_elastic_calcs, no_warn, test_user_auth):
        rv = client.get('/repo/0/3', headers=test_user_auth)
        assert rv.status_code == 401

600
601
602
603
    def test_own_staging_calc(self, client, example_elastic_calcs, no_warn, other_test_user_auth):
        rv = client.get('/repo/0/3', headers=other_test_user_auth)
        assert rv.status_code == 200

604
605
    def test_non_existing_calcs(self, client, example_elastic_calcs, test_user_auth):
        rv = client.get('/repo/0/10', headers=test_user_auth)
606
607
        assert rv.status_code == 404

608
609
610
    @pytest.mark.parametrize('calcs, owner, auth', [
        (2, 'all', 'none'),
        (2, 'all', 'test_user'),
611
        (4, 'all', 'other_test_user'),
612
        (1, 'user', 'test_user'),
613
        (3, 'user', 'other_test_user'),
614
        (0, 'staging', 'test_user'),
615
        (1, 'staging', 'other_test_user')
616
    ])
617
    def test_search_owner(self, client, example_elastic_calcs, no_warn, test_user_auth, other_test_user_auth, calcs, owner, auth):
618
619
620
621
622
623
624
625
626
627
628
629
        auth = dict(none=None, test_user=test_user_auth, other_test_user=other_test_user_auth).get(auth)
        rv = client.get('/repo/?owner=%s' % owner, headers=auth)
        assert rv.status_code == 200
        data = json.loads(rv.data)
        results = data.get('results', None)
        assert results is not None
        assert isinstance(results, list)
        assert len(results) == calcs
        if calcs > 0:
            for key in ['uploader', 'calc_id', 'formula', 'upload_id']:
                assert key in results[0]

Markus Scheidgen's avatar
Markus Scheidgen committed
630
631
632
633
634
635
636
637
638
639
640
641
642
643
644
645
646
647
648
649
650
651
652
653
654
655
656
657
658
659
660
    @pytest.mark.parametrize('calcs, start, end', [
        (2, datetime.date.today() - datetime.timedelta(days=6), datetime.date.today()),
        (2, datetime.date.today() - datetime.timedelta(days=5), datetime.date.today()),
        (1, datetime.date.today() - datetime.timedelta(days=4), datetime.date.today()),
        (1, datetime.date.today(), datetime.date.today()),
        (1, datetime.date.today() - datetime.timedelta(days=6), datetime.date.today() - datetime.timedelta(days=5)),
        (0, datetime.date.today() - datetime.timedelta(days=7), datetime.date.today() - datetime.timedelta(days=6)),
        (2, None, None),
        (1, datetime.date.today(), None),
        (2, None, datetime.date.today())
    ])
    def test_search_time(self, client, example_elastic_calcs, no_warn, calcs, start, end):
        query_string = ''
        if start is not None:
            query_string = 'from_time=%s' % rfc3339DateTime.format(start)
        if end is not None:
            if query_string != '':
                query_string += '&'
            query_string += 'until_time=%s' % rfc3339DateTime.format(end)
        if query_string != '':
            query_string = '?%s' % query_string

        rv = client.get('/repo/%s' % query_string)
        assert rv.status_code == 200
        data = json.loads(rv.data)

        results = data.get('results', None)
        assert results is not None
        assert isinstance(results, list)
        assert len(results) == calcs

661
    @pytest.mark.parametrize('calcs, quantity, value', [
662
663
        (2, 'system', 'bulk'),
        (0, 'system', 'atom'),
664
665
666
667
668
669
670
671
672
673
674
675
676
677
678
679
680
681
682
683
684
685
686
687
688
689
690
691
692
693
694
695
696
697
698
        (1, 'atoms', 'Br'),
        (1, 'atoms', 'Fe'),
        (0, 'atoms', ['Fe', 'Br']),
        (1, 'comment', 'specific'),
        (1, 'authors', 'Hofstadter, Leonard'),
        (2, 'files', 'test/mainfile.txt'),
        (2, 'paths', 'mainfile.txt'),
        (2, 'paths', 'test'),
        (2, 'quantities', ['wyckoff_letters_primitive', 'hall_number']),
        (0, 'quantities', 'dos')
    ])
    def test_search_quantities(self, client, example_elastic_calcs, no_warn, test_user_auth, calcs, quantity, value):
        if isinstance(value, list):
            query_string = '&'.join('%s=%s' % (quantity, item) for item in value)
        else:
            query_string = '%s=%s' % (quantity, value)

        rv = client.get('/repo/?%s' % query_string, headers=test_user_auth)

        assert rv.status_code == 200
        data = json.loads(rv.data)

        results = data.get('results', None)
        assert results is not None
        assert isinstance(results, list)
        assert len(results) == calcs

        aggregations = data.get('aggregations', None)
        assert aggregations is not None
        if quantity == 'system' and calcs != 0:
            # for simplicity we only assert on aggregations for this case
            assert 'system' in aggregations
            assert len(aggregations['system']) == 1
            assert value in aggregations['system']

699
700
701
    metrics_permutations = [[], search.metrics_names] + [[metric] for metric in search.metrics_names]

    @pytest.mark.parametrize('metrics', metrics_permutations)
Markus Scheidgen's avatar
Markus Scheidgen committed
702
703
704
705
706
707
708
709
710
    def test_search_total_metrics(self, client, example_elastic_calcs, no_warn, metrics):
        rv = client.get('/repo/?total_metrics=%s' % ','.join(metrics))
        assert rv.status_code == 200
        data = json.loads(rv.data)
        metrics_result = data.get('metrics', None)
        assert 'code_runs' in metrics_result
        for metric in metrics:
            assert metric in metrics_result

711
    @pytest.mark.parametrize('metrics', metrics_permutations)
Markus Scheidgen's avatar
Markus Scheidgen committed
712
713
714
715
716
717
718
719
720
721
    def test_search_aggregation_metrics(self, client, example_elastic_calcs, no_warn, metrics):
        rv = client.get('/repo/?aggregation_metrics=%s' % ','.join(metrics))
        assert rv.status_code == 200
        data = json.loads(rv.data)
        for aggregations in data.get('aggregations').values():
            for metrics_result in aggregations.values():
                assert 'code_runs' in metrics_result
                for metric in metrics:
                    assert metric in metrics_result

722
723
724
    @pytest.mark.parametrize('n_results, page, per_page', [(2, 1, 5), (1, 1, 1), (0, 2, 3)])
    def test_search_pagination(self, client, example_elastic_calcs, no_warn, n_results, page, per_page):
        rv = client.get('/repo/?page=%d&per_page=%d' % (page, per_page))
725
726
727
        assert rv.status_code == 200
        data = json.loads(rv.data)
        results = data.get('results', None)
728
        assert data['pagination']['total'] == 2
729
        assert results is not None
730
        assert len(results) == n_results
731

732
733
734
735
736
737
738
739
740
741
742
743
    @pytest.mark.parametrize('first, order_by, order', [
        ('1', 'formula', -1), ('2', 'formula', 1),
        ('2', 'basis_set', -1), ('1', 'basis_set', 1)])
    def test_search_order(self, client, example_elastic_calcs, no_warn, first, order_by, order):
        rv = client.get('/repo/?order_by=%s&order=%d' % (order_by, order))
        assert rv.status_code == 200
        data = json.loads(rv.data)
        results = data.get('results', None)
        assert data['pagination']['total'] == 2
        assert len(results) == 2
        assert results[0]['calc_id'] == first

744
745
746
747
748
749
750
751
752
753
754
755
756
757
758
759
760
761
762
763
764
765
766
767
768
769
    @pytest.mark.parametrize('n_results, size', [(2, None), (2, 5), (1, 1)])
    def test_search_scroll(self, client, example_elastic_calcs, no_warn, n_results, size):
        if size is not None:
            rv = client.get('/repo/?scroll=1,&per_page=%d' % size)
        else:
            rv = client.get('/repo/?scroll=1')

        assert rv.status_code == 200
        data = json.loads(rv.data)
        results = data.get('results', None)
        assert data['pagination']['total'] == 2
        assert results is not None
        assert len(results) == n_results
        scroll_id = data.get('scroll_id', None)
        assert scroll_id is not None

        has_another_page = False
        while scroll_id is not None:
            rv = client.get('/repo/?scroll=1&scroll_id=%s' % scroll_id)
            data = json.loads(rv.data)
            scroll_id = data.get('scroll_id', None)
            has_another_page |= len(data.get('results')) > 0

        if n_results < 2:
            assert has_another_page

770
771
772
    def test_search_user_authrequired(self, client, example_elastic_calcs, no_warn):
        rv = client.get('/repo/?owner=user')
        assert rv.status_code == 401
773
774


775
class TestRaw(UploadFilesBasedTests):
Markus Scheidgen's avatar
Markus Scheidgen committed
776

777
778
    @UploadFilesBasedTests.check_authorizaton
    def test_raw_file(self, client, upload, auth_headers):
779
        url = '/raw/%s/%s' % (upload, example_file_mainfile)
780
        rv = client.get(url, headers=auth_headers)
781
782
783
        assert rv.status_code == 200
        assert len(rv.data) > 0

784
785
786
787
788
789
790
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_signed(self, client, upload, _, test_user_signature_token):
        url = '/raw/%s/%s?token=%s' % (upload, example_file_mainfile, test_user_signature_token)
        rv = client.get(url)
        assert rv.status_code == 200
        assert len(rv.data) > 0

791
792
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_missing_file(self, client, upload, auth_headers):
793
        url = '/raw/%s/does/not/exist' % upload
794
        rv = client.get(url, headers=auth_headers)
795
        assert rv.status_code == 404
796
797
798
        data = json.loads(rv.data)
        assert 'files' not in data

799
800
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_listing(self, client, upload, auth_headers):
801
        url = '/raw/%s/examples' % upload
802
        rv = client.get(url, headers=auth_headers)
803
804
805
806
        assert rv.status_code == 404
        data = json.loads(rv.data)
        assert len(data['files']) == 5

807
    @pytest.mark.parametrize('compress', [True, False])
808
809
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_wildcard(self, client, upload, auth_headers, compress):
810
        url = '/raw/%s/examples*' % upload
811
812
        if compress:
            url = '%s?compress=1' % url
813
        rv = client.get(url, headers=auth_headers)
814
815
816
817
818
819
820

        assert rv.status_code == 200
        assert len(rv.data) > 0
        with zipfile.ZipFile(io.BytesIO(rv.data)) as zip_file:
            assert zip_file.testzip() is None
            assert len(zip_file.namelist()) == len(example_file_contents)

821
822
823
824
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_wildcard_missing(self, client, upload, auth_headers):
        url = '/raw/%s/does/not/exist*' % upload
        rv = client.get(url, headers=auth_headers)
825
        assert rv.status_code == 404
826

827
828
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_file_missing_upload(self, client, upload, auth_headers):
829
        url = '/raw/doesnotexist/%s' % example_file_mainfile
830
        rv = client.get(url, headers=auth_headers)
831
832
        assert rv.status_code == 404

833
    @pytest.mark.parametrize('compress', [True, False])
834
835
    @UploadFilesBasedTests.check_authorizaton
    def test_raw_files(self, client, upload, auth_headers, compress):
836
        url = '/raw/%s?files=%s' % (
837
            upload, ','.join(example_file_contents))
838
839
        if compress:
            url = '%s&compress=1' % url
840
        rv = client.get(url, headers=auth_headers)
Markus Scheidgen's avatar
Markus Scheidgen committed
841

842
843
844
845
        assert rv.status_code == 200
        assert len(rv.data) > 0
        with zipfile.ZipFile(io.BytesIO(rv.data)) as zip_file:
            assert zip_file.testzip() is None
846
            assert len(zip_file.namelist()) == len(example_file_contents)
Markus Scheidgen's avatar
Markus Scheidgen committed
847

848
849
850
851
852
853
854
855
856
857
858
859
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_files_signed(self, client, upload, _, test_user_signature_token):
        url = '/raw/%s?files=%s&token=%s' % (
            upload, ','.join(example_file_contents), test_user_signature_token)
        rv = client.get(url)

        assert rv.status_code == 200
        assert len(rv.data) > 0
        with zipfile.ZipFile(io.BytesIO(rv.data)) as zip_file:
            assert zip_file.testzip() is None
            assert len(zip_file.namelist()) == len(example_file_contents)

860
    @pytest.mark.parametrize('compress', [True, False, None])
861
862
863
    @UploadFilesBasedTests.check_authorizaton
    def test_raw_files_post(self, client, upload, auth_headers, compress):
        url = '/raw/%s' % upload
864
        data = dict(files=example_file_contents)
865
866
        if compress is not None:
            data.update(compress=compress)
867
        rv = client.post(url, data=json.dumps(data), content_type='application/json', headers=auth_headers)
868
869
870
871
872

        assert rv.status_code == 200
        assert len(rv.data) > 0
        with zipfile.ZipFile(io.BytesIO(rv.data)) as zip_file:
            assert zip_file.testzip() is None
873
            assert len(zip_file.namelist()) == len(example_file_contents)
874

875
    @pytest.mark.parametrize('compress', [True, False])
876
877
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_files_missing_file(self, client, upload, auth_headers, compress):
878
        url = '/raw/%s?files=%s,missing/file.txt' % (upload, example_file_mainfile)
879
880
        if compress:
            url = '%s&compress=1' % url
881
        rv = client.get(url, headers=auth_headers)
Markus Scheidgen's avatar
Markus Scheidgen committed
882

883
884
885
886
887
        assert rv.status_code == 200
        assert len(rv.data) > 0
        with zipfile.ZipFile(io.BytesIO(rv.data)) as zip_file:
            assert zip_file.testzip() is None
            assert len(zip_file.namelist()) == 1
888

889
890
    @UploadFilesBasedTests.ignore_authorization
    def test_raw_files_missing_upload(self, client, upload, auth_headers):
891
        url = '/raw/doesnotexist?files=shoud/not/matter.txt'
892
        rv = client.get(url, headers=auth_headers)
893

894
        assert rv.status_code == 404
895
896
897
898
899
900


def test_docs(client):
    rv = client.get('/docs/index.html')
    rv = client.get('/docs/introduction.html')
    assert rv.status_code == 200