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
|
"""Test the 'parse' module in the web-ui"""
import redis
import pytest
from qc_app.jobs import job
from tests.conftest import uploadable_file_object
def test_parse_with_existing_uploaded_file(
client, redis_url, job_id, monkeypatch):
"""
GIVEN: 1. A flask application testing client
2. A valid file, and filetype
WHEN: The file is uploaded, and the parsing triggered
THEN: Ensure that:
1. the system redirects to the job/parse status page
2. the job is placed on redis for processing
"""
monkeypatch.setattr("qc_app.jobs.uuid4", lambda : job_id)
# Upload a file
filename = "no_data_errors.tsv"
filetype = "average"
client.post(
"/", data={
"filetype": filetype,
"qc_text_file": uploadable_file_object(filename)})
# Checks
resp = client.get(f"/parse/parse?filename={filename}&filetype={filetype}")
assert resp.status_code == 302
assert b'Redirecting...' in resp.data
assert b'/parse/status/934c55d8-396e-4959-90e1-2698e9205758' in resp.data
with redis.Redis.from_url(redis_url, decode_responses=True) as rconn:
the_job = job(rconn, job_id)
assert the_job["job_id"] == job_id
assert the_job["filename"] == filename
assert the_job["command"] == " ".join([
"python3", "-m", "scripts.validate_file", filetype,
f"{client.application.config['UPLOAD_FOLDER']}/{filename}", redis_url,
job_id])
@pytest.mark.parametrize(
"filename,uri,error_msgs",
(("non_existent.file",
"/parse/parse?filename=non_existent.file&filename=average",
[(b'<span class="alert alert-error">Selected file does not exist '
b'(any longer)</span>')]),
("non_existent.file",
"/parse/parse?filename=non_existent.file&filename=standard-error",
[(b'<span class="alert alert-error">Selected file does not exist '
b'(any longer)</span>')]),
("non_existent.file",
"/parse/parse?filename=non_existent.file&filename=percival",
[(b'<span class="alert alert-error">Selected file does not exist '
b'(any longer)</span>'),
b'<span class="alert alert-error">Invalid filetype provided</span>']),
("no_data_errors.tsv",
"/parse/parse?filename=no_data_errors.tsv&filename=percival",
[b'<span class="alert alert-error">Invalid filetype provided</span>']),
("no_data_errors.tsv",
"/parse/parse?filename=no_data_errors.tsv",
[b'<span class="alert alert-error">No filetype provided</span>']),
(None, "/parse/parse",
[b'<span class="alert alert-error">No file provided</span>',
b'<span class="alert alert-error">No filetype provided</span>'])))
def test_parse_with_non_uploaded_file(client, filename, uri, error_msgs):
"""
GIVEN: 1. A flask application testing client
2. A valid filetype
3. A filename to a file that has not been uploaded yet
WHEN: The parsing triggered
THEN: Ensure that the appropriate errors are displayed
"""
## Conditionally upload files
if filename and filename != "non_existent.file":
client.post(
"/", data={
"filetype": "average",
"qc_text_file": uploadable_file_object(filename)})
# Trigger
resp = client.get(uri,follow_redirects=True)
## Check that there was exactly one redirect
assert len(resp.history) == 1 and resp.history[0].status_code == 302
## Check that redirect is to home page and is successful
assert resp.request.path == "/"
assert resp.status_code == 200
## Check that error(s) are displayed
for error_msg in error_msgs:
assert error_msg in resp.data
|
