def test_batch_ptm_ppi_csv():
# construct the body
substrates = [
models.QuerySubstrate("Q15796", "K", "19"),
models.QuerySubstrate("Q15796", "T", "8"),
models.QuerySubstrate("P04637", "K", "120"),
models.QuerySubstrate("P04637", "S", "149"),
models.QuerySubstrate("P04637", "S", "378"),
models.QuerySubstrate("P04637", "S", "392"),
models.QuerySubstrate("P42356", "S", "199")
]
body_str = json.dumps(substrates,
default=lambda o: o.__dict__,
indent=4,
sort_keys=True)
headers = {"Accept": "text/plain"}
result = requests.post(url='{host}/batch_ptm_ppi'.format(host=host),
data=body_str,
headers=headers)
# assert if request was successful
assert result.status_code == 200, result.text
# parse the returned response
returned_ptmppi = helper.load_csv_from_string(result.text)
# assert that returned response is not empty
assert len(returned_ptmppi) is not 0
def test_browse_csv():
params = {
"term_type":
"All",
"start_index":
"0",
"end_index":
"120",
"ptm_type": [
"Acetylation", "C-Glycosylation", "Myristoylation",
"Ubiquitination", "N-Glycosylation", "S-Glycosylation",
"Phosphorylation", "S-Nitrosylation", "O-Glycosylation",
"Methylation", "Sumoylation"
],
"role":
"Enzyme or Substrate",
"organism": [10090, 9606]
}
headers = {"Accept": "text/plain"}
result = requests.get('{host}/browse'.format(host=host),
params=params,
headers=headers)
# assert if request was successful
assert result.status_code == 200, result.text
# assert if header contains count
assert result.headers.get("count") is not None
# parse the returned response
returned_search_results = helper.load_csv_from_string(result.text)
assert len(returned_search_results) == 120
def test_get_ptmppi_csv():
url = "{host}/Q15796/ptmppi".format(host=host)
headers = {"Accept": "text/plain"}
result = requests.get(url=url, headers=headers)
# assert if request was successful
assert result.status_code == 200, result.text
# parse the returned response
returned_ptmppis = helper.load_csv_from_string(result.text)
# assert that returned response is not empty
assert len(returned_ptmppis) is not 0
def test_substrate_csv():
headers = {"Accept": "text/plain", "Origin": host}
result = requests.get('{host}/Q15796/substrate'.format(host=host),
headers=headers)
# assert response == Ok
assert result.status_code == 200, result.text
# parse the result
returned_substrates = helper.load_csv_from_string(result.text)
helper.sanitize_substrates(returned_substrates)
# assert that returned response is not empty
assert len(returned_substrates) is not 0
def test_search_csv():
params = {
"search_term":
"smad2",
"term_type":
"All",
"ptm_type": [
"Acetylation", "C-Glycosylation", "Myristoylation",
"Ubiquitination", "N-Glycosylation", "S-Glycosylation",
"Phosphorylation", "S-Nitrosylation", "O-Glycosylation",
"Methylation", "Sumoylation"
],
"role":
"Enzyme or Substrate",
"organism": [10090, 9606]
}
headers = {"Accept": "text/plain"}
result = requests.get('{host}/search'.format(host=host),
params=params,
headers=headers)
# assert if request was successful
assert result.status_code == 200, result.text
# assert if header contains count
assert result.headers.get("count") is not None
# parse the returned response
returned_search_results = helper.load_csv_from_string(result.text)
# load the expected response
expected_search_results = helper.load_csv_from_file("search.csv")
for index, search_result in enumerate(expected_search_results):
assert (search_result in returned_search_results
) == True, "Item at index: {index} not found".format(
index=index)