def test_infer_status(self):
obs = infer_status([])
self.assertEqual(obs, 'sandbox')
obs = infer_status([['private']])
self.assertEqual(obs, 'private')
obs = infer_status([['private'], ['public']])
self.assertEqual(obs, 'public')
obs = infer_status([['sandbox'], ['awaiting_approval']])
self.assertEqual(obs, 'awaiting_approval')
obs = infer_status([['sandbox'], ['sandbox']])
self.assertEqual(obs, 'sandbox')
def test_infer_status(self):
obs = infer_status([])
self.assertEqual(obs, "sandbox")
obs = infer_status([["private"]])
self.assertEqual(obs, "private")
obs = infer_status([["private"], ["public"]])
self.assertEqual(obs, "public")
obs = infer_status([["sandbox"], ["awaiting_approval"]])
self.assertEqual(obs, "awaiting_approval")
obs = infer_status([["sandbox"], ["sandbox"]])
self.assertEqual(obs, "sandbox")
def status(self):
"""The status of the prep template
Returns
-------
str
The status of the prep template
Notes
-----
The status of a prep template is inferred by the status of the
processed data generated from this prep template. If no processed
data has been generated with this prep template; then the status
is 'sandbox'.
"""
conn_handler = SQLConnectionHandler()
sql = """SELECT processed_data_status
FROM qiita.processed_data_status pds
JOIN qiita.processed_data pd
USING (processed_data_status_id)
JOIN qiita.preprocessed_processed_data ppd_pd
USING (processed_data_id)
JOIN qiita.prep_template_preprocessed_data pt_ppd
USING (preprocessed_data_id)
WHERE pt_ppd.prep_template_id=%s"""
pd_statuses = conn_handler.execute_fetchall(sql, (self._id,))
return infer_status(pd_statuses)
def status(self):
"""The status of the prep template
Returns
-------
str
The status of the prep template
Notes
-----
The status of a prep template is inferred by the status of the
processed data generated from this prep template. If no processed
data has been generated with this prep template; then the status
is 'sandbox'.
"""
with TRN:
sql = """SELECT processed_data_status
FROM qiita.processed_data_status pds
JOIN qiita.processed_data pd
USING (processed_data_status_id)
JOIN qiita.preprocessed_processed_data ppd_pd
USING (processed_data_id)
JOIN qiita.prep_template_preprocessed_data pt_ppd
USING (preprocessed_data_id)
WHERE pt_ppd.prep_template_id=%s"""
TRN.add(sql, [self._id])
return infer_status(TRN.execute_fetchindex())
def _propagate_visibility(artifact):
"""Propagates the visibility of an artifact to all its ancestors
Parameters
----------
artifact : qiita_db.artifact.Artifact
The artifact to propagate the visibility for
Notes
-----
This is emulating the previous functionality, in which the status of the
processed data was propagated to the preprocessed/raw data that was used
to generate such processed data. In the current interface, only the status
of the BIOM artifacts (processed data) can be changed, so this works as
expected.
"""
for a in artifact.ancestors.nodes():
visibilities = [[c.visibility] for c in a.descendants.nodes()
if c.artifact_type == 'BIOM']
a.visibility = infer_status(visibilities)
def _propagate_visibility(artifact):
"""Propagates the visibility of an artifact to all its ancestors
Parameters
----------
artifact : qiita_db.artifact.Artifact
The artifact to propagate the visibility for
Notes
-----
This is emulating the previous functionality, in which the status of the
processed data was propagated to the preprocessed/raw data that was used
to generate such processed data. In the current interface, only the status
of the BIOM artifacts (processed data) can be changed, so this works as
expected.
"""
for a in artifact.ancestors.nodes():
visibilities = [[c.visibility] for c in a.descendants.nodes()
if c.artifact_type == 'BIOM']
a.visibility = infer_status(visibilities)