def test_revert_last_name():
'''It test if we can revert the database to its last stste for a kind
and project'''
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
naming.get_uniquename()
naming.commit()
naming.get_uniquename()
naming.commit()
names = list(naming.get_names_from_db())
assert names[0]['name'] == 'myES000001'
assert names[-1]['project'] == 'my_project'
assert names[-1]['name'] == 'myES000002'
assert len(names) == 2
naming.revert_last_name()
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
names = list(naming.get_names_from_db())
assert len(names) == 1
assert names[-1]['name'] == 'myES000001'
def test_basic_behaviour(self):
'It tests that we can get names using a FileNamingSchema'
fhand = NamedTemporaryFile()
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
naming = FileNamingSchema(fhand, naming)
assert naming.get_uniquename(name='hola') == 'myES000001'
assert naming.get_uniquename(name='hola') == 'myES000001'
assert naming.get_uniquename(name='caracol') == 'myES000002'
naming.commit()
fhand.seek(0)
naming = FileNamingSchema(fhand)
naming.kind = 'EST'
assert naming.get_uniquename(name='hola') == 'myES000001'
assert naming.get_uniquename(name='caracol') == 'myES000002'
try:
assert naming.get_uniquename(name='pascual')
self.fail()
#pylint: disable-msg=W0704
except ValueError:
pass
def test_basic_behaviour():
'It tests that we can get names'
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
assert naming.get_uniquename() == 'myES000001'
assert naming.get_uniquename() == 'myES000002'
naming.kind = 'transcribed_cluster'
assert naming.get_uniquename() == 'myTC000001'
naming.commit()
def test_name_persistance():
'The names are stored between db commits'
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
assert naming.get_uniquename() == 'myES000001'
naming.commit()
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
assert naming.get_uniquename() == 'myES000002'
def test_rollback():
"If we don't commit we lose the changes"
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
assert naming.get_uniquename() == 'myES000001'
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
assert naming.get_uniquename() == 'myES000001'
from franklin.db.naming import _CodeGenerator
def xtest_basic_behaviour2():
'It tests that we can get names'
engine = sqlalchemy.create_engine('sqlite:////home/jope/test/naming_db')
create_naming_database(engine)
add_project_to_naming_database(engine, name='Melo', code='ME',
description='Melonomics Ests')
naming = DbNamingSchema(engine, project='Melo', feature_kind='EST')
assert naming.get_uniquename() == 'MEES000001'
assert naming.get_uniquename() == 'MEES000002'
naming.commit(description='Initial')
def test_get_all_names():
'It test if we can get all names stored in teh database'
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
naming.get_uniquename()
naming.commit()
naming.get_uniquename()
naming.commit()
names = list(naming.get_names_from_db())
assert names[0]['project'] == 'my_project'
assert len(names) == 2
naming.project = 'my_project'
name = naming.get_names_from_db().next()
assert name['project'] == 'my_project'
def test_roolback(self):
'If the changes are not commited they are ignored'
fhand = NamedTemporaryFile()
engine = sqlalchemy.create_engine('sqlite:///:memory:')
create_naming_database(engine)
add_project_to_naming_database(engine, name='my_project', code='my',
description='a test project')
naming = DbNamingSchema(engine, project='my_project',
feature_kind='EST')
naming = FileNamingSchema(fhand, naming)
assert naming.get_uniquename(name='hola') == 'myES000001'
naming.commit()
assert naming.get_uniquename(name='caracol') == 'myES000002'
naming = FileNamingSchema(fhand, feature_kind='EST')
try:
assert naming.get_uniquename(name='caracol')
self.fail()
#pylint: disable-msg=W0704
except ValueError:
pass
