def testSelect(self):
self.sess.add(Descriptor(1, 1, 'd1'))
self.sess.add(Descriptor(1, 2, 'd2'))
self.sess.add(Descriptor(1, 3, 'd3'))
self.sess.commit()
for row in Descriptor.select(1, ['num', 'name']):
if row['num'] == 1:
self.assertEqual(row['name'], 'd1')
elif row[0] == 2:
self.assertEqual(row[1], 'd2')
elif row[0] == 3:
self.assertEqual(row[1], 'd3')
else:
self.fail(str(row))
def parseDescriptor(self, num, element):
return Descriptor(
self.pmid,
num + 1,
element.text.strip(),
element.get('MajorTopicYN', 'N') == 'Y',
)
def testSelectAll(self):
self.sess.add(Descriptor(1, 1, 'd1'))
self.sess.add(Descriptor(1, 2, 'd2'))
self.sess.add(Descriptor(1, 3, 'd3'))
self.sess.commit()
for row in Descriptor.selectAll(1):
if row['num'] == 1:
self.assertEqual(row['name'], 'd1')
elif row['num'] == 2:
# noinspection PyUnresolvedReferences
self.assertFalse(row[Descriptor.major.name])
elif row['num'] == 3:
self.assertEqual(row['name'], 'd3')
else:
self.fail(str(row))
def setUp(self):
InitDb(URI, module=dbapi2)
self.sess = Session()
self.M = DefaultCitation()
self.sess.add(self.M)
self.D = Descriptor(1, 1, 'd_name', True)
self.sess.add(self.D)
self.klass = Qualifier
self.entity = namedtuple('Qualifier', 'pmid num sub name')
self.defaults = self.entity(1, 1, 1, 'name')
def setUp(self):
InitDb(URI, module=dbapi2)
self.sess = Session()
self.M = Medline(1, 'MEDLINE', 'Journal', 'PubDate', date.today())
self.sess.add(self.M)
self.D = Descriptor(1, 1, 'd_name', True)
self.sess.add(self.D)
self.klass = Qualifier
self.entity = namedtuple('Qualifier', 'pmid num sub name')
self.defaults = self.entity(1, 1, 1, 'name')
def testSelect(self):
self.sess.add(Descriptor(1, 1, 'd1'))
self.sess.add(Descriptor(1, 2, 'd2'))
self.sess.add(Descriptor(1, 3, 'd3'))
self.sess.commit()
for row in Descriptor.select(1, ['num', 'name']):
if row['num'] == 1:
self.assertEqual(row['name'], 'd1')
elif row[0] == 2:
self.assertEqual(row[1], 'd2')
elif row[0] == 3:
self.assertEqual(row[1], 'd3')
else:
self.fail(str(row))
def testSelectAll(self):
self.sess.add(Descriptor(1, 1, 'd1'))
self.sess.add(Descriptor(1, 2, 'd2'))
self.sess.add(Descriptor(1, 3, 'd3'))
self.sess.commit()
for row in Descriptor.selectAll(1):
if row['num'] == 1:
self.assertEqual(row['name'], 'd1')
elif row['num'] == 2:
# noinspection PyUnresolvedReferences
self.assertFalse(row[Descriptor.major.name])
elif row['num'] == 3:
self.assertEqual(row['name'], 'd3')
else:
self.fail(str(row))
import unittest
from collections import defaultdict
from datetime import date
from io import StringIO
from tempfile import TemporaryFile
from medic.orm import Medline, Section, Author, Descriptor, Qualifier, Database, Identifier, \
Chemical, Keyword, PublicationType
from medic.crud import _dump
DATA = [
Section(1, 1, 'Title', 'The Title'),
Section(1, 2, 'Abstract', 'The Abstract'),
Descriptor(1, 1, 'd_name', True),
Descriptor(1, 2, 'd_name'),
Qualifier(1, 1, 1, 'q_name', True),
Author(1, 1, 'first'),
Author(1, 2, 'last'),
Identifier(1, 'ns', 'id'),
Database(1, 'name', 'accession'),
PublicationType(1, 'some'),
PublicationType(1, 'another'),
Chemical(1, 1, 'name', 'uid'),
Keyword(1, 'NOTNLM', 1, 'name', True),
Medline(1, 'MEDLINE', 'journal', 'pub_date', date.today()),
]
class ParserMock:
def __init__(self, instances):
def testRelations(self):
d = Descriptor(1, 1, 'name')
self.sess.add(d)
self.sess.commit()
self.assertListEqual([d], self.M.descriptors)
self.assertEqual(self.M, d.citation)
def testToRepr(self):
self.assertEqual('Descriptor<1:2>', repr(Descriptor(1, 2, 'name')))
def testToString(self):
self.assertEqual('1\t1\tT\tmajor\n',
str(Descriptor(1, 1, 'major', True)))
self.assertEqual('1\t1\tF\tminor\n', str(Descriptor(1, 1, 'minor')))
def testMajorIsBool(self):
self.sess.add(Descriptor(1, 1, 'd_name', None))
self.assertRaises(IntegrityError, self.sess.commit)
def testRequireExistingPmid(self):
self.sess.add(Descriptor(2, 1, 'd_name'))
self.assertRaises(IntegrityError, self.sess.commit)
def testEquals(self):
self.assertSame()
self.assertDifference(name='other')
self.assertDifference(num=2)
self.assertNotEqual(Descriptor(1, 1, 'd_name', True),
Descriptor(1, 1, 'd_name', False))
