def test_create_small_molecule(self):
"""
Tests that we can create a small molecule entity.
"""
facilityId = "HMSL10001"
sm = SmallMolecule(facility_id=facilityId)
sm.save()
print "New ID: %d" % sm.id
self.assertTrue(sm.id is not None, "No ID was assigned")
sm2 = SmallMolecule.objects.get(pk=sm.id)
self.assertTrue(sm2 is not None, "Couldn't find the object")
self.assertTrue(sm2.facility_id == facilityId)
print "Created the Small Molecule: ", sm
def build_schema(self):
schema = super(SmallMoleculeResource,self).build_schema()
schema['fields'] = get_detail_schema(SmallMolecule(),['smallmolecule'])
return schema
filename = path.basename(inputFile)
attachedFile = AttachedFile(filename=filename,
facility_id_for=facilityId,
relative_path=relativePath,
is_restricted=args.isRestricted)
# lookup the Entity
if (facilityId <= 30000): # SM or Screen
logger.info('look for the small molecule for:' + str(facilityId))
saltId = util.int_converter(args.saltId)
if (saltId is not None):
logger.info('look for the small molecule for saltId ' +
str(saltId))
try:
sm = SmallMolecule(facility_id=facilityId, salt_id=saltId)
attachedFile.salt_id_for = saltId
batchId = util.int_converter(args.batchId)
if (batchId is not None):
logger.info('look for the batch Id: ' + str(batchId))
attachedFile.batch_id_for = batchId
try:
smb = SmallMoleculeBatch(smallmolecule=sm,
facility_batch_id=batchId)
except ObjectDoesNotExist, e:
logger.error(
str(('No such SmallMoleculeBatch found',
facilityId, saltId, batchId, e)))
raise e
except ObjectDoesNotExist, e:
logger.error(
