def rename_sample_key(config,mockdb,orig_sample_key,new_sample_key):
collection_clses = child_classes(Sample,config=config) + [Sample]
for cls in collection_clses:
collection = mockdb[cls.__name__]
for object_key, object in collection.objects.iteritems():
if object.key == orig_sample_key:
object.key = new_sample_key
return 1
def test_child_classes():
import re
class A(object): pass
class B(A): pass
class C: pass
class D(B,C): pass
class E(C): pass
clses = [A,B,C,D,E]
a_chd = set(child_classes(A,clses))
c_chd = set(child_classes(C,clses))
e_chd = set(child_classes(E,clses))
if e_chd != set([]):
print 'child_classes failed empty child test.'
print "\t" + str(e_chd) + ' should be empty'
if a_chd != set([B,D]):
print 'child_classes failed grand-parent test.'
print "\t" + str(a_chd) + ' should be ' + str([B,D])
if c_chd != set([D,E]):
print 'child_classes failed sibling test.'
print "\t" + str(c_chd) + ' should be ' + str([D,E])
def __load__(self,config,no_children = True, base_dir = None, key=None):
if base_dir == None:
base_dir = config.get('Common_directories','mockdb')
first_clses = progenitor_classes(self.cls)
if len(first_clses) > 1:
raise TypeError("The class {0} cannot be made into a SetOf class.\n".format(cls.__name__))
#Some keyed classes might have children classes. Load these as well unless no_children is flagged
if no_children is True:
clses = [self.cls]
else:
clses = [self.cls] + child_classes(self.cls,config=config)
for c in clses:
db_fname = db_file_name(first_clses[0],self.cls,base_dir)
#sys.stderr.write("%s\n" % db_fname)
if os.path.isfile(db_fname):
keys = extract_db_keys(db_fname)
key_index=keys.index('key')
with open(db_fname,'r') as f:
f.readline() #Gets past header to contents.
for line in f:
vals = line.rstrip().split(',')
if len(vals) != len(keys):
raise FormattingError("The formatting in {0} is incorrect. The number of keys and the number of values are different in the following line:\n{1}\n".format(db_fname,str(line)))
instance = self.cls(config)
for i in range(0,len(vals)):
if vals[i] == 'None':
setattr(instance,keys[i],None)
continue
if vals[i] == 'True':
setattr(instance,keys[i],True)
continue
if vals[i] == 'False':
setattr(instance,keys[i],False)
continue
if keys[i] == 'sample_key' or self.cls.__name__ == 'Sample':
setattr(instance,keys[i],vals[i])
continue
try:
int_val = int(vals[i])
setattr(instance,keys[i],int_val)
except ValueError:
setattr(instance,keys[i],vals[i])
if key != None:
if instance.key not in [key]:
continue
#Load all keys if key is none. Elsewise, just that key.
self.objects[instance.key] = instance
