def add_gdo(self, set_vid, probs, confidence, op_vid):
pstr = probs.tostring()
cstr = confidence.tostring()
assert len(pstr) == 2*len(cstr)
table_name = self.snp_markers_set_table_name(GDO_TABLE, set_vid)
row = {'op_vid': op_vid, 'probs': pstr, 'confidence': cstr}
assign_vid(row)
row_indices = self.kb.add_table_row(table_name, row)
assert len(row_indices) == 1
return row['vid'], row_indices[0]
def add_gdo(self, set_vid, probs, confidence, op_vid):
pstr = probs.tostring()
cstr = confidence.tostring()
assert len(pstr) == 2 * len(cstr)
table_name = self.snp_markers_set_table_name(GDO_TABLE, set_vid)
row = {'op_vid': op_vid, 'probs': pstr, 'confidence': cstr}
assign_vid(row)
row_indices = self.kb.add_table_row(table_name, row)
assert len(row_indices) == 1
return row['vid'], row_indices[0]
def __preprocess_conf__(self, conf):
if not 'laneSlotUK' in conf:
if 'tag' in conf:
conf['laneSlotUK'] = make_unique_key(conf['tag'], conf['lane'].label)
else:
conf['laneSlotUK'] = make_unique_key(conf['lane'].label)
return assign_vid(conf)
def __preprocess_conf__(self, conf):
conf = assign_vid(conf)
if not "demogUK" in conf:
conf["demogUK"] = make_unique_key(
conf["name"], conf["surname"], conf["birthdate"], conf["gender"].omero_id, conf["birthPlace"].id
)
return conf
def __preprocess_conf__(self, conf):
conf = assign_vid(conf)
if not 'demogUK' in conf:
conf['demogUK'] = make_unique_key(conf['name'], conf['surname'],
conf['birthdate'],
conf['gender'].omero_id,
conf['birthPlace'].id)
return conf
def __preprocess_conf__(self, conf):
return assign_vid(conf)
def add_vid_filter_and_op_vid(stream, op_vid):
for x in stream:
assign_vid(x)
x['op_vid'] = op_vid
vid_correspondence.append((x['label'], x['vid']))
yield x
def add_vid_filter_and_op_vid(stream, op_vid):
for x in stream:
assign_vid(x)
x['op_vid'] = op_vid
vid_correspondence.append((x['label'], x['vid']))
yield x
def __preprocess_conf__(self, conf): return assign_vid(conf)
def __preprocess_conf__(self, conf):
if not 'vesselsCollectionItemUK' in conf:
v_vid = conf['vessel'].id
vc_vid = conf['vesselsCollection'].id
conf['vesselsCollectionItemUK'] = make_unique_key(vc_vid, v_vid)
return assign_vid(conf)
def __preprocess_conf__(self, conf):
if not 'activationDate' in conf:
return assign_vid_and_timestamp(conf, time_stamp_field='activationDate')
else:
return assign_vid(conf)
def __preprocess_conf__(self, conf):
if not 'dataCollectionItemUK' in conf:
dc_vid = conf['dataCollection'].id
ds_vid = conf['dataSample'].id
conf['dataCollectionItemUK'] = make_unique_key(dc_vid, ds_vid)
return assign_vid(conf)
def __preprocess_conf__(self, conf):
if not 'dataCollectionItemUK' in conf:
dc_vid = conf['dataCollection'].id
ds_vid = conf['dataSample'].id
conf['dataCollectionItemUK'] = make_unique_key(dc_vid, ds_vid)
return assign_vid(conf)