def generate_stage_items(self):
sample_types = list()
for s_t in d_utils.get_sample_type_options():
sample_types.append(s_t["value"])
wizard_stages = dict()
# get start stages
start = d_utils.json_to_pytype(lkup.WIZARD_FILES["sample_start"])['properties']
wizard_stages['start'] = start
# if required, resolve data source for select-type controls,
# i.e., if a callback is defined on the 'option_values' field
for stage in wizard_stages['start']:
if "items" in stage:
for st in stage['items']:
if "option_values" in st:
st["option_values"] = htags.get_control_options(st)
# get sample types
for s_t in sample_types:
s_stages = d_utils.json_to_pytype(lkup.WIZARD_FILES["sample_attributes"])['properties']
form_schema = list()
for f in self.schema:
# get relevant attributes based on sample type
if f.get("show_in_form", True) and s_t in f.get("specifications", sample_types):
# if required, resolve data source for select-type controls,
# i.e., if a callback is defined on the 'option_values' field
if "option_values" in f:
f["option_values"] = htags.get_control_options(f)
# change sample-source control to wizard-compliant version
if f.get("control", str()) == "copo-sample-source":
f["control"] = "copo-sample-source-2"
# get short-form id
f["id"] = f["id"].split(".")[-1]
# might not need to include name
if f["id"] == "name":
continue
form_schema.append(f)
for p in s_stages:
if p["ref"] == "sample_attributes":
p["items"] = form_schema
wizard_stages[s_t] = s_stages
return wizard_stages
def get_stage_html(self, stage):
stage_items = stage['items']
html_tag = list()
if stage_items:
for st in stage_items:
# if required, resolve data source for select-type controls,
# i.e., if a callback is defined on the 'option_values' field
if "option_values" in st:
st["option_values"] = htags.get_control_options(st)
html_tag.append(st)
return html_tag
def generate_attributes(self, target_id):
sample_attributes = dict()
record = Sample().get_record(target_id)
sample_attributes["record"] = record
table_schema = list()
sample_types = list()
for s_t in d_utils.get_sample_type_options():
sample_types.append(s_t["value"])
sample_type = str()
if "sample_type" in record:
sample_type = record["sample_type"]
for f in self.schema:
# get relevant attributes based on sample type
if f.get("show_in_sub_table", False) and sample_type in f.get("specifications", sample_types):
# if required, resolve data source for select-type controls,
# i.e., if a callback is defined on the 'option_values' field
if "option_values" in f:
f["option_values"] = htags.get_control_options(f)
# change sample-source control to wizard-compliant version
if f.get("control", str()) == "copo-sample-source":
f["control"] = "copo-sample-source-2"
# get short-form id
f["id"] = f["id"].split(".")[-1]
# might not need to include name
if f["id"] == "name":
continue
table_schema.append(f)
sample_attributes["schema"] = table_schema
return sample_attributes
