def render_template(template, context):
filename = str(template.filename)
filename = filename[filename.rfind('third_party'):]
filename = normalize_path(filename)
context['jinja_template_filename'] = filename
return template.render(context)
def get_list_data(info_dict, flag):
print info_dict
for key, value in info_dict.items():
patient_id = sample_id = info_dict.get(key)[2]
if flag == 1:
query_set = RawData.select().where(RawData.novo_id == key)
else:
query_set = RawData.select().where(
RawData.novo_id == key[0],
RawData.index_seq == key[1]
)
for data in query_set:
if data:
yield data.lane_id, patient_id, sample_id, \
normal_lib_id(data.lib_name, data.qc_index),\
data.novo_id, data.qc_index, \
normalize_path(data.path)
def normalize_this_header_path(self, header_path):
header_path = normalize_path(header_path)
match = re.search('(third_party/blink/.*)$', header_path)
assert match, 'Unkown style of path to output: ' + header_path
return match.group(1)
