def build_config(path):
"Tries to build the config dictionary for the given path"
try:
config = parsing.initial(getabspath(path))
except:
logger.exception(
"Error parsing gbk: %r", getabspath(path, raise_on_missing=False))
raise
parsing.detect_format(config)
for k in VALID_KEYS:
v = request.args.get(k)
if v:
nv = parsing.number(v)
config[k] = v if nv is None else nv
parsing.endBase(config)
parsing.mycoplasma(config)
# fixup nucleotides list
if 'nucleotides' in request.args:
config['nucleotides'] = request.args.getlist('nucleotides')
for key in MAGIC_PARAMS:
if key in request.args:
config[key] = request.args[key]
return config
def detect_format(config):
parsing.detect_format(config)
assert config['format']
ddnafile = path(config['ddna'])
assert ddnafile.exists()
assert config['length'] == ddnafile.size
assert ddnafile.open('r').read(14) == 'CAAATTGCGCTACA'
