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@ttl_cache(maxsize=1, ttl=600)
def _get_gc_expiration_policies():
policy_tuples_query = (
Namespace.select(Namespace.removed_tag_expiration_s)
.distinct()
.limit(100) # This sucks but it's the only way to limit memory
.tuples()
)
return [policy[0] for policy in policy_tuples_query]
@cachetools.func.ttl_cache(maxsize=100, ttl=10 * 60)
def get_bearer(self, scope):
"""Return bearer token from Gitlab jwt"""
url = "{}/?service=container_registry&scope={}:*".format(self.jwt, scope)
response = requests.get(url, auth=self.auth, verify=self.requests_verify)
response.raise_for_status()
token = response.json()
return token["token"]
@cachetools.func.ttl_cache(maxsize=500)
def get_folding_rate_for_gene(bnumber, temp, refT=37):
"""Predict the kinetic folding rate of a protein at temperature T
Args:
bnumber: E. coli locus ID
temp: temperature
refT: reference temperature default to 37C
Returns:
kinetic folding rate kf (kegg-1)
"""
slope = 22000 # not many data on this value, but it's effect on growth rate very small
id_and_seq = uniprot_info(bnumber)
@ttl_cache(maxsize=512, ttl=60 * 5)
def _get_info(dist_name, index_url=None, env=None, extra_index_url=None):
log = logger.bind(dist_name=dist_name)
tmpdir = tempfile.mkdtemp()
log.debug("created scratch", tmpdir=tmpdir)
try:
with wimpy.working_directory(tmpdir):
data = pipper.get(
dist_name,
index_url=index_url,
env=env,
extra_index_url=extra_index_url,
tmpdir=".",
)
dist_path = data["path"]
# extract any info we may need from downloaded dist right now, so the
# downloaded file can be cleaned up immediately
@ttl_cache(maxsize=1, ttl=600)
def _latest_release_name(self):
latest_release_file_name = self._expand_release_template(
RAIDEN_RELEASES_LATEST_FILE_TEMPLATE
)
url = urljoin(RAIDEN_RELEASES_URL, latest_release_file_name)
log.debug("Fetching latest Raiden release", lookup_url=url)
return requests.get(url).text.strip()