def produce_product(self):
chl_path = Resolver().raw_file(CHL, 'NESLTERchl.xlsx')
parsed = parse_chl(chl_path)
subset = subset_chl(parsed)
chl = subset[subset['cruise'] == self.cruise.upper()]
bottle_summary = CtdBottleSummaryWorkflow(
self.cruise).produce_product()
return merge_bottle_summary(chl, bottle_summary)
def produce_product(self):
bottle_summary = CtdBottleSummaryWorkflow(self.cruise).get_product()
nut_path = Resolver().raw_file(NUT, 'LTERnut.xlsx')
parent_dir = os.path.dirname(os.path.dirname(nut_path)) # ..
sample_log_path = os.path.join(parent_dir, 'LTER_sample_log.xlsx')
merged = merge_nut_bottles(sample_log_path, nut_path, bottle_summary,
self.cruise)
return add_nearest_station(self.cruise, merged)
def sidecar_file_path(cruise, filename):
try:
elog_dir = Resolver().raw_directory('elog', cruise)
except KeyError:
return None
path = os.path.join(elog_dir, filename)
if not os.path.exists(path):
return None
return path
def cruise_metadata(request):
rows = []
cruises = Resolver().cruises()
for cruise in cruises:
start_date = ''
end_date = ''
try:
elog = EventLogWorkflow(cruise).get_product()
start_date = elog[elog['Action'] ==
'startCruise'].iloc[0]['dateTime8601']
end_date = elog[elog['Action'] ==
'endCruise'].iloc[0]['dateTime8601']
except KeyError: # no elog for this cruise
pass
except ValueError: # error procssing elog
pass
rows.append({
'cruise': cruise,
'start': start_date,
'end': end_date,
})
df = pd.DataFrame(rows)
return dataframe_response(df, 'cruise_metadata', 'csv')
def hdr_path(cruise):
try:
return Resolver().raw_directory('ctd', cruise)
except KeyError:
return None
def elog_path(cruise):
elog_dir = Resolver().raw_directory('elog', cruise)
candidates = glob(os.path.join(elog_dir, 'R2R_ELOG_*_FINAL_EVENTLOG*.csv'))
assert len(candidates) == 1, 'cannot find event log at {}'.format(elog_dir)
return candidates[0]
def directories(self):
return Resolver().directories(UNDERWAY, self.cruise)
def produce_product(self):
hplc_dir = Resolver().raw_directory(HPLC)
all_hplc = parse_hplc(hplc_dir)
cruise_hplc = all_hplc[all_hplc['cruise'].str.lower() == self.cruise]
return add_nearest_station(self.cruise, cruise_hplc)
def directories(self):
return Resolver().directories(HPLC, self.cruise, skip_raw=True)
def cruises(request):
cruises = Resolver().cruises()
return JsonResponse({'cruises': cruises})
def directories(self):
return Resolver().directories(EVENT_LOG, self.cruise)
def directories(self):
return Resolver().directories(CTD, self.cruise)