def command(self):
app = self.load_wsgi_app()
storage = QLStorageSource(app.config)
if len(self.args) < 2:
print self.__class__.usage
return
for i in range(0,len(self.args)-1):
plate_id = int(self.args[i])
plate = dbplate_tree(plate_id)
try:
plate_path = storage.plate_path(plate)
except Exception, e:
print "Could not read plate: %s" % plate_id
continue
qlplate = get_plate(plate_path)
if not qlplate:
raise ValueError, "Could not read plate: %s" % plate_path
else:
print "Processing %s" % plate_path
try:
from qtools.lib.metrics import DEFAULT_CNV_CALC, compute_metric_foreach_qlwell
plate_metrics = plate.metrics[0]
compute_metric_foreach_qlwell(qlplate, plate_metrics, DEFAULT_CNV_CALC)
except Exception, e:
import sys, traceback
traceback.print_exc(file=sys.stdout)
Session.rollback()
return
def process_plate(self, qlplate, plate_metric):
from qtools.lib.metrics import NEW_DROPLET_CLUSTER_METRICS_CALCULATOR, compute_metric_foreach_qlwell_channel
from qtools.lib.metrics import NEW_DROPLET_CLUSTER_WELL_METRICS_CALCULATOR, compute_metric_foreach_qlwell
compute_metric_foreach_qlwell_channel(qlplate, plate_metric, NEW_DROPLET_CLUSTER_METRICS_CALCULATOR)
compute_metric_foreach_qlwell( qlplate, plate_metric, NEW_DROPLET_CLUSTER_WELL_METRICS_CALCULATOR)
Session.commit()