def main():
global PH5, KEFFILE
get_args()
# Create ph5 file
EDITMODE = True
ex = experiment.ExperimentGroup(nickname=PH5)
ex.ph5open(EDITMODE)
ex.initgroup()
# Update Experiment_t
if KEFFILE:
k = kef.Kef(KEFFILE)
k.open()
k.read()
k.batch_update()
k.close()
if os.path.exists(RECEIVER_T):
k = kef.Kef(RECEIVER_T)
k.open()
k.read()
k.batch_update()
k.close()
else:
sys.stderr.write(
"Warning: /Experiment_g/Receivers_g/Receiver_t not set!\n")
os.remove("kef.tmp")
# Close PH5 file
ex.ph5close()
print "Done..."
os.remove("kef.tmp")
def update():
global EX, ARRAY_NAME, KEF
# There is a bug in batch update that kills kv
k = kef.Kef(KEF)
k.open()
k.read()
k.rewind()
ARRAY_NAME = None
while True:
p, kv = k.next()
if not p:
break
if 'array_name_a' in kv:
ARRAY_NAME = kv['array_name_a']
else:
LOGGER.error(
"Kef file does not contain entry for array_name_a. "
"Can not continue!")
return False
ref = EX.ph5_g_reports.ph5_t_report
if p not in columns.TABLES:
LOGGER.warning("No table reference for key: {0}. "
"Possibly ph5 file is not open or initialized?"
.format(p))
key = []
errs_keys, errs_required = columns.validate(ref, kv, key)
for e in errs_keys + errs_required:
LOGGER.error(e)
key = None
columns.populate(ref, kv, key)
return True
def populateExperimentTable():
global EX, KEFFILE
k = kef.Kef(KEFFILE)
k.open()
k.read()
k.batch_update()
k.close()
def set_experiment_t(experiment_t):
if experiment_t and os.path.exists(experiment_t):
LOGGER.info("Loading /Experiment_g/Experiment_t using {0}.".format(
experiment_t))
k = kef.Kef(experiment_t)
k.open()
k.read()
k.batch_update()
k.close()
else:
LOGGER.warning("Experiment_g/Experiment_t not set! "
"Use --kef option to supply a Experiment_t kef file.")
def set_receiver_t(receiver_t):
if os.path.exists(receiver_t):
LOGGER.info(
"Loading Experiment_g/Receivers_g/Receiver_t using {0}.".format(
receiver_t))
k = kef.Kef(receiver_t)
k.open()
k.read()
k.batch_update()
k.close()
else:
LOGGER.warning("{0} file not found.".format(receiver_t))
def update():
global EX, ARRAY_NAME, KEF
# There is a bug in batch update that kills kv
k = kef.Kef(KEF)
k.open()
k.read()
#k.batch_update ()
#k.close () ; sys.exit ()
k.rewind()
ARRAY_NAME = None
while 1:
p, kv = k.next()
if not p: break
if kv.has_key('array_name_a'):
ARRAY_NAME = kv['array_name_a']
else:
sys.stderr.write(
"Error: Kef file does not contain entry for array_name_a.\nCan not continue!\n"
)
return False
# XXX We always append XXX
#mo = updateRE.match (p)
ref = EX.ph5_g_reports.ph5_t_report
if not columns.TABLES.has_key(p):
sys.stderr.write("Warning: No table reference for key: %s\n" % p)
sys.stderr.write("Possibly ph5 file is not open or initialized?\n")
key = []
errs_keys, errs_required = columns.validate(ref, kv, key)
for e in errs_keys + errs_required:
sys.stderr.write(e + '\n')
key = None
columns.populate(ref, kv, key)
return True