def Kef2TableData(statusbar, filename):
try:
kef = kefx.Kef(filename)
kef.open()
kef.read()
kef.rewind()
except Exception:
raise
tables = {}
types = {}
count = 0
totalLines = kef.pathCount
for path, kVal in kef:
if path not in tables:
tables[path] = []
types[path] = []
if types[path] == []:
for label in kef.keySets[path]:
types[path].append(PH5TYPE[label[-2:]])
entry = []
for label in kef.keySets[path]:
entry.append(kVal[label])
tables[path].append(entry)
count += 1
if count % 10000 == 0:
msg = "Converting Kef to Data: %s/%s."
statusbar.showMessage(msg % (count, totalLines))
kef.close()
return tables, kef.keySets, totalLines, types
def kef_open(filename):
try:
kx = kefx.Kef(filename)
kx.open()
kx.read()
kx.rewind()
except Exception as e:
raise kefx.KefError(e.message)
return kx
def read_kef():
''' Open KEF and read ARGS.kefile
'''
global KEF
try:
KEF = kefx.Kef(ARGS.kefile)
KEF.open()
KEF.read()
KEF.rewind()
except Exception as e:
LOGGER.error(e.message)
sys.exit()
def main():
args = get_args()
kefin = args.infile
try:
kx = kefx.Kef(kefin)
kx.open()
except Exception as e:
LOGGER.error("Error opening kef file {0} - {1}".format(kefin, e))
else:
kx.read()
kx.rewind()
kx.ksort('id_s')
kx.rewind()
if isinstance(args.outfile, (str, unicode)):
args.outfile = open(args.outfile, "w")
args.outfile.write(kx.to_str())
def main():
nodeIDRE = re.compile("\d+X\d+")
try:
kefin = sys.argv[1]
kx = kefx.Kef(kefin)
kx.open()
except:
print "Version: {0} Usage: sort_array_t Array_t_unsorted.kef > Array_t_sorted.kef".format(
PROG_VERSION)
sys.exit()
kx.read()
kx.rewind()
kx.ksort('id_s')
kx.rewind()
for p, kv in kx:
if nodeIDRE.match(kv['id_s']):
kv['id_s'] = kv['id_s'].split('X')[1]
kefx.print_kef(p, kv)
def populateTables():
global EX, KEFFILE, TRACE
LOGGER.info("Loading {0} into {1}.".format(KEFFILE, PH5))
k = kefx.Kef(KEFFILE)
k.open()
while True:
n = k.read(10000)
if n == 0:
err = "Empty kef file."
break
# Get Das_g references
ret = k.strip_receiver_g()
if ret:
add_references(ret)
# Make sure Array_t_xxx, Event_t_xxx, and Offset_t_aaa_sss exist
arrays, events, offsets = k.strip_a_e_o()
if arrays:
for a in arrays:
a = a.split(':')[0]
EX.ph5_g_sorts.newArraySort(a)
if events:
for e in events:
e = e.split(':')[0]
EX.ph5_g_sorts.newEventSort(e)
if offsets:
for o in offsets:
o = o.split(':')[0]
EX.ph5_g_sorts.newOffsetSort(o)
if TRACE is True:
err = k.batch_update(trace=True)
else:
err = k.batch_update()
k.close()
if err is True:
LOGGER.error("There were errors! See output.")
def populateTables():
global EX, KEFFILE, TRACE
k = kefx.Kef(KEFFILE)
k.open()
while True:
n = k.read(10000)
if n == 0:
err = "Empty kef file."
break
# Get Das_g references
ret = k.strip_receiver_g()
if ret:
add_references(ret)
# Make sure Array_t_xxx, Event_t_xxx, and Offset_t_aaa_sss exist
arrays, events, offsets = k.strip_a_e_o()
#print arrays
if arrays:
for a in arrays:
a = a.split(':')[0]
refa = EX.ph5_g_sorts.newArraySort(a)
if events:
for e in events:
e = e.split(':')[0]
refe = EX.ph5_g_sorts.newEventSort(e)
if offsets:
for o in offsets:
o = o.split(':')[0]
refo = EX.ph5_g_sorts.newOffsetSort(o)
if TRACE == True:
err = k.batch_update(trace=True)
else:
err = k.batch_update()
k.close()
if err == True:
sys.stderr.write("\nError: There were errors! See output.\n")