def test_recarray_read(self):
tablename = lsctables.strip_table_name(self.TABLE_CLASS.tableName)
# simple
table = GWRecArray.read(self.TEST_XML_FILE, format=tablename)
self.assertEquals(len(table), 2052)
# nproc
table = GWRecArray.read(self.TEST_XML_FILE, format=tablename, nproc=2)
# get_as_column
table = GWRecArray.read(self.TEST_XML_FILE, format=tablename,
get_as_columns=True)
def test_get_table_row_methods(self):
testfile = SnglBurstTableTestCase.TEST_XML_FILE
table = GWRecArray.read(SnglBurstTableTestCase.TEST_XML_FILE,
format='sngl_burst')
# test simple column
snr = get_table_column(table, 'snr')
nptest.assert_array_equal(snr, table['snr'])
# test 'time' special-case
time = get_table_column(table, 'time')
nptest.assert_array_equal(
time, table['peak_time'] + table['peak_time_ns'] * 1e-9)
# test row
row = table[0]
self.assertEqual(get_row_value(row, 'snr'), row['snr'])
self.assertEqual(get_row_value(row, 'time'),
row['peak_time'] + row['peak_time_ns'] * 1e-9)
def get_triggers(channel, etg, segments, config=GWSummConfigParser(),
cache=None, columns=None, query=True, multiprocess=False,
ligolwtable=None, return_=True):
"""Read a table of transient event triggers for a given channel.
"""
key = '%s,%s' % (str(channel), etg.lower())
# convert input segments to a segmentlist (for convenience)
if isinstance(segments, DataQualityFlag):
segments = segments.active
segments = SegmentList(segments)
# get processes
if multiprocess is True:
nproc = count_free_cores()
elif multiprocess is False:
nproc = 1
else:
nproc = multiprocess
# find LIGO_LW table for this ETG
try:
TableClass = get_etg_table(etg)
except KeyError:
TableClass = None
# work out columns
if columns is None:
try:
columns = config.get(etg, 'columns').split(',')
except (NoSectionError, NoOptionError):
columns = None
# read segments from global memory
try:
havesegs = globalv.TRIGGERS[key].segments
except KeyError:
new = segments
else:
new = segments - havesegs
# read new triggers
if query and abs(new) != 0:
ntrigs = 0
vprint(" Grabbing %s triggers for %s" % (etg, str(channel)))
# store read kwargs
kwargs = get_etg_read_kwargs(config, etg, exclude=['columns'])
kwargs['columns'] = columns
if etg.lower().replace('-', '_') in ['cwb', 'pycbc_live']:
kwargs['ifo'] = get_channel(channel).ifo
if 'format' not in kwargs and 'ahope' not in etg.lower():
kwargs['format'] = etg.lower()
# set up ligolw options if needed
if TableClass is not None:
contenthandler = get_partial_contenthandler(TableClass)
lsctables.use_in(contenthandler)
# loop over segments
for segment in new:
# find trigger files
if cache is None and etg.lower() == 'hacr':
raise NotImplementedError("HACR parsing has not been "
"implemented.")
if cache is None and etg.lower() in ['kw', 'kleinewelle']:
kwargs['filt'] = lambda t: t.channel == str(channel)
if cache is None:
try:
segcache = trigfind.find_trigger_urls(str(channel), etg,
segment[0],
segment[1])
except ValueError as e:
warnings.warn("Caught %s: %s" % (type(e).__name__, str(e)))
continue
else:
for regex in TRIGFIND_FORMAT:
if regex.match(etg):
kwargs['format'] = TRIGFIND_FORMAT[regex]
if TRIGFIND_FORMAT[regex] in lsctables.TableByName:
kwargs['get_as_columns'] = True
break
if etg.lower() == 'omega':
kwargs.setdefault('format', 'omega')
else:
kwargs.setdefault('format', 'ligolw')
else:
segcache = cache
if isinstance(segcache, Cache):
segcache = segcache.sieve(segment=segment)
segcache = segcache.checkfilesexist()[0]
segcache.sort(key=lambda x: x.segment[0])
if etg == 'pycbc_live': # remove empty HDF5 files
segcache = type(segcache)(
filter_pycbc_live_files(segcache, ifo=kwargs['ifo']))
# if no files, skip
if len(segcache) == 0:
continue
# read triggers
if kwargs.get('format', None) == 'ligolw':
kwargs['contenthandler'] = contenthandler
try: # try directly reading a numpy.recarray
table = GWRecArray.read(segcache, nproc=nproc, **kwargs)
except Exception as e: # back up to LIGO_LW
if TableClass is not None and 'No reader' in str(e):
try:
table = TableClass.read(segcache, **kwargs)
except Exception:
raise e
else:
table = table.to_recarray(get_as_columns=True)
else:
raise
# append new events to existing table
try:
csegs = cache_segments(segcache)
except AttributeError:
csegs = SegmentList()
table.segments = csegs
t2 = keep_in_segments(table, SegmentList([segment]), etg)
add_triggers(t2, key, csegs)
ntrigs += len(t2)
vprint(".")
vprint(" | %d events read\n" % ntrigs)
# if asked to read triggers, but didn't actually read any,
# create an empty table so that subsequent calls don't raise KeyErrors
if query and key not in globalv.TRIGGERS:
if TableClass is not None:
tab = lsctables.New(TableClass, columns=columns).to_recarray(
get_as_columns=True)
else:
tab = GWRecArray((0,), dtype=[(c, float) for c in columns])
tab.segments = SegmentList()
add_triggers(tab, key, tab.segments)
# work out time function
if return_:
return keep_in_segments(globalv.TRIGGERS[key], segments, etg)
else:
return