class SENSOR_WF(tb.IsDescription):
"""
Describes a true waveform (zero supressed)
"""
event = tb.UInt32Col(pos=0)
ID = tb.UInt32Col(pos=1)
time_mus = tb.Float32Col(pos=2)
ene_pes = tb.Float32Col(pos=3)
class Info(tables.IsDescription):
year = tables.Int16Col()
station_id = tables.Int32Col()
wban_id = tables.Int32Col()
call_id = tables.StringCol(6)
lat = tables.Float32Col()
lon = tables.Float32Col()
elevation = tables.Int16Col()
class DetectorGeometry(tb.IsDescription):
"""
Stores geometry information for the detector
"""
x_det = tb.Float32Col(shape=2, pos=1) # xmin, xmax
y_det = tb.Float32Col(shape=2, pos=2) # ymin, ymax
z_det = tb.Float32Col(shape=2, pos=3) # zmin, zmax
r_det = tb.Float32Col(pos=4) # radius
class DescSPLITS(tb.IsDescription):
""" struct: date, sending ratio(free), sending ratio (charged),
sending price, dividend
"""
time = tb.Time32Col(pos=0) # seconds ince 1970.1.1): integer
sd = tb.Float32Col(pos=1) # songgu ratio: float
ss = tb.Float32Col(pos=2) # peigu ratio: float
ssp = tb.Float32Col(pos=3) # peigu ratio: float
cd = tb.Float32Col(pos=4) # dividend: float
class MCHitInfo(tb.IsDescription):
"""Stores the simulated hits as metadata using Pytables.
"""
hit_position = tb.Float32Col(pos=0, shape=3)
hit_time = tb.Float64Col(pos=1)
hit_energy = tb.Float32Col(pos=2)
label = tb.StringCol(20, pos=3)
particle_indx = tb.Int16Col(pos=4)
hit_indx = tb.Int16Col(pos=5)
class PhenotypeValue(tables.IsDescription):
"""
Phenotype value wrapper
"""
ecotype = tables.Int32Col()
accession_name = tables.StringCol(16)
mean_value = tables.Float32Col()
std_dev = tables.Float32Col()
comment = tables.StringCol(256)
class AMASS_ROW(pytables.IsDescription):
fid = pytables.Int16Col(1) # 1-character String
fname = pytables.Int32Col(1) # 1-character String
gender = pytables.Int16Col(1) # 1-character String
pose = pytables.Float32Col(52 * 3) # float (single-precision)
dmpl = pytables.Float32Col(8) # float (single-precision)
pose_matrot = pytables.Float32Col(52 * 9) # float (single-precision)
betas = pytables.Float32Col(16) # float (single-precision)
trans = pytables.Float32Col(3) # float (single-precision)
class HisparcSatellite(tables.IsDescription):
event_id = tables.UInt32Col(pos=0)
timestamp = tables.Time32Col(pos=1)
min_n = tables.UInt16Col(pos=2)
mean_n = tables.Float32Col(pos=3)
max_n = tables.UInt16Col(pos=4)
min_signal = tables.UInt16Col(pos=5)
mean_signal = tables.Float32Col(pos=6)
max_signal = tables.UInt16Col(pos=7)
class WhiskerSeg(tables.IsDescription):
time = tables.UInt32Col()
id = tables.UInt16Col()
tip_x = tables.Float32Col()
tip_y = tables.Float32Col()
fol_x = tables.Float32Col()
fol_y = tables.Float32Col()
pixlen = tables.UInt16Col()
chunk_start = tables.UInt32Col()
class omega_percent(tables.IsDescription):
"""
percentage of: cis trans peptide bonds
"""
replica_id = tables.StringCol(itemsize=10, pos=0)
trans_x_pro = tables.Float32Col(pos=1)
cis_x_pro = tables.Float32Col(pos=2)
trans_y_x = tables.Float32Col(pos=3)
cis_y_x = tables.Float32Col(pos=4)
class Biography(tables.IsDescription):
'''
pytables descriptor class for biographical information.
'''
name = tables.StringCol(32)
start_date = tables.StringCol(10)
baseline_mass = tables.Float32Col()
minimum_mass = tables.Float32Col()
box = tables.Int32Col()
class rg(tables.IsDescription):
"""
Radius of gyration of C alpha along the time trjectory
"""
time = tables.Float32Col(pos=0)
rg = tables.Float32Col(pos=1)
rg_x = tables.Float32Col(pos=2)
rg_y = tables.Float32Col(pos=3)
rg_z = tables.Float32Col(pos=4)
class OrderData(tables.IsDescription):
date = tables.TimeCol()
order_type = tables.StringCol(16)
symbol = tables.StringCol(16)
date_str = tables.StringCol(16)
order = tables.StringCol(64)
executed_quantity = tables.Int32Col()
executed_price = tables.Float32Col()
basis = tables.Float32Col()
class Photometry(tables.IsDescription):
time = tables.Float64Col()
flux = tables.Float32Col()
flux_err = tables.Float32Col()
mag = tables.Float32Col()
mag_err = tables.Float32Col()
telescope = tables.StringCol(16)
instrument = tables.StringCol(16)
filter_name = tables.StringCol(16)
class ClusterInfoTable(tb.IsDescription):
event_number = tb.Int64Col(pos=0)
id = tb.UInt16Col(pos=1)
n_hits = tb.UInt16Col(pos=2)
charge = tb.Float32Col(pos=3)
seed_column = tb.UInt16Col(pos=4)
seed_row = tb.UInt16Col(pos=5)
mean_column = tb.Float32Col(pos=6)
mean_row = tb.Float32Col(pos=7)
class rama(tables.IsDescription):
"""
phi, psi: dihedral angles
aa: amino acid
"""
phi = tables.Float32Col(pos=0)
psi = tables.Float32Col(pos=1)
# For types with a non-fixed size, this sets the size in bytes of individual items in the column.
aa = tables.StringCol(itemsize=10, pos=2)
class DataSensor(tb.IsDescription):
"""Store metadata information for the SiPMs (position, gain,
calibration-constant, mask).
"""
channel = tb. Int32Col(pos=0) # electronic channel
position = tb.Float32Col(pos=1, shape=3)
coeff = tb.Float64Col(pos=2)
adc_to_pes = tb.Float32Col(pos=3)
noise_rms = tb.Float32Col(pos=4)
class ResultRecordFT(tables.IsDescription):
"""
Fisher's exact test
"""
chromosome = tables.Int32Col()
position = tables.Int32Col()
score = tables.Float64Col()
maf = tables.Float32Col()
mac = tables.Int32Col()
odds_ratio = tables.Float32Col()
class Persons_R(t.IsDescription):
houseid = t.Int64Col()
personid = t.Int32Col()
schdailystatus = t.Int32Col()
wrkdailystatus = t.Int32Col()
dependency = t.Int32Col()
valueoftimeperdist = t.Float32Col()
episodes = t.Int32Col()
hhwagerate = t.Float32Col()
valueoftime = t.Float32Col()
class S12(tb.IsDescription):
"""Store for a S1/S2
The table maps a S12:
peak is the index of the S12 dictionary, running over the number of peaks found
time and energy of the peak.
"""
event = tb. Int32Col(pos=0)
peak = tb. UInt8Col(pos=2) # peak number
time = tb.Float32Col(pos=3) # time in ns
ene = tb.Float32Col(pos=4) # energy in pes
class AMASS_ROW(pytables.IsDescription):
gender = pytables.Int16Col(1) # 1-character String
idx = pytables.Int16Col(1) # 1-character String
frame = pytables.Int16Col(1) # 1-character String
pose = pytables.Float32Col(24 * 3) # float (single-precision)
pose_matrot = pytables.Float32Col(24 * 9) # float (single-precision)
betas = pytables.Float32Col(10) # float (single-precision)
trans = pytables.Float32Col(3) # float (single-precision)
tightness = pytables.Float32Col(2)
outfit = pytables.Int16Col(6)
class HdfTable(tables.IsDescription):
"""Define the flagging table structure for pytables"""
channels_l = tables.Float32Col(32)
channels_r = tables.Float32Col(32)
stokes_q = tables.Float32Col(32)
stokes_u = tables.Float32Col(32)
time = tables.Int32Col()
subtime = tables.Int32Col()
integration_l = tables.Int32Col()
class MonitoringSubarrayPointing(tables.IsDescription):
"""
Create the r0 Subarray pointing inside the monitoring directory
"""
time = tables.Float64Col()
tels_with_trigger = tables.UInt64Col()
array_azimuth = tables.Float32Col()
array_altitude = tables.Float32Col()
array_ra = tables.Float32Col()
array_dec = tables.Float32Col()
class ClusterInfoTable(tb.IsDescription):
event_number = tb.Int64Col(pos=0)
id = tb.UInt16Col(pos=1)
size = tb.UInt16Col(pos=2)
tot = tb.UInt16Col(pos=3)
seed_column = tb.UInt8Col(pos=4)
seed_row = tb.UInt16Col(pos=5)
mean_column = tb.Float32Col(pos=6)
mean_row = tb.Float32Col(pos=7)
event_status = tb.UInt16Col(pos=8)
class ResultRecord(tables.IsDescription):
"""
Kruskal Wallis
"""
chromosome = tables.UInt8Col()
position = tables.Int32Col()
score = tables.Float32Col()
maf = tables.Float32Col()
mac = tables.Int32Col()
perc_var_expl = tables.Float32Col()
class Lumitable(t.IsDescription):
fillnum = t.UInt32Col(shape=(), dflt=0, pos=0)
runnum = t.UInt32Col(shape=(), dflt=0, pos=1)
lsnum = t.UInt32Col(shape=(), dflt=0, pos=2)
nbnum = t.UInt32Col(shape=(), dflt=0, pos=3)
timestampsec = t.UInt32Col(shape=(), dflt=0, pos=4)
avgraw = t.Float32Col(shape=(), dflt=0.0, pos=5)
avg = t.Float32Col(shape=(), dflt=0.0, pos=6)
bxraw = t.Float32Col(shape=(3564, ), dflt=0.0, pos=7)
bx = t.Float32Col(shape=(3564, ), dflt=0.0, pos=8)
class trial_info_particle(tables.IsDescription):
'''PyTables particle for recording digital input (taste) trial info/order
'''
trial_num = tables.UInt16Col()
channel = tables.Int16Col()
name = tables.StringCol(20)
on_index = tables.Int32Col()
off_index = tables.Int32Col()
on_time = tables.Float32Col()
off_time = tables.Float32Col()
class e2ed(tables.IsDescription):
"""
end-to-end distance data along the time trjectory
VERY STRANGE: docstring doesn't work for subclass of tables.IsDescription 2012-12-13
"""
time = tables.Float32Col(pos=0)
e2ed = tables.Float32Col(pos=1)
e2edx = tables.Float32Col(pos=2)
e2edy = tables.Float32Col(pos=3)
e2edz = tables.Float32Col(pos=4)
class VIRUSImage(tb.IsDescription):
wavelength = tb.Float32Col((112, 1032))
trace = tb.Float32Col((112, 1032))
Amp2Amp = tb.Float32Col((112, 1036))
Throughput = tb.Float32Col((112, 1036))
ifupos = tb.Float32Col((112, 2))
ifuslot = tb.Int32Col()
ifuid = tb.StringCol(3)
specid = tb.StringCol(3)
amp = tb.StringCol(2)
class ResultRecordKW(tables.IsDescription):
"""
Kruskal Wallis
"""
chromosome = tables.Int32Col()
position = tables.Int32Col()
score = tables.Float64Col()
maf = tables.Float32Col()
mac = tables.Int32Col()
statistic = tables.Float32Col()
