Antenna Classification Daily Summary¶
by Josh Dillon last updated June 19, 2023
This notebook parses and summarizes the output of the file_calibration
notebook to produce a report on per-antenna malfunctions on a daily basis.
Quick links:
⢠Summary of Per Antenna Issues¶
⢠Figure 1: Per File Overall Antenna Classification Summary¶
⢠Figure 2: Per Classifier Antenna Flagging Summary¶
⢠Figure 3: Array Visualization of Overall Daily Classification¶
import os
os.environ['HDF5_USE_FILE_LOCKING'] = 'FALSE'
import h5py
import hdf5plugin # REQUIRED to have the compression plugins available
import numpy as np
import pandas as pd
import glob
import os
import matplotlib.pyplot as plt
from hera_cal import io, utils
from hera_qm import ant_class
from uvtools.plot import plot_antpos, plot_antclass
%matplotlib inline
from IPython.display import display, HTML
display(HTML("<style>.container { width:100% !important; }</style>"))
_ = np.seterr(all='ignore') # get rid of red warnings
%config InlineBackend.figure_format = 'retina'
Settings¶
# Parse settings from environment
ANT_CLASS_FOLDER = os.environ.get("ANT_CLASS_FOLDER", "./")
SUM_FILE = os.environ.get("SUM_FILE", None)
# ANT_CLASS_FOLDER = "/mnt/sn1/2460330"
# SUM_FILE = "/mnt/sn1/2460330/zen.2460330.25463.sum.uvh5"
OC_SKIP_OUTRIGGERS = os.environ.get("OC_SKIP_OUTRIGGERS", "TRUE").upper() == "TRUE"
for param in ['ANT_CLASS_FOLDER', 'SUM_FILE', 'OC_SKIP_OUTRIGGERS']:
print(f"{param} = '{eval(param)}'")
ANT_CLASS_FOLDER = '/mnt/sn1/data1/2460759' SUM_FILE = '/mnt/sn1/data1/2460759/zen.2460759.45945.sum.uvh5' OC_SKIP_OUTRIGGERS = 'True'
if SUM_FILE is not None:
from astropy.time import Time, TimeDelta
utc = Time(float(SUM_FILE.split('zen.')[-1].split('.sum.uvh5')[0]), format='jd').datetime
print(f'Date: {utc.month}-{utc.day}-{utc.year}')
Date: 3-24-2025
# set thresholds for fraction of the day
overall_thresh = .1
all_zero_thresh = .1
eo_zeros_thresh = .1
xengine_diff_thresh = .1
cross_pol_thresh = .5
bad_fem_thresh = .1
high_power_thresh = .1
low_power_thresh = .1
low_corr_thresh = .1
bad_shape_thresh = .5
excess_rfi_thresh = .1
chisq_thresh = .25
Load classifications and other metadata¶
# Load csvs
csv_files = sorted(glob.glob(os.path.join(ANT_CLASS_FOLDER, '*.ant_class.csv')))
jds = [float(f.split('/')[-1].split('zen.')[-1].split('.sum')[0]) for f in csv_files]
tables = [pd.read_csv(f).dropna(axis=0, how='all') for f in csv_files]
table_cols = tables[0].columns[1::2]
class_cols = tables[0].columns[2::2]
print(f'Found {len(csv_files)} csv files starting with {csv_files[0]}')
Found 1846 csv files starting with /mnt/sn1/data1/2460759/zen.2460759.25253.sum.ant_class.csv
# parse ant_strings
ap_strs = np.array(tables[0]['Antenna'])
ants = sorted(set(int(a[:-1]) for a in ap_strs))
translator = ''.maketrans('e', 'n') | ''.maketrans('n', 'e')
# get node numbers
node_dict = {ant: 'Unknown' for ant in ants}
try:
from hera_mc import cm_hookup
hookup = cm_hookup.get_hookup('default')
for ant_name in hookup:
ant = int("".join(filter(str.isdigit, ant_name)))
if ant in node_dict:
if hookup[ant_name].get_part_from_type('node')['E<ground'] is not None:
node_dict[ant] = int(hookup[ant_name].get_part_from_type('node')['E<ground'][1:])
except:
pass
nodes = sorted(set(node_dict.values()))
def classification_array(col):
class_array = np.vstack([t[col] for t in tables])
class_array[class_array == 'good'] = 1.7
class_array[class_array == 'suspect'] = 1
class_array[class_array == 'bad'] = 0
return class_array.astype(float)
if SUM_FILE is not None:
hd = io.HERADataFastReader(SUM_FILE)
ap_tuples = [(int(ap[:-1]), {'e': 'Jee', 'n': 'Jnn'}[ap[-1]]) for ap in ap_strs]
bad_bools = np.mean(classification_array('Antenna Class') == 0, axis=0) > overall_thresh
bad_aps = [ap_tuples[i] for i in np.arange(len(ap_tuples))[bad_bools]]
suspect_bools = np.mean(classification_array('Antenna Class') == 1, axis=0) > overall_thresh
suspect_aps = [ap_tuples[i] for i in np.arange(len(ap_tuples))[suspect_bools] if ap_tuples[i] not in bad_aps]
good_aps = [ap for ap in ap_tuples if ap not in bad_aps and ap not in suspect_aps]
overall_class = ant_class.AntennaClassification(bad=bad_aps, suspect=suspect_aps, good=good_aps)
autos, _, _ = hd.read(bls=[bl for bl in hd.bls if utils.split_bl(bl)[0] == utils.split_bl(bl)[1]], read_flags=False, read_nsamples=False)
avg_unflagged_auto = {}
for pol in ['ee', 'nn']:
unflagged_autos = [autos[bl] for bl in autos if bl[2] == pol and overall_class[utils.split_bl(bl)[0]] != 'bad']
if len(unflagged_autos) > 0:
avg_unflagged_auto[pol] = np.mean(unflagged_autos, axis=(0, 1))
else:
avg_unflagged_auto[pol] = np.zeros(len(hd.freqs), dtype=complex)
Figure out and summarize per-antenna issues¶
def print_issue_summary(bad_ant_strs, title, notes='', plot=False):
'''Print report for list of bad antenna polarizations strings'''
unique_bad_antnums = [int(ap[:-1]) for ap in bad_ant_strs]
display(HTML(f'<h2>{title}: ({len(bad_ant_strs)} antpols across {len(set([ba[:-1] for ba in bad_ant_strs]))} antennas)</h2>'))
if len(notes) > 0:
display(HTML(f'<h4>{notes}</h4>'))
if len(bad_ant_strs) > 0:
print(f'All Bad Antpols: {", ".join(bad_ant_strs)}\n')
for node in nodes:
if np.any([node == node_dict[a] for a in unique_bad_antnums]):
aps = [ap for ap in bad_ant_strs if node_dict[int(ap[:-1])] == node]
whole_ants = [str(wa) for wa in set([int(ap[:-1]) for ap in aps if ap.translate(translator) in bad_ant_strs])]
single_pols = [ap for ap in aps if ap.translate(translator) not in bad_ant_strs]
print(f'Node {node}:')
print(f'\tAntpols ({len(aps)} total): {", ".join(aps)}')
print(f'\tWhole Ants ({len(whole_ants)} total): {", ".join(whole_ants)}')
print(f'\tSingle Pols ({len(single_pols)} total): {", ".join(single_pols)}')
if plot and SUM_FILE is not None:
fig, axes = plt.subplots(1, 2, figsize=(12,4), dpi=70, sharey=True, gridspec_kw={'wspace': 0})
for ax, pol in zip(axes, ['ee', 'nn']):
ax.semilogy(autos.freqs / 1e6, avg_unflagged_auto[pol], 'k--', label='Average\nUnflagged\nAuto')
for ap in aps:
ant = int(ap[:-1]), utils.comply_pol(ap[-1])
auto_bl = utils.join_bl(ant, ant)
if auto_bl[2] == pol:
ax.semilogy(autos.freqs / 1e6, np.mean(autos[auto_bl], axis=0), label=ap)
ax.legend()
ax.set_xlim([40, 299])
ax.set_title(f'{title} on Node {node} ({pol}-antennas)')
ax.set_xlabel('Frequency (MHz)')
axes[0].set_ylabel('Single File Raw Autocorrelation')
plt.tight_layout()
plt.show()
# precompute various helpful quantities
all_slopes = np.vstack([t['Autocorr Slope'] for t in tables])
median_slope = np.median(all_slopes)
bad_slopes = np.vstack([t['Autocorr Slope Class'] for t in tables]) == 'bad'
suspect_slopes = np.vstack([t['Autocorr Slope Class'] for t in tables]) == 'suspect'
bad_shapes = np.vstack([t['Autocorr Shape Class'] for t in tables]) == 'bad'
suspect_shapes = np.vstack([t['Autocorr Shape Class'] for t in tables]) == 'suspect'
all_powers = np.vstack([t['Autocorr Power'] for t in tables])
median_power = np.median(all_powers)
bad_powers = np.vstack([t['Autocorr Power Class'] for t in tables]) == 'bad'
suspect_powers = np.vstack([t['Autocorr Power Class'] for t in tables]) == 'suspect'
bad_rfi = np.vstack([t['Auto RFI RMS Class'] for t in tables]) == 'bad'
suspect_rfi = np.vstack([t['Auto RFI RMS Class'] for t in tables]) == 'suspect'
# find all zeros
all_zeros_strs = ap_strs[np.mean(np.vstack([t['Dead? Class'] for t in tables]) == 'bad', axis=0) > all_zero_thresh]
# find even/odd zeros
eo_zeros_strs = ap_strs[np.mean(np.vstack([t['Even/Odd Zeros Class'] for t in tables]) == 'bad', axis=0) > eo_zeros_thresh]
eo_zeros_strs = [ap for ap in eo_zeros_strs if ap not in all_zeros_strs]
# find cross-polarized antennas
cross_pol_strs = ap_strs[np.mean(np.vstack([t['Cross-Polarized Class'] for t in tables]) == 'bad', axis=0) > cross_pol_thresh]
cross_pol_strs = [ap for ap in cross_pol_strs if ap not in all_zeros_strs]
# find FEM power issues: must be low power, high slope, and bad or suspect in power, slope, rfi, and shape
fem_off_prod = (bad_powers + .5 * suspect_powers) * (bad_slopes + .5 * suspect_slopes)
fem_off_prod *= (bad_rfi + .5 * suspect_rfi) * (bad_shapes + .5 * suspect_shapes)
fem_off_strs = ap_strs[np.mean(fem_off_prod * (all_powers < median_power) * (all_slopes > median_slope), axis=0) > .1]
# find high power issues
high_power_strs = ap_strs[np.mean(bad_powers & (all_powers > median_power), axis=0) > high_power_thresh]
# find other low power issues
low_power_strs = ap_strs[np.mean(bad_powers & (all_powers < median_power), axis=0) > low_power_thresh]
low_power_strs = [ap for ap in low_power_strs if ap not in all_zeros_strs and ap not in fem_off_strs]
# find low correlation (but not low power)
low_corr_strs = ap_strs[np.mean(np.vstack([t['Low Correlation Class'] for t in tables]) == 'bad', axis=0) > low_corr_thresh]
low_corr_strs = [ap for ap in low_corr_strs if ap not in (set(low_power_strs) | set(all_zeros_strs) | set(fem_off_strs))]
# find bad bandpasses
bad_bandpass_strs = ap_strs[np.mean(bad_shapes, axis=0) > bad_shape_thresh]
bad_bandpass_strs = [ap for ap in bad_bandpass_strs if ap not in (set(low_power_strs) | set(all_zeros_strs) | set(high_power_strs) | set(fem_off_strs))]
# find antennas with excess RFI
excess_rfi_strs = ap_strs[np.mean(np.vstack([t['Auto RFI RMS Class'] for t in tables]) == 'bad', axis=0) > excess_rfi_thresh]
excess_rfi_strs = [ap for ap in excess_rfi_strs if ap not in (set(low_power_strs) | set(all_zeros_strs) | set(fem_off_strs) |
set(bad_bandpass_strs) | set(high_power_strs))]
# find bad x-engine diffs
xengine_diff_strs = ap_strs[np.mean(np.vstack([t['Bad Diff X-Engines Class'] for t in tables]) == 'bad', axis=0) > xengine_diff_thresh]
xengine_diff_strs = [ap for ap in xengine_diff_strs if ap not in (set(bad_bandpass_strs) | set(low_power_strs) | set(excess_rfi_strs) | set(low_corr_strs) |
set(all_zeros_strs) | set(high_power_strs) | set(fem_off_strs) | set(eo_zeros_strs))]
# find antennas with high redcal chi^2
chisq_strs = ap_strs[np.mean(np.vstack([t['Redcal chi^2 Class'] for t in tables]) == 'bad', axis=0) > chisq_thresh]
chisq_strs = [ap for ap in chisq_strs if ap not in (set(bad_bandpass_strs) | set(low_power_strs) | set(excess_rfi_strs) | set(low_corr_strs) |
set(all_zeros_strs) | set(high_power_strs) | set(fem_off_strs) | set(eo_zeros_strs) | set(xengine_diff_strs))]
if OC_SKIP_OUTRIGGERS:
chisq_strs = [ap for ap in chisq_strs if int(ap[:-1]) < 320]
# collect all results
to_print = [(all_zeros_strs, 'All-Zeros', 'These antennas have visibilities that are more than half zeros.'),
(eo_zeros_strs, 'Excess Zeros in Either Even or Odd Spectra',
'These antennas are showing evidence of packet loss or X-engine failure.', True),
(xengine_diff_strs, 'Excess Power in X-Engine Diffs',
'These antennas are showing evidence of mis-written packets in either the evens or the odds.', True),
(cross_pol_strs, 'Cross-Polarized', 'These antennas have their east and north cables swapped.'),
(fem_off_strs, 'Likely FEM Power Issue', 'These antennas have low power and anomolously high slopes.', True),
(high_power_strs, 'High Power', 'These antennas have high median power.', True),
(low_power_strs, 'Other Low Power Issues', 'These antennas have low power, but are not all-zeros and not FEM off.', True),
(low_corr_strs, 'Low Correlation, But Not Low Power', 'These antennas are low correlation, but their autocorrelation power levels look OK.'),
(bad_bandpass_strs, 'Bad Bandpass Shapes, But Not Bad Power',
'These antennas have unusual bandpass shapes, but are not all-zeros, high power, low power, or FEM off.', True),
(excess_rfi_strs, 'Excess RFI', 'These antennas have excess RMS after DPSS filtering (likely RFI), but not low or high power or a bad bandpass.', True),
(chisq_strs, 'Redcal chi^2', 'These antennas have been idenfied as not redundantly calibrating well, even after passing the above checks.')]
def print_high_level_summary():
for tp in sorted(to_print, key=lambda x: len(x[0]), reverse=True):
print(f'{len(tp[0])} antpols (on {len(set([ap[:-1] for ap in tp[0]]))} antennas) frequently flagged for {tp[1]}.')
def print_all_issue_summaries():
for tp in to_print:
print_issue_summary(*tp)
Summary of Per-Antenna Issues¶
print_high_level_summary()
158 antpols (on 135 antennas) frequently flagged for Excess Power in X-Engine Diffs. 125 antpols (on 98 antennas) frequently flagged for Redcal chi^2. 56 antpols (on 50 antennas) frequently flagged for Excess RFI. 34 antpols (on 17 antennas) frequently flagged for All-Zeros. 24 antpols (on 22 antennas) frequently flagged for Likely FEM Power Issue. 16 antpols (on 13 antennas) frequently flagged for Low Correlation, But Not Low Power. 11 antpols (on 11 antennas) frequently flagged for Bad Bandpass Shapes, But Not Bad Power. 10 antpols (on 8 antennas) frequently flagged for High Power. 10 antpols (on 8 antennas) frequently flagged for Other Low Power Issues. 4 antpols (on 2 antennas) frequently flagged for Cross-Polarized. 0 antpols (on 0 antennas) frequently flagged for Excess Zeros in Either Even or Odd Spectra.
print_all_issue_summaries()
All-Zeros: (34 antpols across 17 antennas)
These antennas have visibilities that are more than half zeros.
All Bad Antpols: 29e, 29n, 30e, 30n, 37e, 37n, 38e, 38n, 66e, 66n, 147e, 147n, 148e, 148n, 149e, 149n, 150e, 150n, 167e, 167n, 168e, 168n, 169e, 169n, 170e, 170n, 188e, 188n, 189e, 189n, 190e, 190n, 191e, 191n Node 1: Antpols (4 total): 29e, 29n, 30e, 30n Whole Ants (2 total): 29, 30 Single Pols (0 total): Node 3: Antpols (6 total): 37e, 37n, 38e, 38n, 66e, 66n Whole Ants (3 total): 66, 37, 38 Single Pols (0 total): Node 15: Antpols (24 total): 147e, 147n, 148e, 148n, 149e, 149n, 150e, 150n, 167e, 167n, 168e, 168n, 169e, 169n, 170e, 170n, 188e, 188n, 189e, 189n, 190e, 190n, 191e, 191n Whole Ants (12 total): 167, 168, 169, 170, 147, 148, 149, 150, 188, 189, 190, 191 Single Pols (0 total):
Excess Zeros in Either Even or Odd Spectra: (0 antpols across 0 antennas)
These antennas are showing evidence of packet loss or X-engine failure.
Excess Power in X-Engine Diffs: (158 antpols across 135 antennas)
These antennas are showing evidence of mis-written packets in either the evens or the odds.
All Bad Antpols: 3e, 5e, 7e, 9e, 15e, 16e, 17e, 19e, 20e, 28n, 31e, 32e, 41e, 41n, 43e, 43n, 50e, 53e, 53n, 54e, 56e, 56n, 58e, 58n, 59e, 60e, 60n, 64e, 67e, 68e, 69e, 70n, 71e, 72e, 73e, 75n, 81e, 82e, 83e, 83n, 86e, 88e, 89e, 91n, 92n, 93e, 94e, 95e, 96e, 96n, 97e, 98e, 98n, 99e, 100n, 101e, 103n, 108e, 108n, 109e, 111e, 112n, 113n, 114e, 116e, 118n, 119e, 119n, 122e, 123e, 124e, 126e, 127e, 127n, 128e, 128n, 129e, 130e, 131n, 133e, 134e, 135n, 136e, 137e, 137n, 138e, 140e, 141e, 144n, 145e, 146e, 152e, 153e, 153n, 156n, 157e, 158e, 159e, 160e, 161e, 162e, 163e, 165e, 166e, 171e, 173e, 174e, 175e, 175n, 177e, 178e, 178n, 179e, 180e, 181e, 181n, 182e, 183e, 183n, 186e, 186n, 194e, 197e, 197n, 198n, 201e, 205e, 206e, 207n, 208n, 209e, 210e, 211e, 214e, 216e, 221e, 222e, 223e, 223n, 227n, 229e, 235e, 237e, 240n, 244n, 251n, 252e, 253e, 256e, 261n, 267e, 295e, 295n, 323e, 327e, 333n, 336e, 340n Node 1: Antpols (6 total): 3e, 5e, 15e, 16e, 17e, 28n Whole Ants (0 total): Single Pols (6 total): 3e, 5e, 15e, 16e, 17e, 28n
Casting complex values to real discards the imaginary part Casting complex values to real discards the imaginary part
Node 2: Antpols (7 total): 7e, 9e, 19e, 20e, 31e, 32e, 323e Whole Ants (0 total): Single Pols (7 total): 7e, 9e, 19e, 20e, 31e, 32e, 323e
Node 3: Antpols (5 total): 50e, 53e, 53n, 67e, 68e Whole Ants (1 total): 53 Single Pols (3 total): 50e, 67e, 68e
Node 4: Antpols (9 total): 41e, 41n, 54e, 56e, 56n, 69e, 70n, 71e, 72e Whole Ants (2 total): 56, 41 Single Pols (5 total): 54e, 69e, 70n, 71e, 72e
Node 5: Antpols (9 total): 43e, 43n, 58e, 58n, 59e, 60e, 60n, 73e, 75n Whole Ants (3 total): 58, 43, 60 Single Pols (3 total): 59e, 73e, 75n
Node 6: Antpols (1 total): 64e Whole Ants (0 total): Single Pols (1 total): 64e
Node 7: Antpols (15 total): 81e, 82e, 83e, 83n, 98e, 98n, 99e, 100n, 116e, 118n, 119e, 119n, 137e, 137n, 138e Whole Ants (4 total): 137, 98, 83, 119 Single Pols (7 total): 81e, 82e, 99e, 100n, 116e, 118n, 138e
Node 8: Antpols (5 total): 86e, 101e, 103n, 122e, 123e Whole Ants (0 total): Single Pols (5 total): 86e, 101e, 103n, 122e, 123e
Node 9: Antpols (7 total): 88e, 89e, 91n, 108e, 108n, 124e, 126e Whole Ants (1 total): 108 Single Pols (5 total): 88e, 89e, 91n, 124e, 126e
Node 10: Antpols (12 total): 92n, 93e, 94e, 109e, 111e, 112n, 127e, 127n, 128e, 128n, 129e, 130e Whole Ants (2 total): 128, 127 Single Pols (8 total): 92n, 93e, 94e, 109e, 111e, 112n, 129e, 130e
Node 11: Antpols (9 total): 95e, 96e, 96n, 97e, 113n, 114e, 131n, 133e, 134e Whole Ants (1 total): 96 Single Pols (7 total): 95e, 97e, 113n, 114e, 131n, 133e, 134e
Node 12: Antpols (10 total): 135n, 136e, 156n, 157e, 158e, 177e, 178e, 178n, 179e, 333n Whole Ants (1 total): 178 Single Pols (8 total): 135n, 136e, 156n, 157e, 158e, 177e, 179e, 333n
Node 13: Antpols (12 total): 140e, 141e, 159e, 160e, 161e, 162e, 180e, 181e, 181n, 182e, 183e, 183n Whole Ants (2 total): 181, 183 Single Pols (8 total): 140e, 141e, 159e, 160e, 161e, 162e, 180e, 182e
Node 14: Antpols (8 total): 144n, 145e, 146e, 163e, 165e, 166e, 186e, 186n Whole Ants (1 total): 186 Single Pols (6 total): 144n, 145e, 146e, 163e, 165e, 166e
Node 16: Antpols (7 total): 152e, 153e, 153n, 171e, 173e, 174e, 194e Whole Ants (1 total): 153 Single Pols (5 total): 152e, 171e, 173e, 174e, 194e
Node 17: Antpols (5 total): 197e, 197n, 198n, 216e, 235e Whole Ants (1 total): 197 Single Pols (3 total): 198n, 216e, 235e
Node 18: Antpols (4 total): 201e, 221e, 222e, 237e Whole Ants (0 total): Single Pols (4 total): 201e, 221e, 222e, 237e
Node 19: Antpols (6 total): 205e, 206e, 207n, 223e, 223n, 240n Whole Ants (1 total): 223 Single Pols (4 total): 205e, 206e, 207n, 240n
Node 20: Antpols (8 total): 208n, 209e, 210e, 211e, 227n, 229e, 244n, 261n Whole Ants (0 total): Single Pols (8 total): 208n, 209e, 210e, 211e, 227n, 229e, 244n, 261n
Node 21: Antpols (6 total): 175e, 175n, 214e, 327e, 336e, 340n Whole Ants (1 total): 175 Single Pols (4 total): 214e, 327e, 336e, 340n
Node 22: Antpols (6 total): 251n, 252e, 253e, 267e, 295e, 295n Whole Ants (1 total): 295 Single Pols (4 total): 251n, 252e, 253e, 267e
Node 23: Antpols (1 total): 256e Whole Ants (0 total): Single Pols (1 total): 256e
Cross-Polarized: (4 antpols across 2 antennas)
These antennas have their east and north cables swapped.
All Bad Antpols: 75e, 75n, 196e, 196n Node 5: Antpols (2 total): 75e, 75n Whole Ants (1 total): 75 Single Pols (0 total): Node 17: Antpols (2 total): 196e, 196n Whole Ants (1 total): 196 Single Pols (0 total):
Likely FEM Power Issue: (24 antpols across 22 antennas)
These antennas have low power and anomolously high slopes.
All Bad Antpols: 4e, 10n, 34e, 44e, 70e, 104n, 109n, 112e, 115e, 121e, 135e, 143n, 200e, 206n, 216n, 227e, 238n, 239e, 255e, 268e, 268n, 329n, 332e, 332n Node 1: Antpols (1 total): 4e Whole Ants (0 total): Single Pols (1 total): 4e
Node 2: Antpols (1 total): 10n Whole Ants (0 total): Single Pols (1 total): 10n
Data has no positive values, and therefore cannot be log-scaled.
Node 4: Antpols (1 total): 70e Whole Ants (0 total): Single Pols (1 total): 70e
Node 5: Antpols (1 total): 44e Whole Ants (0 total): Single Pols (1 total): 44e
Node 6: Antpols (1 total): 34e Whole Ants (0 total): Single Pols (1 total): 34e
Node 8: Antpols (2 total): 104n, 121e Whole Ants (0 total): Single Pols (2 total): 104n, 121e
Node 10: Antpols (2 total): 109n, 112e Whole Ants (0 total): Single Pols (2 total): 109n, 112e
Node 11: Antpols (1 total): 115e Whole Ants (0 total): Single Pols (1 total): 115e
Node 12: Antpols (2 total): 135e, 329n Whole Ants (0 total): Single Pols (2 total): 135e, 329n
Node 14: Antpols (1 total): 143n Whole Ants (0 total): Single Pols (1 total): 143n
Node 17: Antpols (1 total): 216n Whole Ants (0 total): Single Pols (1 total): 216n
Node 18: Antpols (3 total): 200e, 238n, 239e Whole Ants (0 total): Single Pols (3 total): 200e, 238n, 239e
Node 19: Antpols (1 total): 206n Whole Ants (0 total): Single Pols (1 total): 206n
Node 20: Antpols (1 total): 227e Whole Ants (0 total): Single Pols (1 total): 227e
Node 21: Antpols (2 total): 332e, 332n Whole Ants (1 total): 332 Single Pols (0 total):
Node 22: Antpols (2 total): 268e, 268n Whole Ants (1 total): 268 Single Pols (0 total):
Node 23: Antpols (1 total): 255e Whole Ants (0 total): Single Pols (1 total): 255e
High Power: (10 antpols across 8 antennas)
These antennas have high median power.
All Bad Antpols: 8e, 8n, 17n, 31n, 75e, 125n, 199e, 199n, 232e, 272e Node 1: Antpols (1 total): 17n Whole Ants (0 total): Single Pols (1 total): 17n
Node 2: Antpols (3 total): 8e, 8n, 31n Whole Ants (1 total): 8 Single Pols (1 total): 31n
Node 5: Antpols (1 total): 75e Whole Ants (0 total): Single Pols (1 total): 75e
Node 9: Antpols (1 total): 125n Whole Ants (0 total): Single Pols (1 total): 125n
Node 17: Antpols (2 total): 199e, 199n Whole Ants (1 total): 199 Single Pols (0 total):
Node 21: Antpols (1 total): 232e Whole Ants (0 total): Single Pols (1 total): 232e
Node 23: Antpols (1 total): 272e Whole Ants (0 total): Single Pols (1 total): 272e
Other Low Power Issues: (10 antpols across 8 antennas)
These antennas have low power, but are not all-zeros and not FEM off.
All Bad Antpols: 81n, 82n, 99n, 176n, 218n, 251e, 262e, 262n, 266e, 266n Node 7: Antpols (3 total): 81n, 82n, 99n Whole Ants (0 total): Single Pols (3 total): 81n, 82n, 99n
Node 12: Antpols (1 total): 176n Whole Ants (0 total): Single Pols (1 total): 176n
Node 17: Antpols (1 total): 218n Whole Ants (0 total): Single Pols (1 total): 218n
Node 20: Antpols (2 total): 262e, 262n Whole Ants (1 total): 262 Single Pols (0 total):
Node 22: Antpols (3 total): 251e, 266e, 266n Whole Ants (1 total): 266 Single Pols (1 total): 251e
Low Correlation, But Not Low Power: (16 antpols across 13 antennas)
These antennas are low correlation, but their autocorrelation power levels look OK.
All Bad Antpols: 10e, 27e, 28e, 171n, 196e, 196n, 200n, 228e, 228n, 255n, 321e, 326e, 326n, 328e, 329e, 331e Node 1: Antpols (2 total): 27e, 28e Whole Ants (0 total): Single Pols (2 total): 27e, 28e Node 2: Antpols (2 total): 10e, 321e Whole Ants (0 total): Single Pols (2 total): 10e, 321e Node 10: Antpols (1 total): 328e Whole Ants (0 total): Single Pols (1 total): 328e Node 12: Antpols (1 total): 329e Whole Ants (0 total): Single Pols (1 total): 329e Node 16: Antpols (1 total): 171n Whole Ants (0 total): Single Pols (1 total): 171n Node 17: Antpols (2 total): 196e, 196n Whole Ants (1 total): 196 Single Pols (0 total): Node 18: Antpols (1 total): 200n Whole Ants (0 total): Single Pols (1 total): 200n Node 20: Antpols (2 total): 228e, 228n Whole Ants (1 total): 228 Single Pols (0 total): Node 21: Antpols (3 total): 326e, 326n, 331e Whole Ants (1 total): 326 Single Pols (1 total): 331e Node 23: Antpols (1 total): 255n Whole Ants (0 total): Single Pols (1 total): 255n
Bad Bandpass Shapes, But Not Bad Power: (11 antpols across 11 antennas)
These antennas have unusual bandpass shapes, but are not all-zeros, high power, low power, or FEM off.
All Bad Antpols: 15n, 27e, 28e, 32n, 33n, 46e, 78e, 120e, 161n, 180n, 209n Node 1: Antpols (3 total): 15n, 27e, 28e Whole Ants (0 total): Single Pols (3 total): 15n, 27e, 28e
Node 2: Antpols (2 total): 32n, 33n Whole Ants (0 total): Single Pols (2 total): 32n, 33n
Node 5: Antpols (1 total): 46e Whole Ants (0 total): Single Pols (1 total): 46e
Node 6: Antpols (1 total): 78e Whole Ants (0 total): Single Pols (1 total): 78e
Node 8: Antpols (1 total): 120e Whole Ants (0 total): Single Pols (1 total): 120e
Node 13: Antpols (2 total): 161n, 180n Whole Ants (0 total): Single Pols (2 total): 161n, 180n
Node 20: Antpols (1 total): 209n Whole Ants (0 total): Single Pols (1 total): 209n
Excess RFI: (56 antpols across 50 antennas)
These antennas have excess RMS after DPSS filtering (likely RFI), but not low or high power or a bad bandpass.
All Bad Antpols: 18e, 18n, 20n, 21e, 22e, 22n, 27n, 33e, 34n, 40n, 42e, 42n, 45e, 45n, 51e, 51n, 55e, 59n, 65e, 67n, 71n, 72n, 77n, 86n, 87e, 90e, 92e, 100e, 102n, 103e, 104e, 105e, 106e, 107e, 116n, 117e, 121n, 124n, 125e, 136n, 155e, 155n, 160n, 164e, 187n, 202n, 208e, 212n, 213e, 214n, 244e, 250e, 253n, 320e, 321n, 333e Node 1: Antpols (3 total): 18e, 18n, 27n Whole Ants (1 total): 18 Single Pols (1 total): 27n
Node 2: Antpols (4 total): 20n, 21e, 33e, 321n Whole Ants (0 total): Single Pols (4 total): 20n, 21e, 33e, 321n
Node 3: Antpols (5 total): 51e, 51n, 65e, 67n, 320e Whole Ants (1 total): 51 Single Pols (3 total): 65e, 67n, 320e
Node 4: Antpols (6 total): 40n, 42e, 42n, 55e, 71n, 72n Whole Ants (1 total): 42 Single Pols (4 total): 40n, 55e, 71n, 72n
Node 5: Antpols (3 total): 45e, 45n, 59n Whole Ants (1 total): 45 Single Pols (1 total): 59n
Node 6: Antpols (4 total): 22e, 22n, 34n, 77n Whole Ants (1 total): 22 Single Pols (2 total): 34n, 77n
Node 7: Antpols (3 total): 100e, 116n, 117e Whole Ants (0 total): Single Pols (3 total): 100e, 116n, 117e
Node 8: Antpols (6 total): 86n, 87e, 102n, 103e, 104e, 121n Whole Ants (0 total): Single Pols (6 total): 86n, 87e, 102n, 103e, 104e, 121n
Node 9: Antpols (6 total): 90e, 105e, 106e, 107e, 124n, 125e Whole Ants (0 total): Single Pols (6 total): 90e, 105e, 106e, 107e, 124n, 125e
Node 10: Antpols (1 total): 92e Whole Ants (0 total): Single Pols (1 total): 92e
Node 12: Antpols (4 total): 136n, 155e, 155n, 333e Whole Ants (1 total): 155 Single Pols (2 total): 136n, 333e
Node 13: Antpols (1 total): 160n Whole Ants (0 total): Single Pols (1 total): 160n
Node 14: Antpols (2 total): 164e, 187n Whole Ants (0 total): Single Pols (2 total): 164e, 187n
Node 16: Antpols (1 total): 213e Whole Ants (0 total): Single Pols (1 total): 213e
Node 18: Antpols (1 total): 202n Whole Ants (0 total): Single Pols (1 total): 202n
Node 20: Antpols (2 total): 208e, 244e Whole Ants (0 total): Single Pols (2 total): 208e, 244e
Node 21: Antpols (2 total): 212n, 214n Whole Ants (0 total): Single Pols (2 total): 212n, 214n
Node 22: Antpols (2 total): 250e, 253n Whole Ants (0 total): Single Pols (2 total): 250e, 253n
Redcal chi^2: (125 antpols across 98 antennas)
These antennas have been idenfied as not redundantly calibrating well, even after passing the above checks.
All Bad Antpols: 3n, 4n, 5n, 7n, 9n, 21n, 35e, 35n, 46n, 47e, 47n, 48e, 48n, 49e, 49n, 62n, 63e, 63n, 64n, 68n, 73n, 77e, 78n, 79n, 80e, 80n, 84e, 84n, 87n, 88n, 89n, 90n, 91e, 97n, 107n, 114n, 115n, 120n, 126n, 129n, 130n, 131e, 132e, 132n, 133n, 134n, 139e, 139n, 140n, 141n, 142e, 142n, 143e, 144e, 145n, 146n, 151e, 152n, 154e, 154n, 156e, 157n, 158n, 159n, 162n, 164n, 165n, 166n, 172e, 172n, 173n, 174n, 176e, 179n, 182n, 187e, 192e, 193e, 193n, 194n, 195e, 195n, 198e, 202e, 203e, 204e, 204n, 207e, 211n, 212e, 213n, 215e, 215n, 217e, 220n, 224e, 225e, 225n, 226e, 226n, 229n, 231e, 231n, 232n, 233n, 234e, 234n, 243e, 243n, 245e, 245n, 246e, 252n, 261e, 267n, 269e, 269n, 281e, 281n, 282e, 282n, 283e, 283n, 285e, 285n Node 1: Antpols (3 total): 3n, 4n, 5n Whole Ants (0 total): Single Pols (3 total): 3n, 4n, 5n Node 2: Antpols (3 total): 7n, 9n, 21n Whole Ants (0 total): Single Pols (3 total): 7n, 9n, 21n Node 3: Antpols (1 total): 68n Whole Ants (0 total): Single Pols (1 total): 68n Node 5: Antpols (2 total): 46n, 73n Whole Ants (0 total): Single Pols (2 total): 46n, 73n Node 6: Antpols (14 total): 35e, 35n, 47e, 47n, 48e, 48n, 49e, 49n, 62n, 63e, 63n, 64n, 77e, 78n Whole Ants (5 total): 35, 47, 48, 49, 63 Single Pols (4 total): 62n, 64n, 77e, 78n Node 8: Antpols (4 total): 84e, 84n, 87n, 120n Whole Ants (1 total): 84 Single Pols (2 total): 87n, 120n Node 9: Antpols (6 total): 88n, 89n, 90n, 91e, 107n, 126n Whole Ants (0 total): Single Pols (6 total): 88n, 89n, 90n, 91e, 107n, 126n Node 10: Antpols (2 total): 129n, 130n Whole Ants (0 total): Single Pols (2 total): 129n, 130n Node 11: Antpols (11 total): 79n, 80e, 80n, 97n, 114n, 115n, 131e, 132e, 132n, 133n, 134n Whole Ants (2 total): 80, 132 Single Pols (7 total): 79n, 97n, 114n, 115n, 131e, 133n, 134n Node 12: Antpols (5 total): 156e, 157n, 158n, 176e, 179n Whole Ants (0 total): Single Pols (5 total): 156e, 157n, 158n, 176e, 179n Node 13: Antpols (9 total): 139e, 139n, 140n, 141n, 142e, 142n, 159n, 162n, 182n Whole Ants (2 total): 139, 142 Single Pols (5 total): 140n, 141n, 159n, 162n, 182n Node 14: Antpols (8 total): 143e, 144e, 145n, 146n, 164n, 165n, 166n, 187e Whole Ants (0 total): Single Pols (8 total): 143e, 144e, 145n, 146n, 164n, 165n, 166n, 187e Node 16: Antpols (13 total): 151e, 152n, 154e, 154n, 172e, 172n, 173n, 174n, 192e, 193e, 193n, 194n, 213n Whole Ants (3 total): 193, 154, 172 Single Pols (7 total): 151e, 152n, 173n, 174n, 192e, 194n, 213n Node 17: Antpols (7 total): 198e, 215e, 215n, 217e, 233n, 234e, 234n Whole Ants (2 total): 234, 215 Single Pols (3 total): 198e, 217e, 233n Node 18: Antpols (3 total): 202e, 203e, 220n Whole Ants (0 total): Single Pols (3 total): 202e, 203e, 220n Node 19: Antpols (10 total): 204e, 204n, 207e, 224e, 225e, 225n, 226e, 226n, 243e, 243n Whole Ants (4 total): 225, 226, 243, 204 Single Pols (2 total): 207e, 224e Node 20: Antpols (6 total): 211n, 229n, 245e, 245n, 246e, 261e Whole Ants (1 total): 245 Single Pols (4 total): 211n, 229n, 246e, 261e Node 21: Antpols (6 total): 195e, 195n, 212e, 231e, 231n, 232n Whole Ants (2 total): 195, 231 Single Pols (2 total): 212e, 232n Node 22: Antpols (10 total): 252n, 267n, 269e, 269n, 281e, 281n, 282e, 282n, 283e, 283n Whole Ants (4 total): 281, 282, 283, 269 Single Pols (2 total): 252n, 267n Node 23: Antpols (2 total): 285e, 285n Whole Ants (1 total): 285 Single Pols (0 total):
Full-Day Visualizations¶
def classification_plot(col):
class_array = classification_array(col)
plt.figure(figsize=(12, len(ants) / 10), dpi=100)
plt.imshow(class_array.T, aspect='auto', interpolation='none', cmap='RdYlGn', vmin=0, vmax=2,
extent=[jds[0] - np.floor(jds[0]), jds[-1] - np.floor(jds[0]), len(ants), 0])
plt.xlabel(f'JD - {int(jds[0])}')
plt.yticks(ticks=np.arange(.5, len(ants)+.5), labels=[ant for ant in ants], fontsize=6)
plt.ylabel('Antenna Number (East First, Then North)')
plt.gca().tick_params(right=True, top=True, labelright=True, labeltop=True)
plt.tight_layout()
plt.title(f'{col}: Green is "good", Yellow is "suspect", Red is "bad"')
Figure 1: Per-File Overall Antenna Classification Summary¶
This "big green board" shows the overall (i.e. after redundant calibration) classification of antennas on a per-file basis. This is useful for looking at time-dependent effects across the array. While only antenna numbers are labeled, both polarizations are shown, first East then North going down, above and below the antenna's tick mark.
classification_plot('Antenna Class')
# compute flag fractions for all classifiers and antennas
frac_flagged = []
for col in class_cols[1:]:
class_array = np.vstack([t[col] for t in tables])
class_array[class_array == 'good'] = False
class_array[class_array == 'suspect'] = False
class_array[class_array == 'bad'] = True
frac_flagged.append(np.sum(class_array, axis=0))
def plot_flag_frac_all_classifiers():
ticks = []
for i, col in enumerate(list(class_cols[1:])):
ticks.append(f'{col} ({np.nanmean(np.array(frac_flagged).astype(float)[i]) / len(csv_files):.2%})')
plt.figure(figsize=(8, len(ants) / 10), dpi=100)
plt.imshow(np.array(frac_flagged).astype(float).T, aspect='auto', interpolation='none', cmap='viridis')
plt.xticks(ticks=np.arange(len(list(class_cols[1:]))), labels=ticks, rotation=-45, ha='left')
plt.yticks(ticks=np.arange(.5, len(ap_strs)+.5, 2), labels=[ant for ant in ants], fontsize=6)
plt.ylabel('Antenna Number (East First, Then North)')
plt.gca().tick_params(right=True, labelright=True,)
ax2 = plt.gca().twiny()
ax2.set_xticks(ticks=np.arange(len(list(class_cols[1:]))), labels=ticks, rotation=45, ha='left')
plt.colorbar(ax=plt.gca(), label=f'Number of Files Flagged Out of {len(csv_files)}', aspect=50)
plt.tight_layout()
Figure 2: Per-Classifier Antenna Flagging Summary¶
This plot shows the fraction of files flagged for each reason for each antenna. It's useful for seeing which problems are transitory and which ones are more common. Note that not all flags are independent and in particular redcal chi^2 takes an OR of other classifications as an input. Also note that only antenna numbers are labeled, both polarizations are shown, first East then North going down, above and below the antenna's tick mark.
plot_flag_frac_all_classifiers()
def array_class_plot():
fig, axes = plt.subplots(1, 2, figsize=(14, 6), dpi=100, gridspec_kw={'width_ratios': [2, 1]})
if len([ant for ant in hd.data_ants if ant < 320]) > 0:
plot_antclass(hd.antpos, overall_class, ax=axes[0], ants=[ant for ant in hd.data_ants if ant < 320], legend=False,
title=f'HERA Core: Overall Flagging Based on {overall_thresh:.1%} Daily Threshold')
if len([ant for ant in hd.data_ants if ant >= 320]) > 0:
plot_antclass(hd.antpos, overall_class, ax=axes[1], ants=[ant for ant in hd.data_ants if ant >= 320], radius=50, title='Outriggers')
Figure 3: Array Visualization of Overall Daily Classification¶
Overall classification of antenna-polarizations shown on the array layout. If any antenna is marked bad for any reason more than the threshold (default 10%), it is marked bad here. Likewise, if any antenna is marked suspect for more than 10% of the night (but not bad), it's suspect here.
if SUM_FILE is not None: array_class_plot()
WARNING:matplotlib.axes._base:Ignoring fixed x limits to fulfill fixed data aspect with adjustable data limits.
WARNING:matplotlib.axes._base:Ignoring fixed x limits to fulfill fixed data aspect with adjustable data limits.
WARNING:matplotlib.axes._base:Ignoring fixed y limits to fulfill fixed data aspect with adjustable data limits.
WARNING:matplotlib.axes._base:Ignoring fixed x limits to fulfill fixed data aspect with adjustable data limits.
WARNING:matplotlib.axes._base:Ignoring fixed x limits to fulfill fixed data aspect with adjustable data limits.
for repo in ['pyuvdata', 'hera_cal', 'hera_qm', 'hera_notebook_templates']:
exec(f'from {repo} import __version__')
print(f'{repo}: {__version__}')
pyuvdata: 3.1.3 hera_cal: 3.7.1.dev18+g10e9584 hera_qm: 2.2.1.dev2+ga535e9e
hera_notebook_templates: 0.1.dev989+gee0995d