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171 lines
6.4 KiB
171 lines
6.4 KiB
#! /usr/bin/python3 |
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""" |
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Invert the subband for specified antennas. |
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Usage: test_invert_subband.py msdata antennas [-sb SUBBANDS] |
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Options: |
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msdata : str MS data set containing the data to be swapged. |
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antennas : str Antenna or list of antennas that require to be |
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swapped. Use the two-letter name (e.g. Ef, Mc, |
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or Jb2). In case of more than one station, please |
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use either string 'Ef, Mc' or a non-spaced str: |
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Ef,Mc,Ys. |
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Version: 1.0 |
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Date: Nov 2018 |
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Written by Benito Marcote (marcote@jive.eu) |
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""" |
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import sys |
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import copy |
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import time |
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import argparse |
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from enum import IntEnum |
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import datetime as dt |
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import numpy as np |
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from pyrap import tables as pt |
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usage = "%(prog)s [-h] [-v] [-t1 STARTTIME] [-t2 ENDTIME] <measurement set> <antenna>" |
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description="""Invert the subband for specified antennas. |
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Fixes the problem when a subband is flipped (increasing frequency instead of decreasing along the |
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different channels. Observed it in Jb2 during 2018 Session 1 in spectral line observations. |
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""" |
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help_msdata = 'Measurement Set containing the data to be corrected.' |
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help_antenna = 'Name of the antenna to be corrected as it appears in the MS (case insensitive).' |
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help_t1 = 'Start time of the data that need to be corrected. By default the beginning of the observation.'\ |
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+'In Aips format: YYYY/MM/DD/hh:mm:ss or YYYY/DOY/hh:mm:ss' |
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help_t2 = 'Ending time of the data that need to be corrected. By default the ending of the observation.'\ |
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+'In Aips format: YYYY/MM/DD/hh:mm:ss or YYYY/DOY/hh:mm:ss' |
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parser = argparse.ArgumentParser(description=description, prog='polswap.py', usage=usage) |
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parser.add_argument('msdata', type=str, help=help_msdata) |
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parser.add_argument('antenna', type=str, help=help_antenna) |
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parser.add_argument('-t1', '--starttime', default=None, type=str, help=help_t1) |
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parser.add_argument('-t2', '--endtime', default=None, type=str, help=help_t2) |
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parser.add_argument('-v', '--version', action='version', version='%(prog)s 1.0') |
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arguments = parser.parse_args() |
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msdata = arguments.msdata[:-1] if arguments.msdata[-1]=='/' else arguments.msdata |
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def cli_progress_bar(current_val, end_val, bar_length=40): |
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percent = current_val/end_val |
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hashes = '#'*int(round(percent*bar_length)) |
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spaces = ' '*(bar_length-len(hashes)) |
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sys.stdout.write("\rProgress: [{0}] {1}%".format(hashes+spaces, int(round(percent*100)))) |
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sys.stdout.flush() |
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def chunkert(f, l, cs, verbose=True): |
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while f<l: |
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n = min(cs, l-f) |
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yield (f, n) |
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f = f + n |
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class Stokes(IntEnum): |
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"""The Stokes types defined as in the enum class from casacore code. |
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""" |
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Undefined = 0 # Undefined value |
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I = 1 # standard stokes parameters |
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Q = 2 |
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U = 3 |
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V = 4 |
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RR = 5 # circular correlation products |
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RL = 6 |
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LR = 7 |
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LL = 8 |
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XX = 9 # linear correlation products |
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XY = 10 |
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YX = 11 |
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YY = 12 |
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RX = 13 # mixed correlation products |
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RY = 14 |
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LX = 15 |
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LY = 16 |
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XR = 17 |
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XL = 18 |
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YR = 19 |
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YL = 20 |
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PP = 21 # general quasi-orthogonal correlation products |
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PQ = 22 |
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QP = 23 |
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QQ = 24 |
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RCircular = 25 # single dish polarization types |
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LCircular = 26 |
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Linear = 27 |
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Ptotal = 28 # Polarized intensity ((Q^2+U^2+V^2)^(1/2)) |
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Plinear = 29 # Linearly Polarized intensity ((Q^2+U^2)^(1/2)) |
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PFtotal = 30 # Polarization Fraction (Ptotal/I) |
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PFlinear = 31 # linear Polarization Fraction (Plinear/I) |
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Pangle = 32 # linear polarization angle (0.5 arctan(U/Q)) (in radians) |
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def atime2datetime(atime): |
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"""Converts a string with the form YYYY/MM/DD/hh:mm:ss or YYYY/DOY/hh:mm:ss to MJD""" |
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if atime.count('/') == 3: |
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# Format: YYYY/MM/DD/hh:mm:ss |
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return dt.datetime.strptime(atime, '%Y/%m/%d/%H:%M:%S') |
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if atime.count('/') == 2: |
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# Format: YYYY/DOY/hh:mm:ss |
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return dt.datetime.strptime(atime, '%Y/%j/%H:%M:%S') |
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else: |
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raise ValueError('Date format must be YYYY/MM/DD/hh:mm:ss or YYYY/DOY/hh:mm:ss') |
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with pt.table(msdata, readonly=False, ack=False) as ms: |
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# Get CORR_TYPE, the polarization entries in the data |
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changes = None |
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with pt.table(ms.getkeyword('ANTENNA'), readonly=True, ack=False) as ms_ant: |
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antenna_number = [i.upper() for i in ms_ant.getcol('NAME')].index(arguments.antenna.upper()) |
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with pt.table(ms.getkeyword('OBSERVATION'), readonly=True, ack=False) as ms_obs: |
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time_range = (dt.datetime(1858, 11, 17, 0, 0, 2) + \ |
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ms_obs.getcol('TIME_RANGE')*dt.timedelta(seconds=1))[0] |
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# Get the timerange to apply to polswap |
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if arguments.starttime is not None: |
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datetimes_start = atime2datetime(arguments.starttime) |
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else: |
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datetimes_start = time_range[0] - dt.timedelta(seconds=1) |
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if arguments.endtime is not None: |
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datetimes_end = atime2datetime(arguments.endtime) |
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else: |
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datetimes_end = time_range[1] + dt.timedelta(seconds=1) |
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columns = ('DATA', 'FLOAT_DATA', 'FLAG', 'SIGMA_SPECTRUM', 'WEIGHT_SPECTRUM', |
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'WEIGHT', 'SIGMA') |
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# shapes of DATA, FLOAT_DATA, FLAG, SIGMA_SPECTRUM, WEIGHT_SPECTRUM: (nrow, npol, nfreq) |
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# shapes of WEIGHT, SIGMA: (nrow, npol) |
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columns = [a_col for a_col in columns if a_col in ms.colnames()] |
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print('\nThe following columns will be modified: {}.\n'.format(', '.join(columns))) |
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for (start, nrow) in chunkert(0, len(ms), 5000): |
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cli_progress_bar(start, len(ms), bar_length=40) |
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for changei, antpos in zip(changes, ('ANTENNA1','ANTENNA2')): |
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ants = ms.getcol(antpos, startrow=start, nrow=nrow) |
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datetimes = dt.datetime(1858, 11, 17, 0, 0, 2) + \ |
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ms.getcol('TIME', startrow=start, nrow=nrow)*dt.timedelta(seconds=1) |
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cond = np.where((ants == antenna_number) & (datetimes > datetimes_start) & (datetimes < datetimes_end)) |
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if len(cond[0]) > 0: |
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for a_col in columns: |
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ms_col = ms.getcol(a_col, startrow=start, nrow=nrow) |
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if len(ms_col.shape) == 3: |
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ms_col[cond,] = ms_col[cond,][:,::-1,:] |
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elif len(ms_col.shape) == 2: |
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ms_col[cond,] = ms_col[cond,][:,::-1] |
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else: |
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raise ValueError('Unexpected dimensions for {} column.'.format(a_col)) |
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ms.putcol(a_col, ms_col, startrow=start, nrow=nrow) |
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print('\n{} modified correctly.'.format(msdata)) |
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