| [1918] | 1 | from asap.scantable import scantable
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| [1827] | 2 | from asap.parameters import rcParams
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| [1862] | 3 | from asap.logging import asaplog, asaplog_post_dec
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| [1826] | 4 | from asap.selector import selector
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| [2150] | 5 | from asap.asapplotter import new_asaplot
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| [2538] | 6 | from matplotlib import rc as rcp
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| [101] | 7 |
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| [1862] | 8 | @asaplog_post_dec
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| [143] | 9 | def average_time(*args, **kwargs):
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| [101] | 10 | """
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| [113] | 11 | Return the (time) average of a scan or list of scans. [in channels only]
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| [305] | 12 | The cursor of the output scan is set to 0
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| [113] | 13 | Parameters:
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| [1361] | 14 | one scan or comma separated scans or a list of scans
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| [143] | 15 | mask: an optional mask (only used for 'var' and 'tsys' weighting)
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| [558] | 16 | scanav: True averages each scan separately.
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| 17 | False (default) averages all scans together,
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| [1232] | 18 | weight: Weighting scheme.
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| 19 | 'none' (mean no weight)
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| 20 | 'var' (1/var(spec) weighted)
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| 21 | 'tsys' (1/Tsys**2 weighted)
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| 22 | 'tint' (integration time weighted)
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| 23 | 'tintsys' (Tint/Tsys**2)
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| 24 | 'median' ( median averaging)
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| [930] | 25 | align: align the spectra in velocity before averaging. It takes
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| 26 | the time of the first spectrum in the first scantable
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| 27 | as reference time.
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| [2472] | 28 | compel: True forces to average overwrapped IFs.
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| [113] | 29 | Example:
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| 30 | # return a time averaged scan from scana and scanb
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| 31 | # without using a mask
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| [129] | 32 | scanav = average_time(scana,scanb)
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| [1589] | 33 | # or equivalent
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| 34 | # scanav = average_time([scana, scanb])
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| [113] | 35 | # return the (time) averaged scan, i.e. the average of
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| 36 | # all correlator cycles
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| [558] | 37 | scanav = average_time(scan, scanav=True)
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| [101] | 38 | """
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| [930] | 39 | scanav = False
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| [143] | 40 | if kwargs.has_key('scanav'):
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| [930] | 41 | scanav = kwargs.get('scanav')
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| [524] | 42 | weight = 'tint'
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| [143] | 43 | if kwargs.has_key('weight'):
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| 44 | weight = kwargs.get('weight')
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| 45 | mask = ()
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| 46 | if kwargs.has_key('mask'):
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| 47 | mask = kwargs.get('mask')
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| [930] | 48 | align = False
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| 49 | if kwargs.has_key('align'):
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| 50 | align = kwargs.get('align')
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| [1819] | 51 | compel = False
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| 52 | if kwargs.has_key('compel'):
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| 53 | compel = kwargs.get('compel')
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| [489] | 54 | varlist = vars()
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| [665] | 55 | if isinstance(args[0],list):
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| [981] | 56 | lst = args[0]
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| [665] | 57 | elif isinstance(args[0],tuple):
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| [981] | 58 | lst = list(args[0])
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| [665] | 59 | else:
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| [981] | 60 | lst = list(args)
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| [720] | 61 |
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| [489] | 62 | del varlist["kwargs"]
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| 63 | varlist["args"] = "%d scantables" % len(lst)
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| [981] | 64 | # need special formatting here for history...
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| [720] | 65 |
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| [876] | 66 | from asap._asap import stmath
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| 67 | stm = stmath()
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| [113] | 68 | for s in lst:
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| [101] | 69 | if not isinstance(s,scantable):
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| [720] | 70 | msg = "Please give a list of scantables"
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| [1859] | 71 | raise TypeError(msg)
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| [945] | 72 | if scanav: scanav = "SCAN"
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| 73 | else: scanav = "NONE"
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| [981] | 74 | alignedlst = []
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| 75 | if align:
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| 76 | refepoch = lst[0].get_time(0)
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| 77 | for scan in lst:
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| 78 | alignedlst.append(scan.freq_align(refepoch,insitu=False))
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| 79 | else:
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| [1059] | 80 | alignedlst = lst
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| [1232] | 81 | if weight.upper() == 'MEDIAN':
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| 82 | # median doesn't support list of scantables - merge first
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| 83 | merged = None
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| 84 | if len(alignedlst) > 1:
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| 85 | merged = merge(alignedlst)
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| 86 | else:
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| 87 | merged = alignedlst[0]
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| 88 | s = scantable(stm._averagechannel(merged, 'MEDIAN', scanav))
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| 89 | del merged
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| 90 | else:
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| [1819] | 91 | #s = scantable(stm._average(alignedlst, mask, weight.upper(), scanav))
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| 92 | s = scantable(stm._new_average(alignedlst, compel, mask, weight.upper(), scanav))
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| [489] | 93 | s._add_history("average_time",varlist)
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| [1859] | 94 |
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| [489] | 95 | return s
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| [101] | 96 |
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| [1862] | 97 | @asaplog_post_dec
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| [1074] | 98 | def quotient(source, reference, preserve=True):
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| 99 | """
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| 100 | Return the quotient of a 'source' (signal) scan and a 'reference' scan.
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| 101 | The reference can have just one scan, even if the signal has many. Otherwise
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| 102 | they must have the same number of scans.
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| 103 | The cursor of the output scan is set to 0
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| 104 | Parameters:
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| 105 | source: the 'on' scan
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| 106 | reference: the 'off' scan
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| 107 | preserve: you can preserve (default) the continuum or
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| 108 | remove it. The equations used are
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| 109 | preserve: Output = Toff * (on/off) - Toff
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| 110 | remove: Output = Toff * (on/off) - Ton
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| 111 | """
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| 112 | varlist = vars()
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| 113 | from asap._asap import stmath
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| 114 | stm = stmath()
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| 115 | stm._setinsitu(False)
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| 116 | s = scantable(stm._quotient(source, reference, preserve))
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| 117 | s._add_history("quotient",varlist)
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| 118 | return s
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| [101] | 119 |
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| [1862] | 120 | @asaplog_post_dec
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| [1391] | 121 | def dototalpower(calon, caloff, tcalval=0.0):
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| 122 | """
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| 123 | Do calibration for CAL on,off signals.
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| 124 | Adopted from GBTIDL dototalpower
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| 125 | Parameters:
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| 126 | calon: the 'cal on' subintegration
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| 127 | caloff: the 'cal off' subintegration
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| 128 | tcalval: user supplied Tcal value
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| 129 | """
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| 130 | varlist = vars()
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| 131 | from asap._asap import stmath
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| 132 | stm = stmath()
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| 133 | stm._setinsitu(False)
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| 134 | s = scantable(stm._dototalpower(calon, caloff, tcalval))
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| 135 | s._add_history("dototalpower",varlist)
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| 136 | return s
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| 137 |
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| [1862] | 138 | @asaplog_post_dec
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| [1391] | 139 | def dosigref(sig, ref, smooth, tsysval=0.0, tauval=0.0):
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| 140 | """
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| 141 | Calculate a quotient (sig-ref/ref * Tsys)
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| 142 | Adopted from GBTIDL dosigref
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| 143 | Parameters:
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| 144 | sig: on source data
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| 145 | ref: reference data
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| 146 | smooth: width of box car smoothing for reference
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| 147 | tsysval: user specified Tsys (scalar only)
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| 148 | tauval: user specified Tau (required if tsysval is set)
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| 149 | """
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| 150 | varlist = vars()
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| 151 | from asap._asap import stmath
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| 152 | stm = stmath()
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| 153 | stm._setinsitu(False)
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| 154 | s = scantable(stm._dosigref(sig, ref, smooth, tsysval, tauval))
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| 155 | s._add_history("dosigref",varlist)
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| 156 | return s
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| 157 |
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| [1862] | 158 | @asaplog_post_dec
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| [1819] | 159 | def calps(scantab, scannos, smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
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| [1391] | 160 | """
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| 161 | Calibrate GBT position switched data
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| 162 | Adopted from GBTIDL getps
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| [1920] | 163 | Currently calps identify the scans as position switched data if source
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| 164 | type enum is pson or psoff. The data must contains 'CAL' signal
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| 165 | on/off in each integration. To identify 'CAL' on state, the source type
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| [2472] | 166 | enum of poncal and poffcal need to be present.
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| [1391] | 167 |
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| 168 | Parameters:
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| 169 | scantab: scantable
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| 170 | scannos: list of scan numbers
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| 171 | smooth: optional box smoothing order for the reference
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| 172 | (default is 1 = no smoothing)
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| 173 | tsysval: optional user specified Tsys (default is 0.0,
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| 174 | use Tsys in the data)
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| 175 | tauval: optional user specified Tau
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| 176 | tcalval: optional user specified Tcal (default is 0.0,
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| 177 | use Tcal value in the data)
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| [1920] | 178 | verify: Verify calibration if true
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| [1391] | 179 | """
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| 180 | varlist = vars()
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| 181 | # check for the appropriate data
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| [1819] | 182 | ## s = scantab.get_scan('*_ps*')
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| 183 | ## if s is None:
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| 184 | ## msg = "The input data appear to contain no position-switch mode data."
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| [1859] | 185 | ## raise TypeError(msg)
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| [1819] | 186 | s = scantab.copy()
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| 187 | from asap._asap import srctype
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| 188 | sel = selector()
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| 189 | sel.set_types( srctype.pson )
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| 190 | try:
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| 191 | scantab.set_selection( sel )
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| 192 | except Exception, e:
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| [1391] | 193 | msg = "The input data appear to contain no position-switch mode data."
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| [1859] | 194 | raise TypeError(msg)
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| [1819] | 195 | s.set_selection()
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| 196 | sel.reset()
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| [1391] | 197 | ssub = s.get_scan(scannos)
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| 198 | if ssub is None:
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| 199 | msg = "No data was found with given scan numbers!"
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| [1859] | 200 | raise TypeError(msg)
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| [1819] | 201 | #ssubon = ssub.get_scan('*calon')
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| 202 | #ssuboff = ssub.get_scan('*[^calon]')
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| 203 | sel.set_types( [srctype.poncal,srctype.poffcal] )
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| 204 | ssub.set_selection( sel )
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| 205 | ssubon = ssub.copy()
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| 206 | ssub.set_selection()
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| 207 | sel.reset()
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| 208 | sel.set_types( [srctype.pson,srctype.psoff] )
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| 209 | ssub.set_selection( sel )
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| 210 | ssuboff = ssub.copy()
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| 211 | ssub.set_selection()
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| 212 | sel.reset()
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| [1391] | 213 | if ssubon.nrow() != ssuboff.nrow():
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| 214 | msg = "mismatch in numbers of CAL on/off scans. Cannot calibrate. Check the scan numbers."
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| [1859] | 215 | raise TypeError(msg)
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| [1391] | 216 | cals = dototalpower(ssubon, ssuboff, tcalval)
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| [1819] | 217 | #sig = cals.get_scan('*ps')
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| 218 | #ref = cals.get_scan('*psr')
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| 219 | sel.set_types( srctype.pson )
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| 220 | cals.set_selection( sel )
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| 221 | sig = cals.copy()
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| 222 | cals.set_selection()
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| 223 | sel.reset()
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| 224 | sel.set_types( srctype.psoff )
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| 225 | cals.set_selection( sel )
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| 226 | ref = cals.copy()
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| 227 | cals.set_selection()
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| 228 | sel.reset()
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| [1391] | 229 | if sig.nscan() != ref.nscan():
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| 230 | msg = "mismatch in numbers of on/off scans. Cannot calibrate. Check the scan numbers."
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| [1859] | 231 | raise TypeError(msg)
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| [1391] | 232 |
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| 233 | #for user supplied Tsys
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| 234 | if tsysval>0.0:
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| 235 | if tauval<=0.0:
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| 236 | msg = "Need to supply a valid tau to use the supplied Tsys"
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| [1859] | 237 | raise TypeError(msg)
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| [1391] | 238 | else:
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| 239 | sig.recalc_azel()
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| 240 | ref.recalc_azel()
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| 241 | #msg = "Use of user specified Tsys is not fully implemented yet."
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| [1859] | 242 | #raise TypeError(msg)
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| [1391] | 243 | # use get_elevation to get elevation and
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| 244 | # calculate a scaling factor using the formula
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| 245 | # -> tsys use to dosigref
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| 246 |
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| 247 | #ress = dosigref(sig, ref, smooth, tsysval)
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| 248 | ress = dosigref(sig, ref, smooth, tsysval, tauval)
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| [1819] | 249 | ###
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| 250 | if verify:
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| 251 | # get data
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| 252 | import numpy
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| 253 | precal={}
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| 254 | postcal=[]
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| 255 | keys=['ps','ps_calon','psr','psr_calon']
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| 256 | types=[srctype.pson,srctype.poncal,srctype.psoff,srctype.poffcal]
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| 257 | ifnos=list(ssub.getifnos())
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| 258 | polnos=list(ssub.getpolnos())
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| 259 | sel=selector()
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| 260 | for i in range(2):
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| 261 | #ss=ssuboff.get_scan('*'+keys[2*i])
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| 262 | ll=[]
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| 263 | for j in range(len(ifnos)):
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| 264 | for k in range(len(polnos)):
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| 265 | sel.set_ifs(ifnos[j])
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| 266 | sel.set_polarizations(polnos[k])
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| 267 | sel.set_types(types[2*i])
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| 268 | try:
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| 269 | #ss.set_selection(sel)
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| 270 | ssuboff.set_selection(sel)
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| 271 | except:
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| 272 | continue
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| 273 | #ll.append(numpy.array(ss._getspectrum(0)))
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| 274 | ll.append(numpy.array(ssuboff._getspectrum(0)))
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| 275 | sel.reset()
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| 276 | ssuboff.set_selection()
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| 277 | precal[keys[2*i]]=ll
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| 278 | #del ss
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| 279 | #ss=ssubon.get_scan('*'+keys[2*i+1])
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| 280 | ll=[]
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| 281 | for j in range(len(ifnos)):
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| 282 | for k in range(len(polnos)):
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| 283 | sel.set_ifs(ifnos[j])
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| 284 | sel.set_polarizations(polnos[k])
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| 285 | sel.set_types(types[2*i+1])
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| 286 | try:
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| 287 | #ss.set_selection(sel)
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| 288 | ssubon.set_selection(sel)
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| 289 | except:
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| 290 | continue
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| 291 | #ll.append(numpy.array(ss._getspectrum(0)))
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| 292 | ll.append(numpy.array(ssubon._getspectrum(0)))
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| 293 | sel.reset()
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| 294 | ssubon.set_selection()
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| 295 | precal[keys[2*i+1]]=ll
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| 296 | #del ss
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| 297 | for j in range(len(ifnos)):
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| 298 | for k in range(len(polnos)):
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| 299 | sel.set_ifs(ifnos[j])
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| 300 | sel.set_polarizations(polnos[k])
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| 301 | try:
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| 302 | ress.set_selection(sel)
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| 303 | except:
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| 304 | continue
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| 305 | postcal.append(numpy.array(ress._getspectrum(0)))
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| 306 | sel.reset()
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| 307 | ress.set_selection()
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| 308 | del sel
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| 309 | # plot
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| [1861] | 310 | asaplog.post()
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| [1819] | 311 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
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| [1861] | 312 | asaplog.post('WARN')
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| [2150] | 313 | p=new_asaplot()
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| [2535] | 314 | rcp('lines', linewidth=1)
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| [1819] | 315 | #nr=min(6,len(ifnos)*len(polnos))
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| 316 | nr=len(ifnos)*len(polnos)
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| 317 | titles=[]
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| 318 | btics=[]
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| 319 | if nr<4:
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| 320 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False)
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| 321 | for i in range(2*nr):
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| 322 | b=False
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| 323 | if i >= 2*nr-2:
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| 324 | b=True
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| 325 | btics.append(b)
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| 326 | elif nr==4:
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| 327 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False)
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| 328 | for i in range(2*nr):
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| 329 | b=False
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| 330 | if i >= 2*nr-4:
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| 331 | b=True
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| 332 | btics.append(b)
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| 333 | elif nr<7:
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| 334 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
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| 335 | for i in range(2*nr):
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| 336 | if i >= 2*nr-4:
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| 337 | b=True
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| 338 | btics.append(b)
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| 339 | else:
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| [1861] | 340 | asaplog.post()
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| [1819] | 341 | asaplog.push('Only first 6 [if,pol] pairs are plotted.')
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| [1861] | 342 | asaplog.post('WARN')
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| [1819] | 343 | nr=6
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| 344 | for i in range(2*nr):
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| 345 | b=False
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| 346 | if i >= 2*nr-4:
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| 347 | b=True
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| 348 | btics.append(b)
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| 349 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
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| 350 | for i in range(nr):
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| 351 | p.subplot(2*i)
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| 352 | p.color=0
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| 353 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
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| 354 | titles.append(title)
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| 355 | #p.set_axes('title',title,fontsize=40)
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| 356 | ymin=1.0e100
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| 357 | ymax=-1.0e100
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| [2348] | 358 | nchan=s.nchan(ifnos[int(i/len(polnos))])
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| [1819] | 359 | edge=int(nchan*0.01)
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| 360 | for j in range(4):
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| 361 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
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| 362 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
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| 363 | ymin=min(ymin,spmin)
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| 364 | ymax=max(ymax,spmax)
|
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| 365 | for j in range(4):
|
|---|
| 366 | if i==0:
|
|---|
| 367 | p.set_line(label=keys[j])
|
|---|
| 368 | else:
|
|---|
| 369 | p.legend()
|
|---|
| 370 | p.plot(precal[keys[j]][i])
|
|---|
| 371 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 372 | if not btics[2*i]:
|
|---|
| 373 | p.axes.set_xticks([])
|
|---|
| 374 | p.subplot(2*i+1)
|
|---|
| 375 | p.color=0
|
|---|
| 376 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 377 | titles.append(title)
|
|---|
| 378 | #p.set_axes('title',title)
|
|---|
| 379 | p.legend()
|
|---|
| 380 | ymin=postcal[i][edge:nchan-edge].min()
|
|---|
| 381 | ymax=postcal[i][edge:nchan-edge].max()
|
|---|
| 382 | p.plot(postcal[i])
|
|---|
| 383 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 384 | if not btics[2*i+1]:
|
|---|
| 385 | p.axes.set_xticks([])
|
|---|
| 386 | for i in range(2*nr):
|
|---|
| 387 | p.subplot(i)
|
|---|
| 388 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 389 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 390 | if x.upper() == 'N':
|
|---|
| [2150] | 391 | p.quit()
|
|---|
| [1819] | 392 | del p
|
|---|
| 393 | return scabtab
|
|---|
| [2150] | 394 | p.quit()
|
|---|
| [1819] | 395 | del p
|
|---|
| 396 | ###
|
|---|
| [1391] | 397 | ress._add_history("calps", varlist)
|
|---|
| 398 | return ress
|
|---|
| 399 |
|
|---|
| [1862] | 400 | @asaplog_post_dec
|
|---|
| [1819] | 401 | def calnod(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
|
|---|
| [1391] | 402 | """
|
|---|
| 403 | Do full (but a pair of scans at time) processing of GBT Nod data
|
|---|
| 404 | calibration.
|
|---|
| 405 | Adopted from GBTIDL's getnod
|
|---|
| 406 | Parameters:
|
|---|
| 407 | scantab: scantable
|
|---|
| 408 | scannos: a pair of scan numbers, or the first scan number of the pair
|
|---|
| 409 | smooth: box car smoothing order
|
|---|
| 410 | tsysval: optional user specified Tsys value
|
|---|
| 411 | tauval: optional user specified tau value (not implemented yet)
|
|---|
| 412 | tcalval: optional user specified Tcal value
|
|---|
| [1920] | 413 | verify: Verify calibration if true
|
|---|
| [1391] | 414 | """
|
|---|
| 415 | varlist = vars()
|
|---|
| 416 | from asap._asap import stmath
|
|---|
| [1819] | 417 | from asap._asap import srctype
|
|---|
| [1391] | 418 | stm = stmath()
|
|---|
| 419 | stm._setinsitu(False)
|
|---|
| 420 |
|
|---|
| 421 | # check for the appropriate data
|
|---|
| [1819] | 422 | ## s = scantab.get_scan('*_nod*')
|
|---|
| 423 | ## if s is None:
|
|---|
| 424 | ## msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 425 | ## raise TypeError(msg)
|
|---|
| [1819] | 426 | s = scantab.copy()
|
|---|
| 427 | sel = selector()
|
|---|
| 428 | sel.set_types( srctype.nod )
|
|---|
| 429 | try:
|
|---|
| 430 | s.set_selection( sel )
|
|---|
| 431 | except Exception, e:
|
|---|
| [1391] | 432 | msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 433 | raise TypeError(msg)
|
|---|
| [1819] | 434 | sel.reset()
|
|---|
| 435 | del sel
|
|---|
| 436 | del s
|
|---|
| [1391] | 437 |
|
|---|
| 438 | # need check correspondance of each beam with sig-ref ...
|
|---|
| 439 | # check for timestamps, scan numbers, subscan id (not available in
|
|---|
| 440 | # ASAP data format...). Assume 1st scan of the pair (beam 0 - sig
|
|---|
| 441 | # and beam 1 - ref...)
|
|---|
| 442 | # First scan number of paired scans or list of pairs of
|
|---|
| 443 | # scan numbers (has to have even number of pairs.)
|
|---|
| 444 |
|
|---|
| 445 | #data splitting
|
|---|
| 446 | scan1no = scan2no = 0
|
|---|
| 447 |
|
|---|
| 448 | if len(scannos)==1:
|
|---|
| 449 | scan1no = scannos[0]
|
|---|
| 450 | scan2no = scannos[0]+1
|
|---|
| 451 | pairScans = [scan1no, scan2no]
|
|---|
| 452 | else:
|
|---|
| 453 | #if len(scannos)>2:
|
|---|
| 454 | # msg = "calnod can only process a pair of nod scans at time."
|
|---|
| [1859] | 455 | # raise TypeError(msg)
|
|---|
| [1391] | 456 | #
|
|---|
| 457 | #if len(scannos)==2:
|
|---|
| 458 | # scan1no = scannos[0]
|
|---|
| 459 | # scan2no = scannos[1]
|
|---|
| 460 | pairScans = list(scannos)
|
|---|
| 461 |
|
|---|
| 462 | if tsysval>0.0:
|
|---|
| 463 | if tauval<=0.0:
|
|---|
| 464 | msg = "Need to supply a valid tau to use the supplied Tsys"
|
|---|
| [1859] | 465 | raise TypeError(msg)
|
|---|
| [1391] | 466 | else:
|
|---|
| 467 | scantab.recalc_azel()
|
|---|
| 468 | resspec = scantable(stm._donod(scantab, pairScans, smooth, tsysval,tauval,tcalval))
|
|---|
| [1819] | 469 | ###
|
|---|
| 470 | if verify:
|
|---|
| 471 | # get data
|
|---|
| 472 | import numpy
|
|---|
| 473 | precal={}
|
|---|
| 474 | postcal=[]
|
|---|
| 475 | keys=['','_calon']
|
|---|
| 476 | types=[srctype.nod,srctype.nodcal]
|
|---|
| 477 | ifnos=list(scantab.getifnos())
|
|---|
| 478 | polnos=list(scantab.getpolnos())
|
|---|
| 479 | sel=selector()
|
|---|
| 480 | ss = scantab.copy()
|
|---|
| 481 | for i in range(2):
|
|---|
| 482 | #ss=scantab.get_scan('*'+keys[i])
|
|---|
| 483 | ll=[]
|
|---|
| 484 | ll2=[]
|
|---|
| 485 | for j in range(len(ifnos)):
|
|---|
| 486 | for k in range(len(polnos)):
|
|---|
| 487 | sel.set_ifs(ifnos[j])
|
|---|
| 488 | sel.set_polarizations(polnos[k])
|
|---|
| 489 | sel.set_scans(pairScans[0])
|
|---|
| 490 | sel.set_types(types[i])
|
|---|
| 491 | try:
|
|---|
| 492 | ss.set_selection(sel)
|
|---|
| 493 | except:
|
|---|
| 494 | continue
|
|---|
| 495 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 496 | sel.reset()
|
|---|
| 497 | ss.set_selection()
|
|---|
| 498 | sel.set_ifs(ifnos[j])
|
|---|
| 499 | sel.set_polarizations(polnos[k])
|
|---|
| 500 | sel.set_scans(pairScans[1])
|
|---|
| 501 | sel.set_types(types[i])
|
|---|
| 502 | try:
|
|---|
| 503 | ss.set_selection(sel)
|
|---|
| 504 | except:
|
|---|
| 505 | ll.pop()
|
|---|
| 506 | continue
|
|---|
| 507 | ll2.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 508 | sel.reset()
|
|---|
| 509 | ss.set_selection()
|
|---|
| 510 | key='%s%s' %(pairScans[0],keys[i])
|
|---|
| 511 | precal[key]=ll
|
|---|
| 512 | key='%s%s' %(pairScans[1],keys[i])
|
|---|
| 513 | precal[key]=ll2
|
|---|
| 514 | #del ss
|
|---|
| 515 | keys=precal.keys()
|
|---|
| 516 | for j in range(len(ifnos)):
|
|---|
| 517 | for k in range(len(polnos)):
|
|---|
| 518 | sel.set_ifs(ifnos[j])
|
|---|
| 519 | sel.set_polarizations(polnos[k])
|
|---|
| 520 | sel.set_scans(pairScans[0])
|
|---|
| 521 | try:
|
|---|
| 522 | resspec.set_selection(sel)
|
|---|
| 523 | except:
|
|---|
| 524 | continue
|
|---|
| 525 | postcal.append(numpy.array(resspec._getspectrum(0)))
|
|---|
| 526 | sel.reset()
|
|---|
| 527 | resspec.set_selection()
|
|---|
| 528 | del sel
|
|---|
| 529 | # plot
|
|---|
| [1861] | 530 | asaplog.post()
|
|---|
| [1819] | 531 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
|
|---|
| [1861] | 532 | asaplog.post('WARN')
|
|---|
| [2150] | 533 | p=new_asaplot()
|
|---|
| [2535] | 534 | rcp('lines', linewidth=1)
|
|---|
| [1819] | 535 | #nr=min(6,len(ifnos)*len(polnos))
|
|---|
| 536 | nr=len(ifnos)*len(polnos)
|
|---|
| 537 | titles=[]
|
|---|
| 538 | btics=[]
|
|---|
| 539 | if nr<4:
|
|---|
| 540 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False)
|
|---|
| 541 | for i in range(2*nr):
|
|---|
| 542 | b=False
|
|---|
| 543 | if i >= 2*nr-2:
|
|---|
| 544 | b=True
|
|---|
| 545 | btics.append(b)
|
|---|
| 546 | elif nr==4:
|
|---|
| 547 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False)
|
|---|
| 548 | for i in range(2*nr):
|
|---|
| 549 | b=False
|
|---|
| 550 | if i >= 2*nr-4:
|
|---|
| 551 | b=True
|
|---|
| 552 | btics.append(b)
|
|---|
| 553 | elif nr<7:
|
|---|
| 554 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
|
|---|
| 555 | for i in range(2*nr):
|
|---|
| 556 | if i >= 2*nr-4:
|
|---|
| 557 | b=True
|
|---|
| 558 | btics.append(b)
|
|---|
| 559 | else:
|
|---|
| [1861] | 560 | asaplog.post()
|
|---|
| [1819] | 561 | asaplog.push('Only first 6 [if,pol] pairs are plotted.')
|
|---|
| [1861] | 562 | asaplog.post('WARN')
|
|---|
| [1819] | 563 | nr=6
|
|---|
| 564 | for i in range(2*nr):
|
|---|
| 565 | b=False
|
|---|
| 566 | if i >= 2*nr-4:
|
|---|
| 567 | b=True
|
|---|
| 568 | btics.append(b)
|
|---|
| 569 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
|
|---|
| 570 | for i in range(nr):
|
|---|
| 571 | p.subplot(2*i)
|
|---|
| 572 | p.color=0
|
|---|
| 573 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 574 | titles.append(title)
|
|---|
| 575 | #p.set_axes('title',title,fontsize=40)
|
|---|
| 576 | ymin=1.0e100
|
|---|
| 577 | ymax=-1.0e100
|
|---|
| [2348] | 578 | nchan=scantab.nchan(ifnos[int(i/len(polnos))])
|
|---|
| [1819] | 579 | edge=int(nchan*0.01)
|
|---|
| 580 | for j in range(4):
|
|---|
| 581 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 582 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 583 | ymin=min(ymin,spmin)
|
|---|
| 584 | ymax=max(ymax,spmax)
|
|---|
| 585 | for j in range(4):
|
|---|
| 586 | if i==0:
|
|---|
| 587 | p.set_line(label=keys[j])
|
|---|
| 588 | else:
|
|---|
| 589 | p.legend()
|
|---|
| 590 | p.plot(precal[keys[j]][i])
|
|---|
| 591 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 592 | if not btics[2*i]:
|
|---|
| 593 | p.axes.set_xticks([])
|
|---|
| 594 | p.subplot(2*i+1)
|
|---|
| 595 | p.color=0
|
|---|
| 596 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 597 | titles.append(title)
|
|---|
| 598 | #p.set_axes('title',title)
|
|---|
| 599 | p.legend()
|
|---|
| 600 | ymin=postcal[i][edge:nchan-edge].min()
|
|---|
| 601 | ymax=postcal[i][edge:nchan-edge].max()
|
|---|
| 602 | p.plot(postcal[i])
|
|---|
| 603 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 604 | if not btics[2*i+1]:
|
|---|
| 605 | p.axes.set_xticks([])
|
|---|
| 606 | for i in range(2*nr):
|
|---|
| 607 | p.subplot(i)
|
|---|
| 608 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 609 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 610 | if x.upper() == 'N':
|
|---|
| [2150] | 611 | p.quit()
|
|---|
| [1819] | 612 | del p
|
|---|
| 613 | return scabtab
|
|---|
| [2150] | 614 | p.quit()
|
|---|
| [1819] | 615 | del p
|
|---|
| 616 | ###
|
|---|
| [1391] | 617 | resspec._add_history("calnod",varlist)
|
|---|
| 618 | return resspec
|
|---|
| 619 |
|
|---|
| [1862] | 620 | @asaplog_post_dec
|
|---|
| [1819] | 621 | def calfs(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
|
|---|
| [1391] | 622 | """
|
|---|
| 623 | Calibrate GBT frequency switched data.
|
|---|
| 624 | Adopted from GBTIDL getfs.
|
|---|
| [1920] | 625 | Currently calfs identify the scans as frequency switched data if source
|
|---|
| 626 | type enum is fson and fsoff. The data must contains 'CAL' signal
|
|---|
| 627 | on/off in each integration. To identify 'CAL' on state, the source type
|
|---|
| [2472] | 628 | enum of foncal and foffcal need to be present.
|
|---|
| [1391] | 629 |
|
|---|
| 630 | Parameters:
|
|---|
| 631 | scantab: scantable
|
|---|
| 632 | scannos: list of scan numbers
|
|---|
| 633 | smooth: optional box smoothing order for the reference
|
|---|
| 634 | (default is 1 = no smoothing)
|
|---|
| 635 | tsysval: optional user specified Tsys (default is 0.0,
|
|---|
| 636 | use Tsys in the data)
|
|---|
| 637 | tauval: optional user specified Tau
|
|---|
| [1920] | 638 | verify: Verify calibration if true
|
|---|
| [1391] | 639 | """
|
|---|
| 640 | varlist = vars()
|
|---|
| 641 | from asap._asap import stmath
|
|---|
| [1819] | 642 | from asap._asap import srctype
|
|---|
| [1391] | 643 | stm = stmath()
|
|---|
| 644 | stm._setinsitu(False)
|
|---|
| 645 |
|
|---|
| 646 | # check = scantab.get_scan('*_fs*')
|
|---|
| 647 | # if check is None:
|
|---|
| 648 | # msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 649 | # raise TypeError(msg)
|
|---|
| [1391] | 650 | s = scantab.get_scan(scannos)
|
|---|
| 651 | del scantab
|
|---|
| 652 |
|
|---|
| 653 | resspec = scantable(stm._dofs(s, scannos, smooth, tsysval,tauval,tcalval))
|
|---|
| [1819] | 654 | ###
|
|---|
| 655 | if verify:
|
|---|
| 656 | # get data
|
|---|
| 657 | ssub = s.get_scan(scannos)
|
|---|
| 658 | #ssubon = ssub.get_scan('*calon')
|
|---|
| 659 | #ssuboff = ssub.get_scan('*[^calon]')
|
|---|
| 660 | sel = selector()
|
|---|
| 661 | sel.set_types( [srctype.foncal,srctype.foffcal] )
|
|---|
| 662 | ssub.set_selection( sel )
|
|---|
| 663 | ssubon = ssub.copy()
|
|---|
| 664 | ssub.set_selection()
|
|---|
| 665 | sel.reset()
|
|---|
| 666 | sel.set_types( [srctype.fson,srctype.fsoff] )
|
|---|
| 667 | ssub.set_selection( sel )
|
|---|
| 668 | ssuboff = ssub.copy()
|
|---|
| 669 | ssub.set_selection()
|
|---|
| 670 | sel.reset()
|
|---|
| 671 | import numpy
|
|---|
| 672 | precal={}
|
|---|
| 673 | postcal=[]
|
|---|
| 674 | keys=['fs','fs_calon','fsr','fsr_calon']
|
|---|
| 675 | types=[srctype.fson,srctype.foncal,srctype.fsoff,srctype.foffcal]
|
|---|
| 676 | ifnos=list(ssub.getifnos())
|
|---|
| 677 | polnos=list(ssub.getpolnos())
|
|---|
| 678 | for i in range(2):
|
|---|
| 679 | #ss=ssuboff.get_scan('*'+keys[2*i])
|
|---|
| 680 | ll=[]
|
|---|
| 681 | for j in range(len(ifnos)):
|
|---|
| 682 | for k in range(len(polnos)):
|
|---|
| 683 | sel.set_ifs(ifnos[j])
|
|---|
| 684 | sel.set_polarizations(polnos[k])
|
|---|
| 685 | sel.set_types(types[2*i])
|
|---|
| 686 | try:
|
|---|
| 687 | #ss.set_selection(sel)
|
|---|
| 688 | ssuboff.set_selection(sel)
|
|---|
| 689 | except:
|
|---|
| 690 | continue
|
|---|
| 691 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 692 | sel.reset()
|
|---|
| 693 | #ss.set_selection()
|
|---|
| 694 | ssuboff.set_selection()
|
|---|
| 695 | precal[keys[2*i]]=ll
|
|---|
| 696 | #del ss
|
|---|
| 697 | #ss=ssubon.get_scan('*'+keys[2*i+1])
|
|---|
| 698 | ll=[]
|
|---|
| 699 | for j in range(len(ifnos)):
|
|---|
| 700 | for k in range(len(polnos)):
|
|---|
| 701 | sel.set_ifs(ifnos[j])
|
|---|
| 702 | sel.set_polarizations(polnos[k])
|
|---|
| 703 | sel.set_types(types[2*i+1])
|
|---|
| 704 | try:
|
|---|
| 705 | #ss.set_selection(sel)
|
|---|
| 706 | ssubon.set_selection(sel)
|
|---|
| 707 | except:
|
|---|
| 708 | continue
|
|---|
| 709 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 710 | sel.reset()
|
|---|
| 711 | #ss.set_selection()
|
|---|
| 712 | ssubon.set_selection()
|
|---|
| 713 | precal[keys[2*i+1]]=ll
|
|---|
| 714 | #del ss
|
|---|
| 715 | #sig=resspec.get_scan('*_fs')
|
|---|
| 716 | #ref=resspec.get_scan('*_fsr')
|
|---|
| 717 | sel.set_types( srctype.fson )
|
|---|
| 718 | resspec.set_selection( sel )
|
|---|
| 719 | sig=resspec.copy()
|
|---|
| 720 | resspec.set_selection()
|
|---|
| 721 | sel.reset()
|
|---|
| 722 | sel.set_type( srctype.fsoff )
|
|---|
| 723 | resspec.set_selection( sel )
|
|---|
| 724 | ref=resspec.copy()
|
|---|
| 725 | resspec.set_selection()
|
|---|
| 726 | sel.reset()
|
|---|
| 727 | for k in range(len(polnos)):
|
|---|
| 728 | for j in range(len(ifnos)):
|
|---|
| 729 | sel.set_ifs(ifnos[j])
|
|---|
| 730 | sel.set_polarizations(polnos[k])
|
|---|
| 731 | try:
|
|---|
| 732 | sig.set_selection(sel)
|
|---|
| 733 | postcal.append(numpy.array(sig._getspectrum(0)))
|
|---|
| 734 | except:
|
|---|
| 735 | ref.set_selection(sel)
|
|---|
| 736 | postcal.append(numpy.array(ref._getspectrum(0)))
|
|---|
| 737 | sel.reset()
|
|---|
| 738 | resspec.set_selection()
|
|---|
| 739 | del sel
|
|---|
| 740 | # plot
|
|---|
| [1861] | 741 | asaplog.post()
|
|---|
| [1819] | 742 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
|
|---|
| [1861] | 743 | asaplog.post('WARN')
|
|---|
| [2150] | 744 | p=new_asaplot()
|
|---|
| [2535] | 745 | rcp('lines', linewidth=1)
|
|---|
| [1819] | 746 | #nr=min(6,len(ifnos)*len(polnos))
|
|---|
| 747 | nr=len(ifnos)/2*len(polnos)
|
|---|
| 748 | titles=[]
|
|---|
| 749 | btics=[]
|
|---|
| 750 | if nr>3:
|
|---|
| [1861] | 751 | asaplog.post()
|
|---|
| [1819] | 752 | asaplog.push('Only first 3 [if,pol] pairs are plotted.')
|
|---|
| [1861] | 753 | asaplog.post('WARN')
|
|---|
| [1819] | 754 | nr=3
|
|---|
| 755 | p.set_panels(rows=nr,cols=3,nplots=3*nr,ganged=False)
|
|---|
| 756 | for i in range(3*nr):
|
|---|
| 757 | b=False
|
|---|
| 758 | if i >= 3*nr-3:
|
|---|
| 759 | b=True
|
|---|
| 760 | btics.append(b)
|
|---|
| 761 | for i in range(nr):
|
|---|
| 762 | p.subplot(3*i)
|
|---|
| 763 | p.color=0
|
|---|
| 764 | title='raw data IF%s,%s POL%s' % (ifnos[2*int(i/len(polnos))],ifnos[2*int(i/len(polnos))+1],polnos[i%len(polnos)])
|
|---|
| 765 | titles.append(title)
|
|---|
| 766 | #p.set_axes('title',title,fontsize=40)
|
|---|
| 767 | ymin=1.0e100
|
|---|
| 768 | ymax=-1.0e100
|
|---|
| [2348] | 769 | nchan=s.nchan(ifnos[2*int(i/len(polnos))])
|
|---|
| [1819] | 770 | edge=int(nchan*0.01)
|
|---|
| 771 | for j in range(4):
|
|---|
| 772 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 773 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 774 | ymin=min(ymin,spmin)
|
|---|
| 775 | ymax=max(ymax,spmax)
|
|---|
| 776 | for j in range(4):
|
|---|
| 777 | if i==0:
|
|---|
| 778 | p.set_line(label=keys[j])
|
|---|
| 779 | else:
|
|---|
| 780 | p.legend()
|
|---|
| 781 | p.plot(precal[keys[j]][i])
|
|---|
| 782 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 783 | if not btics[3*i]:
|
|---|
| 784 | p.axes.set_xticks([])
|
|---|
| 785 | p.subplot(3*i+1)
|
|---|
| 786 | p.color=0
|
|---|
| 787 | title='sig data IF%s POL%s' % (ifnos[2*int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 788 | titles.append(title)
|
|---|
| 789 | #p.set_axes('title',title)
|
|---|
| 790 | p.legend()
|
|---|
| 791 | ymin=postcal[2*i][edge:nchan-edge].min()
|
|---|
| 792 | ymax=postcal[2*i][edge:nchan-edge].max()
|
|---|
| 793 | p.plot(postcal[2*i])
|
|---|
| 794 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 795 | if not btics[3*i+1]:
|
|---|
| 796 | p.axes.set_xticks([])
|
|---|
| 797 | p.subplot(3*i+2)
|
|---|
| 798 | p.color=0
|
|---|
| 799 | title='ref data IF%s POL%s' % (ifnos[2*int(i/len(polnos))+1],polnos[i%len(polnos)])
|
|---|
| 800 | titles.append(title)
|
|---|
| 801 | #p.set_axes('title',title)
|
|---|
| 802 | p.legend()
|
|---|
| 803 | ymin=postcal[2*i+1][edge:nchan-edge].min()
|
|---|
| 804 | ymax=postcal[2*i+1][edge:nchan-edge].max()
|
|---|
| 805 | p.plot(postcal[2*i+1])
|
|---|
| 806 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 807 | if not btics[3*i+2]:
|
|---|
| 808 | p.axes.set_xticks([])
|
|---|
| 809 | for i in range(3*nr):
|
|---|
| 810 | p.subplot(i)
|
|---|
| 811 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 812 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 813 | if x.upper() == 'N':
|
|---|
| [2150] | 814 | p.quit()
|
|---|
| [1819] | 815 | del p
|
|---|
| 816 | return scabtab
|
|---|
| [2150] | 817 | p.quit()
|
|---|
| [1819] | 818 | del p
|
|---|
| 819 | ###
|
|---|
| [1391] | 820 | resspec._add_history("calfs",varlist)
|
|---|
| 821 | return resspec
|
|---|
| 822 |
|
|---|
| [1862] | 823 | @asaplog_post_dec
|
|---|
| [918] | 824 | def merge(*args):
|
|---|
| [945] | 825 | """
|
|---|
| [1362] | 826 | Merge a list of scanatables, or comma-sperated scantables into one
|
|---|
| 827 | scnatble.
|
|---|
| 828 | Parameters:
|
|---|
| 829 | A list [scan1, scan2] or scan1, scan2.
|
|---|
| 830 | Example:
|
|---|
| 831 | myscans = [scan1, scan2]
|
|---|
| [1589] | 832 | allscans = merge(myscans)
|
|---|
| 833 | # or equivalent
|
|---|
| 834 | sameallscans = merge(scan1, scan2)
|
|---|
| [945] | 835 | """
|
|---|
| [918] | 836 | varlist = vars()
|
|---|
| 837 | if isinstance(args[0],list):
|
|---|
| 838 | lst = tuple(args[0])
|
|---|
| 839 | elif isinstance(args[0],tuple):
|
|---|
| 840 | lst = args[0]
|
|---|
| 841 | else:
|
|---|
| 842 | lst = tuple(args)
|
|---|
| 843 | varlist["args"] = "%d scantables" % len(lst)
|
|---|
| 844 | # need special formatting her for history...
|
|---|
| 845 | from asap._asap import stmath
|
|---|
| 846 | stm = stmath()
|
|---|
| 847 | for s in lst:
|
|---|
| 848 | if not isinstance(s,scantable):
|
|---|
| 849 | msg = "Please give a list of scantables"
|
|---|
| [1859] | 850 | raise TypeError(msg)
|
|---|
| [918] | 851 | s = scantable(stm._merge(lst))
|
|---|
| 852 | s._add_history("merge", varlist)
|
|---|
| 853 | return s
|
|---|
| [1819] | 854 |
|
|---|
| [1862] | 855 | @asaplog_post_dec
|
|---|
| [1819] | 856 | def calibrate( scantab, scannos=[], calmode='none', verify=None ):
|
|---|
| 857 | """
|
|---|
| 858 | Calibrate data.
|
|---|
| [1826] | 859 |
|
|---|
| [1819] | 860 | Parameters:
|
|---|
| 861 | scantab: scantable
|
|---|
| 862 | scannos: list of scan number
|
|---|
| 863 | calmode: calibration mode
|
|---|
| [1826] | 864 | verify: verify calibration
|
|---|
| [1819] | 865 | """
|
|---|
| [2102] | 866 | import re
|
|---|
| [1819] | 867 | antname = scantab.get_antennaname()
|
|---|
| 868 | if ( calmode == 'nod' ):
|
|---|
| 869 | asaplog.push( 'Calibrating nod data.' )
|
|---|
| 870 | scal = calnod( scantab, scannos=scannos, verify=verify )
|
|---|
| 871 | elif ( calmode == 'quotient' ):
|
|---|
| 872 | asaplog.push( 'Calibrating using quotient.' )
|
|---|
| 873 | scal = scantab.auto_quotient( verify=verify )
|
|---|
| 874 | elif ( calmode == 'ps' ):
|
|---|
| 875 | asaplog.push( 'Calibrating %s position-switched data.' % antname )
|
|---|
| 876 | if ( antname.find( 'APEX' ) != -1 ):
|
|---|
| 877 | scal = apexcal( scantab, scannos, calmode, verify )
|
|---|
| [2102] | 878 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1
|
|---|
| 879 | or re.match('DV[0-9][0-9]$',antname) is not None
|
|---|
| 880 | or re.match('PM[0-9][0-9]$',antname) is not None
|
|---|
| 881 | or re.match('CM[0-9][0-9]$',antname) is not None
|
|---|
| 882 | or re.match('DA[0-9][0-9]$',antname) is not None ):
|
|---|
| [1819] | 883 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 884 | else:
|
|---|
| 885 | scal = calps( scantab, scannos=scannos, verify=verify )
|
|---|
| 886 | elif ( calmode == 'fs' or calmode == 'fsotf' ):
|
|---|
| 887 | asaplog.push( 'Calibrating %s frequency-switched data.' % antname )
|
|---|
| 888 | if ( antname.find( 'APEX' ) != -1 ):
|
|---|
| 889 | scal = apexcal( scantab, scannos, calmode, verify )
|
|---|
| 890 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1 ):
|
|---|
| 891 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 892 | else:
|
|---|
| 893 | scal = calfs( scantab, scannos=scannos, verify=verify )
|
|---|
| 894 | elif ( calmode == 'otf' ):
|
|---|
| 895 | asaplog.push( 'Calibrating %s On-The-Fly data.' % antname )
|
|---|
| 896 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 897 | else:
|
|---|
| 898 | asaplog.push( 'No calibration.' )
|
|---|
| 899 | scal = scantab.copy()
|
|---|
| 900 |
|
|---|
| [1826] | 901 | return scal
|
|---|
| [1819] | 902 |
|
|---|
| 903 | def apexcal( scantab, scannos=[], calmode='none', verify=False ):
|
|---|
| 904 | """
|
|---|
| 905 | Calibrate APEX data
|
|---|
| 906 |
|
|---|
| 907 | Parameters:
|
|---|
| 908 | scantab: scantable
|
|---|
| 909 | scannos: list of scan number
|
|---|
| 910 | calmode: calibration mode
|
|---|
| 911 |
|
|---|
| [1826] | 912 | verify: verify calibration
|
|---|
| [1819] | 913 | """
|
|---|
| 914 | from asap._asap import stmath
|
|---|
| 915 | stm = stmath()
|
|---|
| 916 | antname = scantab.get_antennaname()
|
|---|
| [2580] | 917 | selection=selector()
|
|---|
| 918 | selection.set_scans(scannos)
|
|---|
| 919 | orig = scantab.get_selection()
|
|---|
| 920 | scantab.set_selection(orig+selection)
|
|---|
| 921 | ## ssub = scantab.get_scan( scannos )
|
|---|
| 922 | ## scal = scantable( stm.cwcal( ssub, calmode, antname ) )
|
|---|
| 923 | scal = scantable( stm.cwcal( scantab, calmode, antname ) )
|
|---|
| 924 | scantab.set_selection(orig)
|
|---|
| [1819] | 925 | return scal
|
|---|
| 926 |
|
|---|
| 927 | def almacal( scantab, scannos=[], calmode='none', verify=False ):
|
|---|
| 928 | """
|
|---|
| 929 | Calibrate ALMA data
|
|---|
| 930 |
|
|---|
| 931 | Parameters:
|
|---|
| 932 | scantab: scantable
|
|---|
| 933 | scannos: list of scan number
|
|---|
| 934 | calmode: calibration mode
|
|---|
| 935 |
|
|---|
| [1826] | 936 | verify: verify calibration
|
|---|
| [1819] | 937 | """
|
|---|
| 938 | from asap._asap import stmath
|
|---|
| 939 | stm = stmath()
|
|---|
| [2580] | 940 | selection=selector()
|
|---|
| 941 | selection.set_scans(scannos)
|
|---|
| 942 | orig = scantab.get_selection()
|
|---|
| 943 | scantab.set_selection(orig+selection)
|
|---|
| 944 | ## ssub = scantab.get_scan( scannos )
|
|---|
| 945 | ## scal = scantable( stm.almacal( ssub, calmode ) )
|
|---|
| 946 | scal = scantable( stm.almacal( scantab, calmode ) )
|
|---|
| 947 | scantab.set_selection(orig)
|
|---|
| [1819] | 948 | return scal
|
|---|
| 949 |
|
|---|
| [1862] | 950 | @asaplog_post_dec
|
|---|
| [1819] | 951 | def splitant(filename, outprefix='',overwrite=False):
|
|---|
| 952 | """
|
|---|
| 953 | Split Measurement set by antenna name, save data as a scantables,
|
|---|
| 954 | and return a list of filename.
|
|---|
| [1826] | 955 | Notice this method can only be available from CASA.
|
|---|
| [1819] | 956 | Prameter
|
|---|
| [1826] | 957 | filename: the name of Measurement set to be read.
|
|---|
| [1819] | 958 | outprefix: the prefix of output scantable name.
|
|---|
| 959 | the names of output scantable will be
|
|---|
| 960 | outprefix.antenna1, outprefix.antenna2, ....
|
|---|
| 961 | If not specified, outprefix = filename is assumed.
|
|---|
| 962 | overwrite If the file should be overwritten if it exists.
|
|---|
| 963 | The default False is to return with warning
|
|---|
| 964 | without writing the output. USE WITH CARE.
|
|---|
| [1826] | 965 |
|
|---|
| [1819] | 966 | """
|
|---|
| 967 | # Import the table toolkit from CASA
|
|---|
| [1859] | 968 | import casac
|
|---|
| [1918] | 969 | from asap.scantable import is_ms
|
|---|
| [1859] | 970 | tbtool = casac.homefinder.find_home_by_name('tableHome')
|
|---|
| 971 | tb = tbtool.create()
|
|---|
| [1819] | 972 | # Check the input filename
|
|---|
| 973 | if isinstance(filename, str):
|
|---|
| 974 | import os.path
|
|---|
| 975 | filename = os.path.expandvars(filename)
|
|---|
| 976 | filename = os.path.expanduser(filename)
|
|---|
| 977 | if not os.path.exists(filename):
|
|---|
| 978 | s = "File '%s' not found." % (filename)
|
|---|
| 979 | raise IOError(s)
|
|---|
| 980 | # check if input file is MS
|
|---|
| [1883] | 981 | #if not os.path.isdir(filename) \
|
|---|
| 982 | # or not os.path.exists(filename+'/ANTENNA') \
|
|---|
| 983 | # or not os.path.exists(filename+'/table.f1'):
|
|---|
| 984 | if not is_ms(filename):
|
|---|
| [1819] | 985 | s = "File '%s' is not a Measurement set." % (filename)
|
|---|
| 986 | raise IOError(s)
|
|---|
| 987 | else:
|
|---|
| 988 | s = "The filename should be string. "
|
|---|
| 989 | raise TypeError(s)
|
|---|
| 990 | # Check out put file name
|
|---|
| 991 | outname=''
|
|---|
| 992 | if len(outprefix) > 0: prefix=outprefix+'.'
|
|---|
| 993 | else:
|
|---|
| 994 | prefix=filename.rstrip('/')
|
|---|
| 995 | # Now do the actual splitting.
|
|---|
| 996 | outfiles=[]
|
|---|
| [2034] | 997 | tb.open(tablename=filename,nomodify=True)
|
|---|
| 998 | ant1=tb.getcol('ANTENNA1',0,-1,1)
|
|---|
| [2366] | 999 | #anttab=tb.getkeyword('ANTENNA').split()[-1]
|
|---|
| 1000 | anttab=tb.getkeyword('ANTENNA').lstrip('Table: ')
|
|---|
| [2034] | 1001 | tb.close()
|
|---|
| 1002 | #tb.open(tablename=filename+'/ANTENNA',nomodify=True)
|
|---|
| 1003 | tb.open(tablename=anttab,nomodify=True)
|
|---|
| [1819] | 1004 | nant=tb.nrows()
|
|---|
| 1005 | antnames=tb.getcol('NAME',0,nant,1)
|
|---|
| 1006 | tb.close()
|
|---|
| [1880] | 1007 | tmpname='asapmath.splitant.tmp'
|
|---|
| [1819] | 1008 | for antid in set(ant1):
|
|---|
| [1883] | 1009 | tb.open(tablename=filename,nomodify=True)
|
|---|
| 1010 | tbsel=tb.query('ANTENNA1 == %s && ANTENNA2 == %s'%(antid,antid),tmpname)
|
|---|
| [1918] | 1011 | scan=scantable(tmpname,average=False,getpt=True,antenna=int(antid))
|
|---|
| 1012 | outname=prefix+antnames[antid]+'.asap'
|
|---|
| 1013 | scan.save(outname,format='ASAP',overwrite=overwrite)
|
|---|
| [1880] | 1014 | tbsel.close()
|
|---|
| [1883] | 1015 | tb.close()
|
|---|
| [1880] | 1016 | del tbsel
|
|---|
| [1819] | 1017 | del scan
|
|---|
| 1018 | outfiles.append(outname)
|
|---|
| [1880] | 1019 | os.system('rm -rf '+tmpname)
|
|---|
| 1020 | del tb
|
|---|
| [1819] | 1021 | return outfiles
|
|---|
| 1022 |
|
|---|
| [1862] | 1023 | @asaplog_post_dec
|
|---|
| [2320] | 1024 | def _array2dOp( scan, value, mode="ADD", tsys=False, insitu=None):
|
|---|
| [1819] | 1025 | """
|
|---|
| 1026 | This function is workaround on the basic operation of scantable
|
|---|
| 1027 | with 2 dimensional float list.
|
|---|
| 1028 |
|
|---|
| 1029 | scan: scantable operand
|
|---|
| 1030 | value: float list operand
|
|---|
| 1031 | mode: operation mode (ADD, SUB, MUL, DIV)
|
|---|
| [1826] | 1032 | tsys: if True, operate tsys as well
|
|---|
| [2336] | 1033 | insitu: if False, a new scantable is returned.
|
|---|
| 1034 | Otherwise, the array operation is done in-sitsu.
|
|---|
| [1819] | 1035 | """
|
|---|
| [2574] | 1036 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [1819] | 1037 | nrow = scan.nrow()
|
|---|
| 1038 | s = None
|
|---|
| [2320] | 1039 | from asap._asap import stmath
|
|---|
| 1040 | stm = stmath()
|
|---|
| 1041 | stm._setinsitu(insitu)
|
|---|
| [1819] | 1042 | if len( value ) == 1:
|
|---|
| [2320] | 1043 | s = scantable( stm._arrayop( scan, value[0], mode, tsys ) )
|
|---|
| [1819] | 1044 | elif len( value ) != nrow:
|
|---|
| [1859] | 1045 | raise ValueError( 'len(value) must be 1 or conform to scan.nrow()' )
|
|---|
| [1819] | 1046 | else:
|
|---|
| 1047 | from asap._asap import stmath
|
|---|
| [2320] | 1048 | if not insitu:
|
|---|
| 1049 | s = scan.copy()
|
|---|
| 1050 | else:
|
|---|
| 1051 | s = scan
|
|---|
| 1052 | # insitu must be True as we go row by row on the same data
|
|---|
| [1819] | 1053 | stm._setinsitu( True )
|
|---|
| [2320] | 1054 | basesel = s.get_selection()
|
|---|
| [2341] | 1055 | # generate a new selector object based on basesel
|
|---|
| 1056 | sel = selector(basesel)
|
|---|
| [1819] | 1057 | for irow in range( nrow ):
|
|---|
| 1058 | sel.set_rows( irow )
|
|---|
| 1059 | s.set_selection( sel )
|
|---|
| 1060 | if len( value[irow] ) == 1:
|
|---|
| 1061 | stm._unaryop( s, value[irow][0], mode, tsys )
|
|---|
| 1062 | else:
|
|---|
| [2139] | 1063 | #stm._arrayop( s, value[irow], mode, tsys, 'channel' )
|
|---|
| 1064 | stm._arrayop( s, value[irow], mode, tsys )
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| [2320] | 1065 | s.set_selection(basesel)
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| [1819] | 1066 | return s
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