| [1883] | 1 | from asap.scantable import scantable, is_ms
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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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| [1819] | 5 | from asap import asaplotgui
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| [101] | 6 |
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| [1862] | 7 | @asaplog_post_dec
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| [143] | 8 | def average_time(*args, **kwargs):
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| [101] | 9 | """
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| [113] | 10 | Return the (time) average of a scan or list of scans. [in channels only]
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| [305] | 11 | The cursor of the output scan is set to 0
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| [113] | 12 | Parameters:
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| [1361] | 13 | one scan or comma separated scans or a list of scans
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| [143] | 14 | mask: an optional mask (only used for 'var' and 'tsys' weighting)
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| [558] | 15 | scanav: True averages each scan separately.
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| 16 | False (default) averages all scans together,
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| [1232] | 17 | weight: Weighting scheme.
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| 18 | 'none' (mean no weight)
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| 19 | 'var' (1/var(spec) weighted)
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| 20 | 'tsys' (1/Tsys**2 weighted)
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| 21 | 'tint' (integration time weighted)
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| 22 | 'tintsys' (Tint/Tsys**2)
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| 23 | 'median' ( median averaging)
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| [930] | 24 | align: align the spectra in velocity before averaging. It takes
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| 25 | the time of the first spectrum in the first scantable
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| 26 | as reference time.
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| [113] | 27 | Example:
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| 28 | # return a time averaged scan from scana and scanb
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| 29 | # without using a mask
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| [129] | 30 | scanav = average_time(scana,scanb)
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| [1589] | 31 | # or equivalent
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| 32 | # scanav = average_time([scana, scanb])
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| [113] | 33 | # return the (time) averaged scan, i.e. the average of
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| 34 | # all correlator cycles
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| [558] | 35 | scanav = average_time(scan, scanav=True)
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| [101] | 36 | """
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| [930] | 37 | scanav = False
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| [143] | 38 | if kwargs.has_key('scanav'):
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| [930] | 39 | scanav = kwargs.get('scanav')
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| [524] | 40 | weight = 'tint'
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| [143] | 41 | if kwargs.has_key('weight'):
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| 42 | weight = kwargs.get('weight')
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| 43 | mask = ()
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| 44 | if kwargs.has_key('mask'):
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| 45 | mask = kwargs.get('mask')
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| [930] | 46 | align = False
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| 47 | if kwargs.has_key('align'):
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| 48 | align = kwargs.get('align')
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| [1819] | 49 | compel = False
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| 50 | if kwargs.has_key('compel'):
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| 51 | compel = kwargs.get('compel')
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| [489] | 52 | varlist = vars()
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| [665] | 53 | if isinstance(args[0],list):
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| [981] | 54 | lst = args[0]
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| [665] | 55 | elif isinstance(args[0],tuple):
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| [981] | 56 | lst = list(args[0])
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| [665] | 57 | else:
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| [981] | 58 | lst = list(args)
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| [720] | 59 |
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| [489] | 60 | del varlist["kwargs"]
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| 61 | varlist["args"] = "%d scantables" % len(lst)
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| [981] | 62 | # need special formatting here for history...
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| [720] | 63 |
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| [876] | 64 | from asap._asap import stmath
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| 65 | stm = stmath()
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| [113] | 66 | for s in lst:
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| [101] | 67 | if not isinstance(s,scantable):
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| [720] | 68 | msg = "Please give a list of scantables"
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| [1859] | 69 | raise TypeError(msg)
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| [945] | 70 | if scanav: scanav = "SCAN"
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| 71 | else: scanav = "NONE"
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| [981] | 72 | alignedlst = []
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| 73 | if align:
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| 74 | refepoch = lst[0].get_time(0)
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| 75 | for scan in lst:
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| 76 | alignedlst.append(scan.freq_align(refepoch,insitu=False))
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| 77 | else:
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| [1059] | 78 | alignedlst = lst
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| [1232] | 79 | if weight.upper() == 'MEDIAN':
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| 80 | # median doesn't support list of scantables - merge first
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| 81 | merged = None
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| 82 | if len(alignedlst) > 1:
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| 83 | merged = merge(alignedlst)
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| 84 | else:
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| 85 | merged = alignedlst[0]
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| 86 | s = scantable(stm._averagechannel(merged, 'MEDIAN', scanav))
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| 87 | del merged
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| 88 | else:
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| [1819] | 89 | #s = scantable(stm._average(alignedlst, mask, weight.upper(), scanav))
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| 90 | s = scantable(stm._new_average(alignedlst, compel, mask, weight.upper(), scanav))
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| [489] | 91 | s._add_history("average_time",varlist)
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| [1859] | 92 |
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| [489] | 93 | return s
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| [101] | 94 |
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| [1862] | 95 | @asaplog_post_dec
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| [1074] | 96 | def quotient(source, reference, preserve=True):
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| 97 | """
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| 98 | Return the quotient of a 'source' (signal) scan and a 'reference' scan.
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| 99 | The reference can have just one scan, even if the signal has many. Otherwise
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| 100 | they must have the same number of scans.
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| 101 | The cursor of the output scan is set to 0
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| 102 | Parameters:
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| 103 | source: the 'on' scan
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| 104 | reference: the 'off' scan
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| 105 | preserve: you can preserve (default) the continuum or
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| 106 | remove it. The equations used are
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| 107 | preserve: Output = Toff * (on/off) - Toff
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| 108 | remove: Output = Toff * (on/off) - Ton
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| 109 | """
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| 110 | varlist = vars()
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| 111 | from asap._asap import stmath
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| 112 | stm = stmath()
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| 113 | stm._setinsitu(False)
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| 114 | s = scantable(stm._quotient(source, reference, preserve))
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| 115 | s._add_history("quotient",varlist)
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| 116 | return s
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| [101] | 117 |
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| [1862] | 118 | @asaplog_post_dec
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| [1391] | 119 | def dototalpower(calon, caloff, tcalval=0.0):
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| 120 | """
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| 121 | Do calibration for CAL on,off signals.
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| 122 | Adopted from GBTIDL dototalpower
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| 123 | Parameters:
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| 124 | calon: the 'cal on' subintegration
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| 125 | caloff: the 'cal off' subintegration
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| 126 | tcalval: user supplied Tcal value
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| 127 | """
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| 128 | varlist = vars()
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| 129 | from asap._asap import stmath
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| 130 | stm = stmath()
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| 131 | stm._setinsitu(False)
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| 132 | s = scantable(stm._dototalpower(calon, caloff, tcalval))
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| 133 | s._add_history("dototalpower",varlist)
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| 134 | return s
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| 135 |
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| [1862] | 136 | @asaplog_post_dec
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| [1391] | 137 | def dosigref(sig, ref, smooth, tsysval=0.0, tauval=0.0):
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| 138 | """
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| 139 | Calculate a quotient (sig-ref/ref * Tsys)
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| 140 | Adopted from GBTIDL dosigref
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| 141 | Parameters:
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| 142 | sig: on source data
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| 143 | ref: reference data
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| 144 | smooth: width of box car smoothing for reference
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| 145 | tsysval: user specified Tsys (scalar only)
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| 146 | tauval: user specified Tau (required if tsysval is set)
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| 147 | """
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| 148 | varlist = vars()
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| 149 | from asap._asap import stmath
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| 150 | stm = stmath()
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| 151 | stm._setinsitu(False)
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| 152 | s = scantable(stm._dosigref(sig, ref, smooth, tsysval, tauval))
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| 153 | s._add_history("dosigref",varlist)
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| 154 | return s
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| 155 |
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| [1862] | 156 | @asaplog_post_dec
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| [1819] | 157 | def calps(scantab, scannos, smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
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| [1391] | 158 | """
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| 159 | Calibrate GBT position switched data
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| 160 | Adopted from GBTIDL getps
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| 161 | Currently calps identify the scans as position switched data if they
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| 162 | contain '_ps' in the source name. The data must contains 'CAL' signal
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| 163 | on/off in each integration. To identify 'CAL' on state, the word, 'calon'
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| 164 | need to be present in the source name field.
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| 165 | (GBT MS data reading process to scantable automatically append these
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| 166 | id names to the source names)
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| 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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| 178 | """
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| 179 | varlist = vars()
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| 180 | # check for the appropriate data
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| [1819] | 181 | ## s = scantab.get_scan('*_ps*')
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| 182 | ## if s is None:
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| 183 | ## msg = "The input data appear to contain no position-switch mode data."
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| [1859] | 184 | ## raise TypeError(msg)
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| [1819] | 185 | s = scantab.copy()
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| 186 | from asap._asap import srctype
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| 187 | sel = selector()
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| 188 | sel.set_types( srctype.pson )
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| 189 | try:
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| 190 | scantab.set_selection( sel )
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| 191 | except Exception, e:
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| [1391] | 192 | msg = "The input data appear to contain no position-switch mode data."
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| [1859] | 193 | raise TypeError(msg)
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| [1819] | 194 | s.set_selection()
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| 195 | sel.reset()
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| [1391] | 196 | ssub = s.get_scan(scannos)
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| 197 | if ssub is None:
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| 198 | msg = "No data was found with given scan numbers!"
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| [1859] | 199 | raise TypeError(msg)
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| [1819] | 200 | #ssubon = ssub.get_scan('*calon')
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| 201 | #ssuboff = ssub.get_scan('*[^calon]')
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| 202 | sel.set_types( [srctype.poncal,srctype.poffcal] )
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| 203 | ssub.set_selection( sel )
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| 204 | ssubon = ssub.copy()
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| 205 | ssub.set_selection()
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| 206 | sel.reset()
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| 207 | sel.set_types( [srctype.pson,srctype.psoff] )
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| 208 | ssub.set_selection( sel )
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| 209 | ssuboff = ssub.copy()
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| 210 | ssub.set_selection()
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| 211 | sel.reset()
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| [1391] | 212 | if ssubon.nrow() != ssuboff.nrow():
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| 213 | msg = "mismatch in numbers of CAL on/off scans. Cannot calibrate. Check the scan numbers."
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| [1859] | 214 | raise TypeError(msg)
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| [1391] | 215 | cals = dototalpower(ssubon, ssuboff, tcalval)
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| [1819] | 216 | #sig = cals.get_scan('*ps')
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| 217 | #ref = cals.get_scan('*psr')
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| 218 | sel.set_types( srctype.pson )
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| 219 | cals.set_selection( sel )
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| 220 | sig = cals.copy()
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| 221 | cals.set_selection()
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| 222 | sel.reset()
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| 223 | sel.set_types( srctype.psoff )
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| 224 | cals.set_selection( sel )
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| 225 | ref = cals.copy()
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| 226 | cals.set_selection()
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| 227 | sel.reset()
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| [1391] | 228 | if sig.nscan() != ref.nscan():
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| 229 | msg = "mismatch in numbers of on/off scans. Cannot calibrate. Check the scan numbers."
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| [1859] | 230 | raise TypeError(msg)
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| [1391] | 231 |
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| 232 | #for user supplied Tsys
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| 233 | if tsysval>0.0:
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| 234 | if tauval<=0.0:
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| 235 | msg = "Need to supply a valid tau to use the supplied Tsys"
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| [1859] | 236 | raise TypeError(msg)
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| [1391] | 237 | else:
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| 238 | sig.recalc_azel()
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| 239 | ref.recalc_azel()
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| 240 | #msg = "Use of user specified Tsys is not fully implemented yet."
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| [1859] | 241 | #raise TypeError(msg)
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| [1391] | 242 | # use get_elevation to get elevation and
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| 243 | # calculate a scaling factor using the formula
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| 244 | # -> tsys use to dosigref
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| 245 |
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| 246 | #ress = dosigref(sig, ref, smooth, tsysval)
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| 247 | ress = dosigref(sig, ref, smooth, tsysval, tauval)
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| [1819] | 248 | ###
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| 249 | if verify:
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| 250 | # get data
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| 251 | import numpy
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| 252 | precal={}
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| 253 | postcal=[]
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| 254 | keys=['ps','ps_calon','psr','psr_calon']
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| 255 | types=[srctype.pson,srctype.poncal,srctype.psoff,srctype.poffcal]
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| 256 | ifnos=list(ssub.getifnos())
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| 257 | polnos=list(ssub.getpolnos())
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| 258 | sel=selector()
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| 259 | for i in range(2):
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| 260 | #ss=ssuboff.get_scan('*'+keys[2*i])
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| 261 | ll=[]
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| 262 | for j in range(len(ifnos)):
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| 263 | for k in range(len(polnos)):
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| 264 | sel.set_ifs(ifnos[j])
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| 265 | sel.set_polarizations(polnos[k])
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| 266 | sel.set_types(types[2*i])
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| 267 | try:
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| 268 | #ss.set_selection(sel)
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| 269 | ssuboff.set_selection(sel)
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| 270 | except:
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| 271 | continue
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| 272 | #ll.append(numpy.array(ss._getspectrum(0)))
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| 273 | ll.append(numpy.array(ssuboff._getspectrum(0)))
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| 274 | sel.reset()
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| 275 | ssuboff.set_selection()
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| 276 | precal[keys[2*i]]=ll
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| 277 | #del ss
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| 278 | #ss=ssubon.get_scan('*'+keys[2*i+1])
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| 279 | ll=[]
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| 280 | for j in range(len(ifnos)):
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| 281 | for k in range(len(polnos)):
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| 282 | sel.set_ifs(ifnos[j])
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| 283 | sel.set_polarizations(polnos[k])
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| 284 | sel.set_types(types[2*i+1])
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| 285 | try:
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| 286 | #ss.set_selection(sel)
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| 287 | ssubon.set_selection(sel)
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| 288 | except:
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| 289 | continue
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| 290 | #ll.append(numpy.array(ss._getspectrum(0)))
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| 291 | ll.append(numpy.array(ssubon._getspectrum(0)))
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| 292 | sel.reset()
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| 293 | ssubon.set_selection()
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| 294 | precal[keys[2*i+1]]=ll
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| 295 | #del ss
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| 296 | for j in range(len(ifnos)):
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| 297 | for k in range(len(polnos)):
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| 298 | sel.set_ifs(ifnos[j])
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| 299 | sel.set_polarizations(polnos[k])
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| 300 | try:
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| 301 | ress.set_selection(sel)
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| 302 | except:
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| 303 | continue
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| 304 | postcal.append(numpy.array(ress._getspectrum(0)))
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| 305 | sel.reset()
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| 306 | ress.set_selection()
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| 307 | del sel
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| 308 | # plot
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| [1861] | 309 | asaplog.post()
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| [1819] | 310 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
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| [1861] | 311 | asaplog.post('WARN')
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| [1819] | 312 | p=asaplotgui.asaplotgui()
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| 313 | #nr=min(6,len(ifnos)*len(polnos))
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| 314 | nr=len(ifnos)*len(polnos)
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| 315 | titles=[]
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| 316 | btics=[]
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| 317 | if nr<4:
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| 318 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False)
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| 319 | for i in range(2*nr):
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| 320 | b=False
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| 321 | if i >= 2*nr-2:
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| 322 | b=True
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| 323 | btics.append(b)
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| 324 | elif nr==4:
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| 325 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False)
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| 326 | for i in range(2*nr):
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| 327 | b=False
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| 328 | if i >= 2*nr-4:
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| 329 | b=True
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| 330 | btics.append(b)
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| 331 | elif nr<7:
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| 332 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
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| 333 | for i in range(2*nr):
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| 334 | if i >= 2*nr-4:
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| 335 | b=True
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| 336 | btics.append(b)
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| 337 | else:
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| [1861] | 338 | asaplog.post()
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| [1819] | 339 | asaplog.push('Only first 6 [if,pol] pairs are plotted.')
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| [1861] | 340 | asaplog.post('WARN')
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| [1819] | 341 | nr=6
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| 342 | for i in range(2*nr):
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| 343 | b=False
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| 344 | if i >= 2*nr-4:
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| 345 | b=True
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| 346 | btics.append(b)
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| 347 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
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| 348 | for i in range(nr):
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| 349 | p.subplot(2*i)
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| 350 | p.color=0
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| 351 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
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| 352 | titles.append(title)
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| 353 | #p.set_axes('title',title,fontsize=40)
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| 354 | ymin=1.0e100
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| 355 | ymax=-1.0e100
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| 356 | nchan=s.nchan()
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| 357 | edge=int(nchan*0.01)
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| 358 | for j in range(4):
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| 359 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
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| 360 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
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| 361 | ymin=min(ymin,spmin)
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| 362 | ymax=max(ymax,spmax)
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| 363 | for j in range(4):
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| 364 | if i==0:
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| 365 | p.set_line(label=keys[j])
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| 366 | else:
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| 367 | p.legend()
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| 368 | p.plot(precal[keys[j]][i])
|
|---|
| 369 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 370 | if not btics[2*i]:
|
|---|
| 371 | p.axes.set_xticks([])
|
|---|
| 372 | p.subplot(2*i+1)
|
|---|
| 373 | p.color=0
|
|---|
| 374 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 375 | titles.append(title)
|
|---|
| 376 | #p.set_axes('title',title)
|
|---|
| 377 | p.legend()
|
|---|
| 378 | ymin=postcal[i][edge:nchan-edge].min()
|
|---|
| 379 | ymax=postcal[i][edge:nchan-edge].max()
|
|---|
| 380 | p.plot(postcal[i])
|
|---|
| 381 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 382 | if not btics[2*i+1]:
|
|---|
| 383 | p.axes.set_xticks([])
|
|---|
| 384 | for i in range(2*nr):
|
|---|
| 385 | p.subplot(i)
|
|---|
| 386 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 387 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 388 | if x.upper() == 'N':
|
|---|
| 389 | p.unmap()
|
|---|
| 390 | del p
|
|---|
| 391 | return scabtab
|
|---|
| 392 | p.unmap()
|
|---|
| 393 | del p
|
|---|
| 394 | ###
|
|---|
| [1391] | 395 | ress._add_history("calps", varlist)
|
|---|
| 396 | return ress
|
|---|
| 397 |
|
|---|
| [1862] | 398 | @asaplog_post_dec
|
|---|
| [1819] | 399 | def calnod(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
|
|---|
| [1391] | 400 | """
|
|---|
| 401 | Do full (but a pair of scans at time) processing of GBT Nod data
|
|---|
| 402 | calibration.
|
|---|
| 403 | Adopted from GBTIDL's getnod
|
|---|
| 404 | Parameters:
|
|---|
| 405 | scantab: scantable
|
|---|
| 406 | scannos: a pair of scan numbers, or the first scan number of the pair
|
|---|
| 407 | smooth: box car smoothing order
|
|---|
| 408 | tsysval: optional user specified Tsys value
|
|---|
| 409 | tauval: optional user specified tau value (not implemented yet)
|
|---|
| 410 | tcalval: optional user specified Tcal value
|
|---|
| 411 | """
|
|---|
| 412 | varlist = vars()
|
|---|
| 413 | from asap._asap import stmath
|
|---|
| [1819] | 414 | from asap._asap import srctype
|
|---|
| [1391] | 415 | stm = stmath()
|
|---|
| 416 | stm._setinsitu(False)
|
|---|
| 417 |
|
|---|
| 418 | # check for the appropriate data
|
|---|
| [1819] | 419 | ## s = scantab.get_scan('*_nod*')
|
|---|
| 420 | ## if s is None:
|
|---|
| 421 | ## msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 422 | ## raise TypeError(msg)
|
|---|
| [1819] | 423 | s = scantab.copy()
|
|---|
| 424 | sel = selector()
|
|---|
| 425 | sel.set_types( srctype.nod )
|
|---|
| 426 | try:
|
|---|
| 427 | s.set_selection( sel )
|
|---|
| 428 | except Exception, e:
|
|---|
| [1391] | 429 | msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 430 | raise TypeError(msg)
|
|---|
| [1819] | 431 | sel.reset()
|
|---|
| 432 | del sel
|
|---|
| 433 | del s
|
|---|
| [1391] | 434 |
|
|---|
| 435 | # need check correspondance of each beam with sig-ref ...
|
|---|
| 436 | # check for timestamps, scan numbers, subscan id (not available in
|
|---|
| 437 | # ASAP data format...). Assume 1st scan of the pair (beam 0 - sig
|
|---|
| 438 | # and beam 1 - ref...)
|
|---|
| 439 | # First scan number of paired scans or list of pairs of
|
|---|
| 440 | # scan numbers (has to have even number of pairs.)
|
|---|
| 441 |
|
|---|
| 442 | #data splitting
|
|---|
| 443 | scan1no = scan2no = 0
|
|---|
| 444 |
|
|---|
| 445 | if len(scannos)==1:
|
|---|
| 446 | scan1no = scannos[0]
|
|---|
| 447 | scan2no = scannos[0]+1
|
|---|
| 448 | pairScans = [scan1no, scan2no]
|
|---|
| 449 | else:
|
|---|
| 450 | #if len(scannos)>2:
|
|---|
| 451 | # msg = "calnod can only process a pair of nod scans at time."
|
|---|
| [1859] | 452 | # raise TypeError(msg)
|
|---|
| [1391] | 453 | #
|
|---|
| 454 | #if len(scannos)==2:
|
|---|
| 455 | # scan1no = scannos[0]
|
|---|
| 456 | # scan2no = scannos[1]
|
|---|
| 457 | pairScans = list(scannos)
|
|---|
| 458 |
|
|---|
| 459 | if tsysval>0.0:
|
|---|
| 460 | if tauval<=0.0:
|
|---|
| 461 | msg = "Need to supply a valid tau to use the supplied Tsys"
|
|---|
| [1859] | 462 | raise TypeError(msg)
|
|---|
| [1391] | 463 | else:
|
|---|
| 464 | scantab.recalc_azel()
|
|---|
| 465 | resspec = scantable(stm._donod(scantab, pairScans, smooth, tsysval,tauval,tcalval))
|
|---|
| [1819] | 466 | ###
|
|---|
| 467 | if verify:
|
|---|
| 468 | # get data
|
|---|
| 469 | import numpy
|
|---|
| 470 | precal={}
|
|---|
| 471 | postcal=[]
|
|---|
| 472 | keys=['','_calon']
|
|---|
| 473 | types=[srctype.nod,srctype.nodcal]
|
|---|
| 474 | ifnos=list(scantab.getifnos())
|
|---|
| 475 | polnos=list(scantab.getpolnos())
|
|---|
| 476 | sel=selector()
|
|---|
| 477 | ss = scantab.copy()
|
|---|
| 478 | for i in range(2):
|
|---|
| 479 | #ss=scantab.get_scan('*'+keys[i])
|
|---|
| 480 | ll=[]
|
|---|
| 481 | ll2=[]
|
|---|
| 482 | for j in range(len(ifnos)):
|
|---|
| 483 | for k in range(len(polnos)):
|
|---|
| 484 | sel.set_ifs(ifnos[j])
|
|---|
| 485 | sel.set_polarizations(polnos[k])
|
|---|
| 486 | sel.set_scans(pairScans[0])
|
|---|
| 487 | sel.set_types(types[i])
|
|---|
| 488 | try:
|
|---|
| 489 | ss.set_selection(sel)
|
|---|
| 490 | except:
|
|---|
| 491 | continue
|
|---|
| 492 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 493 | sel.reset()
|
|---|
| 494 | ss.set_selection()
|
|---|
| 495 | sel.set_ifs(ifnos[j])
|
|---|
| 496 | sel.set_polarizations(polnos[k])
|
|---|
| 497 | sel.set_scans(pairScans[1])
|
|---|
| 498 | sel.set_types(types[i])
|
|---|
| 499 | try:
|
|---|
| 500 | ss.set_selection(sel)
|
|---|
| 501 | except:
|
|---|
| 502 | ll.pop()
|
|---|
| 503 | continue
|
|---|
| 504 | ll2.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 505 | sel.reset()
|
|---|
| 506 | ss.set_selection()
|
|---|
| 507 | key='%s%s' %(pairScans[0],keys[i])
|
|---|
| 508 | precal[key]=ll
|
|---|
| 509 | key='%s%s' %(pairScans[1],keys[i])
|
|---|
| 510 | precal[key]=ll2
|
|---|
| 511 | #del ss
|
|---|
| 512 | keys=precal.keys()
|
|---|
| 513 | for j in range(len(ifnos)):
|
|---|
| 514 | for k in range(len(polnos)):
|
|---|
| 515 | sel.set_ifs(ifnos[j])
|
|---|
| 516 | sel.set_polarizations(polnos[k])
|
|---|
| 517 | sel.set_scans(pairScans[0])
|
|---|
| 518 | try:
|
|---|
| 519 | resspec.set_selection(sel)
|
|---|
| 520 | except:
|
|---|
| 521 | continue
|
|---|
| 522 | postcal.append(numpy.array(resspec._getspectrum(0)))
|
|---|
| 523 | sel.reset()
|
|---|
| 524 | resspec.set_selection()
|
|---|
| 525 | del sel
|
|---|
| 526 | # plot
|
|---|
| [1861] | 527 | asaplog.post()
|
|---|
| [1819] | 528 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
|
|---|
| [1861] | 529 | asaplog.post('WARN')
|
|---|
| [1819] | 530 | p=asaplotgui.asaplotgui()
|
|---|
| 531 | #nr=min(6,len(ifnos)*len(polnos))
|
|---|
| 532 | nr=len(ifnos)*len(polnos)
|
|---|
| 533 | titles=[]
|
|---|
| 534 | btics=[]
|
|---|
| 535 | if nr<4:
|
|---|
| 536 | p.set_panels(rows=nr,cols=2,nplots=2*nr,ganged=False)
|
|---|
| 537 | for i in range(2*nr):
|
|---|
| 538 | b=False
|
|---|
| 539 | if i >= 2*nr-2:
|
|---|
| 540 | b=True
|
|---|
| 541 | btics.append(b)
|
|---|
| 542 | elif nr==4:
|
|---|
| 543 | p.set_panels(rows=2,cols=4,nplots=8,ganged=False)
|
|---|
| 544 | for i in range(2*nr):
|
|---|
| 545 | b=False
|
|---|
| 546 | if i >= 2*nr-4:
|
|---|
| 547 | b=True
|
|---|
| 548 | btics.append(b)
|
|---|
| 549 | elif nr<7:
|
|---|
| 550 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
|
|---|
| 551 | for i in range(2*nr):
|
|---|
| 552 | if i >= 2*nr-4:
|
|---|
| 553 | b=True
|
|---|
| 554 | btics.append(b)
|
|---|
| 555 | else:
|
|---|
| [1861] | 556 | asaplog.post()
|
|---|
| [1819] | 557 | asaplog.push('Only first 6 [if,pol] pairs are plotted.')
|
|---|
| [1861] | 558 | asaplog.post('WARN')
|
|---|
| [1819] | 559 | nr=6
|
|---|
| 560 | for i in range(2*nr):
|
|---|
| 561 | b=False
|
|---|
| 562 | if i >= 2*nr-4:
|
|---|
| 563 | b=True
|
|---|
| 564 | btics.append(b)
|
|---|
| 565 | p.set_panels(rows=3,cols=4,nplots=2*nr,ganged=False)
|
|---|
| 566 | for i in range(nr):
|
|---|
| 567 | p.subplot(2*i)
|
|---|
| 568 | p.color=0
|
|---|
| 569 | title='raw data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 570 | titles.append(title)
|
|---|
| 571 | #p.set_axes('title',title,fontsize=40)
|
|---|
| 572 | ymin=1.0e100
|
|---|
| 573 | ymax=-1.0e100
|
|---|
| 574 | nchan=scantab.nchan()
|
|---|
| 575 | edge=int(nchan*0.01)
|
|---|
| 576 | for j in range(4):
|
|---|
| 577 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 578 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 579 | ymin=min(ymin,spmin)
|
|---|
| 580 | ymax=max(ymax,spmax)
|
|---|
| 581 | for j in range(4):
|
|---|
| 582 | if i==0:
|
|---|
| 583 | p.set_line(label=keys[j])
|
|---|
| 584 | else:
|
|---|
| 585 | p.legend()
|
|---|
| 586 | p.plot(precal[keys[j]][i])
|
|---|
| 587 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 588 | if not btics[2*i]:
|
|---|
| 589 | p.axes.set_xticks([])
|
|---|
| 590 | p.subplot(2*i+1)
|
|---|
| 591 | p.color=0
|
|---|
| 592 | title='cal data IF%s POL%s' % (ifnos[int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 593 | titles.append(title)
|
|---|
| 594 | #p.set_axes('title',title)
|
|---|
| 595 | p.legend()
|
|---|
| 596 | ymin=postcal[i][edge:nchan-edge].min()
|
|---|
| 597 | ymax=postcal[i][edge:nchan-edge].max()
|
|---|
| 598 | p.plot(postcal[i])
|
|---|
| 599 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 600 | if not btics[2*i+1]:
|
|---|
| 601 | p.axes.set_xticks([])
|
|---|
| 602 | for i in range(2*nr):
|
|---|
| 603 | p.subplot(i)
|
|---|
| 604 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 605 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 606 | if x.upper() == 'N':
|
|---|
| 607 | p.unmap()
|
|---|
| 608 | del p
|
|---|
| 609 | return scabtab
|
|---|
| 610 | p.unmap()
|
|---|
| 611 | del p
|
|---|
| 612 | ###
|
|---|
| [1391] | 613 | resspec._add_history("calnod",varlist)
|
|---|
| 614 | return resspec
|
|---|
| 615 |
|
|---|
| [1862] | 616 | @asaplog_post_dec
|
|---|
| [1819] | 617 | def calfs(scantab, scannos=[], smooth=1, tsysval=0.0, tauval=0.0, tcalval=0.0, verify=False):
|
|---|
| [1391] | 618 | """
|
|---|
| 619 | Calibrate GBT frequency switched data.
|
|---|
| 620 | Adopted from GBTIDL getfs.
|
|---|
| 621 | Currently calfs identify the scans as frequency switched data if they
|
|---|
| 622 | contain '_fs' in the source name. The data must contains 'CAL' signal
|
|---|
| 623 | on/off in each integration. To identify 'CAL' on state, the word, 'calon'
|
|---|
| 624 | need to be present in the source name field.
|
|---|
| 625 | (GBT MS data reading via scantable automatically append these
|
|---|
| 626 | id names to the source names)
|
|---|
| 627 |
|
|---|
| 628 | Parameters:
|
|---|
| 629 | scantab: scantable
|
|---|
| 630 | scannos: list of scan numbers
|
|---|
| 631 | smooth: optional box smoothing order for the reference
|
|---|
| 632 | (default is 1 = no smoothing)
|
|---|
| 633 | tsysval: optional user specified Tsys (default is 0.0,
|
|---|
| 634 | use Tsys in the data)
|
|---|
| 635 | tauval: optional user specified Tau
|
|---|
| 636 | """
|
|---|
| 637 | varlist = vars()
|
|---|
| 638 | from asap._asap import stmath
|
|---|
| [1819] | 639 | from asap._asap import srctype
|
|---|
| [1391] | 640 | stm = stmath()
|
|---|
| 641 | stm._setinsitu(False)
|
|---|
| 642 |
|
|---|
| 643 | # check = scantab.get_scan('*_fs*')
|
|---|
| 644 | # if check is None:
|
|---|
| 645 | # msg = "The input data appear to contain no Nod observing mode data."
|
|---|
| [1859] | 646 | # raise TypeError(msg)
|
|---|
| [1391] | 647 | s = scantab.get_scan(scannos)
|
|---|
| 648 | del scantab
|
|---|
| 649 |
|
|---|
| 650 | resspec = scantable(stm._dofs(s, scannos, smooth, tsysval,tauval,tcalval))
|
|---|
| [1819] | 651 | ###
|
|---|
| 652 | if verify:
|
|---|
| 653 | # get data
|
|---|
| 654 | ssub = s.get_scan(scannos)
|
|---|
| 655 | #ssubon = ssub.get_scan('*calon')
|
|---|
| 656 | #ssuboff = ssub.get_scan('*[^calon]')
|
|---|
| 657 | sel = selector()
|
|---|
| 658 | sel.set_types( [srctype.foncal,srctype.foffcal] )
|
|---|
| 659 | ssub.set_selection( sel )
|
|---|
| 660 | ssubon = ssub.copy()
|
|---|
| 661 | ssub.set_selection()
|
|---|
| 662 | sel.reset()
|
|---|
| 663 | sel.set_types( [srctype.fson,srctype.fsoff] )
|
|---|
| 664 | ssub.set_selection( sel )
|
|---|
| 665 | ssuboff = ssub.copy()
|
|---|
| 666 | ssub.set_selection()
|
|---|
| 667 | sel.reset()
|
|---|
| 668 | import numpy
|
|---|
| 669 | precal={}
|
|---|
| 670 | postcal=[]
|
|---|
| 671 | keys=['fs','fs_calon','fsr','fsr_calon']
|
|---|
| 672 | types=[srctype.fson,srctype.foncal,srctype.fsoff,srctype.foffcal]
|
|---|
| 673 | ifnos=list(ssub.getifnos())
|
|---|
| 674 | polnos=list(ssub.getpolnos())
|
|---|
| 675 | for i in range(2):
|
|---|
| 676 | #ss=ssuboff.get_scan('*'+keys[2*i])
|
|---|
| 677 | ll=[]
|
|---|
| 678 | for j in range(len(ifnos)):
|
|---|
| 679 | for k in range(len(polnos)):
|
|---|
| 680 | sel.set_ifs(ifnos[j])
|
|---|
| 681 | sel.set_polarizations(polnos[k])
|
|---|
| 682 | sel.set_types(types[2*i])
|
|---|
| 683 | try:
|
|---|
| 684 | #ss.set_selection(sel)
|
|---|
| 685 | ssuboff.set_selection(sel)
|
|---|
| 686 | except:
|
|---|
| 687 | continue
|
|---|
| 688 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 689 | sel.reset()
|
|---|
| 690 | #ss.set_selection()
|
|---|
| 691 | ssuboff.set_selection()
|
|---|
| 692 | precal[keys[2*i]]=ll
|
|---|
| 693 | #del ss
|
|---|
| 694 | #ss=ssubon.get_scan('*'+keys[2*i+1])
|
|---|
| 695 | ll=[]
|
|---|
| 696 | for j in range(len(ifnos)):
|
|---|
| 697 | for k in range(len(polnos)):
|
|---|
| 698 | sel.set_ifs(ifnos[j])
|
|---|
| 699 | sel.set_polarizations(polnos[k])
|
|---|
| 700 | sel.set_types(types[2*i+1])
|
|---|
| 701 | try:
|
|---|
| 702 | #ss.set_selection(sel)
|
|---|
| 703 | ssubon.set_selection(sel)
|
|---|
| 704 | except:
|
|---|
| 705 | continue
|
|---|
| 706 | ll.append(numpy.array(ss._getspectrum(0)))
|
|---|
| 707 | sel.reset()
|
|---|
| 708 | #ss.set_selection()
|
|---|
| 709 | ssubon.set_selection()
|
|---|
| 710 | precal[keys[2*i+1]]=ll
|
|---|
| 711 | #del ss
|
|---|
| 712 | #sig=resspec.get_scan('*_fs')
|
|---|
| 713 | #ref=resspec.get_scan('*_fsr')
|
|---|
| 714 | sel.set_types( srctype.fson )
|
|---|
| 715 | resspec.set_selection( sel )
|
|---|
| 716 | sig=resspec.copy()
|
|---|
| 717 | resspec.set_selection()
|
|---|
| 718 | sel.reset()
|
|---|
| 719 | sel.set_type( srctype.fsoff )
|
|---|
| 720 | resspec.set_selection( sel )
|
|---|
| 721 | ref=resspec.copy()
|
|---|
| 722 | resspec.set_selection()
|
|---|
| 723 | sel.reset()
|
|---|
| 724 | for k in range(len(polnos)):
|
|---|
| 725 | for j in range(len(ifnos)):
|
|---|
| 726 | sel.set_ifs(ifnos[j])
|
|---|
| 727 | sel.set_polarizations(polnos[k])
|
|---|
| 728 | try:
|
|---|
| 729 | sig.set_selection(sel)
|
|---|
| 730 | postcal.append(numpy.array(sig._getspectrum(0)))
|
|---|
| 731 | except:
|
|---|
| 732 | ref.set_selection(sel)
|
|---|
| 733 | postcal.append(numpy.array(ref._getspectrum(0)))
|
|---|
| 734 | sel.reset()
|
|---|
| 735 | resspec.set_selection()
|
|---|
| 736 | del sel
|
|---|
| 737 | # plot
|
|---|
| [1861] | 738 | asaplog.post()
|
|---|
| [1819] | 739 | asaplog.push('Plot only first spectrum for each [if,pol] pairs to verify calibration.')
|
|---|
| [1861] | 740 | asaplog.post('WARN')
|
|---|
| [1819] | 741 | p=asaplotgui.asaplotgui()
|
|---|
| 742 | #nr=min(6,len(ifnos)*len(polnos))
|
|---|
| 743 | nr=len(ifnos)/2*len(polnos)
|
|---|
| 744 | titles=[]
|
|---|
| 745 | btics=[]
|
|---|
| 746 | if nr>3:
|
|---|
| [1861] | 747 | asaplog.post()
|
|---|
| [1819] | 748 | asaplog.push('Only first 3 [if,pol] pairs are plotted.')
|
|---|
| [1861] | 749 | asaplog.post('WARN')
|
|---|
| [1819] | 750 | nr=3
|
|---|
| 751 | p.set_panels(rows=nr,cols=3,nplots=3*nr,ganged=False)
|
|---|
| 752 | for i in range(3*nr):
|
|---|
| 753 | b=False
|
|---|
| 754 | if i >= 3*nr-3:
|
|---|
| 755 | b=True
|
|---|
| 756 | btics.append(b)
|
|---|
| 757 | for i in range(nr):
|
|---|
| 758 | p.subplot(3*i)
|
|---|
| 759 | p.color=0
|
|---|
| 760 | 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)])
|
|---|
| 761 | titles.append(title)
|
|---|
| 762 | #p.set_axes('title',title,fontsize=40)
|
|---|
| 763 | ymin=1.0e100
|
|---|
| 764 | ymax=-1.0e100
|
|---|
| 765 | nchan=s.nchan()
|
|---|
| 766 | edge=int(nchan*0.01)
|
|---|
| 767 | for j in range(4):
|
|---|
| 768 | spmin=min(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 769 | spmax=max(precal[keys[j]][i][edge:nchan-edge])
|
|---|
| 770 | ymin=min(ymin,spmin)
|
|---|
| 771 | ymax=max(ymax,spmax)
|
|---|
| 772 | for j in range(4):
|
|---|
| 773 | if i==0:
|
|---|
| 774 | p.set_line(label=keys[j])
|
|---|
| 775 | else:
|
|---|
| 776 | p.legend()
|
|---|
| 777 | p.plot(precal[keys[j]][i])
|
|---|
| 778 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 779 | if not btics[3*i]:
|
|---|
| 780 | p.axes.set_xticks([])
|
|---|
| 781 | p.subplot(3*i+1)
|
|---|
| 782 | p.color=0
|
|---|
| 783 | title='sig data IF%s POL%s' % (ifnos[2*int(i/len(polnos))],polnos[i%len(polnos)])
|
|---|
| 784 | titles.append(title)
|
|---|
| 785 | #p.set_axes('title',title)
|
|---|
| 786 | p.legend()
|
|---|
| 787 | ymin=postcal[2*i][edge:nchan-edge].min()
|
|---|
| 788 | ymax=postcal[2*i][edge:nchan-edge].max()
|
|---|
| 789 | p.plot(postcal[2*i])
|
|---|
| 790 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 791 | if not btics[3*i+1]:
|
|---|
| 792 | p.axes.set_xticks([])
|
|---|
| 793 | p.subplot(3*i+2)
|
|---|
| 794 | p.color=0
|
|---|
| 795 | title='ref data IF%s POL%s' % (ifnos[2*int(i/len(polnos))+1],polnos[i%len(polnos)])
|
|---|
| 796 | titles.append(title)
|
|---|
| 797 | #p.set_axes('title',title)
|
|---|
| 798 | p.legend()
|
|---|
| 799 | ymin=postcal[2*i+1][edge:nchan-edge].min()
|
|---|
| 800 | ymax=postcal[2*i+1][edge:nchan-edge].max()
|
|---|
| 801 | p.plot(postcal[2*i+1])
|
|---|
| 802 | p.axes.set_ylim(ymin-0.1*abs(ymin),ymax+0.1*abs(ymax))
|
|---|
| 803 | if not btics[3*i+2]:
|
|---|
| 804 | p.axes.set_xticks([])
|
|---|
| 805 | for i in range(3*nr):
|
|---|
| 806 | p.subplot(i)
|
|---|
| 807 | p.set_axes('title',titles[i],fontsize='medium')
|
|---|
| 808 | x=raw_input('Accept calibration ([y]/n): ' )
|
|---|
| 809 | if x.upper() == 'N':
|
|---|
| 810 | p.unmap()
|
|---|
| 811 | del p
|
|---|
| 812 | return scabtab
|
|---|
| 813 | p.unmap()
|
|---|
| 814 | del p
|
|---|
| 815 | ###
|
|---|
| [1391] | 816 | resspec._add_history("calfs",varlist)
|
|---|
| 817 | return resspec
|
|---|
| 818 |
|
|---|
| [1862] | 819 | @asaplog_post_dec
|
|---|
| [918] | 820 | def merge(*args):
|
|---|
| [945] | 821 | """
|
|---|
| [1362] | 822 | Merge a list of scanatables, or comma-sperated scantables into one
|
|---|
| 823 | scnatble.
|
|---|
| 824 | Parameters:
|
|---|
| 825 | A list [scan1, scan2] or scan1, scan2.
|
|---|
| 826 | Example:
|
|---|
| 827 | myscans = [scan1, scan2]
|
|---|
| [1589] | 828 | allscans = merge(myscans)
|
|---|
| 829 | # or equivalent
|
|---|
| 830 | sameallscans = merge(scan1, scan2)
|
|---|
| [945] | 831 | """
|
|---|
| [918] | 832 | varlist = vars()
|
|---|
| 833 | if isinstance(args[0],list):
|
|---|
| 834 | lst = tuple(args[0])
|
|---|
| 835 | elif isinstance(args[0],tuple):
|
|---|
| 836 | lst = args[0]
|
|---|
| 837 | else:
|
|---|
| 838 | lst = tuple(args)
|
|---|
| 839 | varlist["args"] = "%d scantables" % len(lst)
|
|---|
| 840 | # need special formatting her for history...
|
|---|
| 841 | from asap._asap import stmath
|
|---|
| 842 | stm = stmath()
|
|---|
| 843 | for s in lst:
|
|---|
| 844 | if not isinstance(s,scantable):
|
|---|
| 845 | msg = "Please give a list of scantables"
|
|---|
| [1859] | 846 | raise TypeError(msg)
|
|---|
| [918] | 847 | s = scantable(stm._merge(lst))
|
|---|
| 848 | s._add_history("merge", varlist)
|
|---|
| 849 | return s
|
|---|
| [1819] | 850 |
|
|---|
| [1862] | 851 | @asaplog_post_dec
|
|---|
| [1819] | 852 | def calibrate( scantab, scannos=[], calmode='none', verify=None ):
|
|---|
| 853 | """
|
|---|
| 854 | Calibrate data.
|
|---|
| [1826] | 855 |
|
|---|
| [1819] | 856 | Parameters:
|
|---|
| 857 | scantab: scantable
|
|---|
| 858 | scannos: list of scan number
|
|---|
| 859 | calmode: calibration mode
|
|---|
| [1826] | 860 | verify: verify calibration
|
|---|
| [1819] | 861 | """
|
|---|
| 862 | antname = scantab.get_antennaname()
|
|---|
| 863 | if ( calmode == 'nod' ):
|
|---|
| 864 | asaplog.push( 'Calibrating nod data.' )
|
|---|
| 865 | scal = calnod( scantab, scannos=scannos, verify=verify )
|
|---|
| 866 | elif ( calmode == 'quotient' ):
|
|---|
| 867 | asaplog.push( 'Calibrating using quotient.' )
|
|---|
| 868 | scal = scantab.auto_quotient( verify=verify )
|
|---|
| 869 | elif ( calmode == 'ps' ):
|
|---|
| 870 | asaplog.push( 'Calibrating %s position-switched data.' % antname )
|
|---|
| 871 | if ( antname.find( 'APEX' ) != -1 ):
|
|---|
| 872 | scal = apexcal( scantab, scannos, calmode, verify )
|
|---|
| 873 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1 ):
|
|---|
| 874 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 875 | else:
|
|---|
| 876 | scal = calps( scantab, scannos=scannos, verify=verify )
|
|---|
| 877 | elif ( calmode == 'fs' or calmode == 'fsotf' ):
|
|---|
| 878 | asaplog.push( 'Calibrating %s frequency-switched data.' % antname )
|
|---|
| 879 | if ( antname.find( 'APEX' ) != -1 ):
|
|---|
| 880 | scal = apexcal( scantab, scannos, calmode, verify )
|
|---|
| 881 | elif ( antname.find( 'ALMA' ) != -1 or antname.find( 'OSF' ) != -1 ):
|
|---|
| 882 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 883 | else:
|
|---|
| 884 | scal = calfs( scantab, scannos=scannos, verify=verify )
|
|---|
| 885 | elif ( calmode == 'otf' ):
|
|---|
| 886 | asaplog.push( 'Calibrating %s On-The-Fly data.' % antname )
|
|---|
| 887 | scal = almacal( scantab, scannos, calmode, verify )
|
|---|
| 888 | else:
|
|---|
| 889 | asaplog.push( 'No calibration.' )
|
|---|
| 890 | scal = scantab.copy()
|
|---|
| 891 |
|
|---|
| [1826] | 892 | return scal
|
|---|
| [1819] | 893 |
|
|---|
| 894 | def apexcal( scantab, scannos=[], calmode='none', verify=False ):
|
|---|
| 895 | """
|
|---|
| 896 | Calibrate APEX data
|
|---|
| 897 |
|
|---|
| 898 | Parameters:
|
|---|
| 899 | scantab: scantable
|
|---|
| 900 | scannos: list of scan number
|
|---|
| 901 | calmode: calibration mode
|
|---|
| 902 |
|
|---|
| [1826] | 903 | verify: verify calibration
|
|---|
| [1819] | 904 | """
|
|---|
| 905 | from asap._asap import stmath
|
|---|
| 906 | stm = stmath()
|
|---|
| 907 | antname = scantab.get_antennaname()
|
|---|
| 908 | ssub = scantab.get_scan( scannos )
|
|---|
| 909 | scal = scantable( stm.cwcal( ssub, calmode, antname ) )
|
|---|
| 910 | return scal
|
|---|
| 911 |
|
|---|
| 912 | def almacal( scantab, scannos=[], calmode='none', verify=False ):
|
|---|
| 913 | """
|
|---|
| 914 | Calibrate ALMA data
|
|---|
| 915 |
|
|---|
| 916 | Parameters:
|
|---|
| 917 | scantab: scantable
|
|---|
| 918 | scannos: list of scan number
|
|---|
| 919 | calmode: calibration mode
|
|---|
| 920 |
|
|---|
| [1826] | 921 | verify: verify calibration
|
|---|
| [1819] | 922 | """
|
|---|
| 923 | from asap._asap import stmath
|
|---|
| 924 | stm = stmath()
|
|---|
| 925 | ssub = scantab.get_scan( scannos )
|
|---|
| 926 | scal = scantable( stm.almacal( ssub, calmode ) )
|
|---|
| 927 | return scal
|
|---|
| 928 |
|
|---|
| [1862] | 929 | @asaplog_post_dec
|
|---|
| [1819] | 930 | def splitant(filename, outprefix='',overwrite=False):
|
|---|
| 931 | """
|
|---|
| 932 | Split Measurement set by antenna name, save data as a scantables,
|
|---|
| 933 | and return a list of filename.
|
|---|
| [1826] | 934 | Notice this method can only be available from CASA.
|
|---|
| [1819] | 935 | Prameter
|
|---|
| [1826] | 936 | filename: the name of Measurement set to be read.
|
|---|
| [1819] | 937 | outprefix: the prefix of output scantable name.
|
|---|
| 938 | the names of output scantable will be
|
|---|
| 939 | outprefix.antenna1, outprefix.antenna2, ....
|
|---|
| 940 | If not specified, outprefix = filename is assumed.
|
|---|
| 941 | overwrite If the file should be overwritten if it exists.
|
|---|
| 942 | The default False is to return with warning
|
|---|
| 943 | without writing the output. USE WITH CARE.
|
|---|
| [1826] | 944 |
|
|---|
| [1819] | 945 | """
|
|---|
| 946 | # Import the table toolkit from CASA
|
|---|
| [1859] | 947 | import casac
|
|---|
| 948 | tbtool = casac.homefinder.find_home_by_name('tableHome')
|
|---|
| 949 | tb = tbtool.create()
|
|---|
| [1819] | 950 | # Check the input filename
|
|---|
| 951 | if isinstance(filename, str):
|
|---|
| 952 | import os.path
|
|---|
| 953 | filename = os.path.expandvars(filename)
|
|---|
| 954 | filename = os.path.expanduser(filename)
|
|---|
| 955 | if not os.path.exists(filename):
|
|---|
| 956 | s = "File '%s' not found." % (filename)
|
|---|
| 957 | raise IOError(s)
|
|---|
| 958 | # check if input file is MS
|
|---|
| [1883] | 959 | #if not os.path.isdir(filename) \
|
|---|
| 960 | # or not os.path.exists(filename+'/ANTENNA') \
|
|---|
| 961 | # or not os.path.exists(filename+'/table.f1'):
|
|---|
| 962 | if not is_ms(filename):
|
|---|
| [1819] | 963 | s = "File '%s' is not a Measurement set." % (filename)
|
|---|
| 964 | raise IOError(s)
|
|---|
| 965 | else:
|
|---|
| 966 | s = "The filename should be string. "
|
|---|
| 967 | raise TypeError(s)
|
|---|
| 968 | # Check out put file name
|
|---|
| 969 | outname=''
|
|---|
| 970 | if len(outprefix) > 0: prefix=outprefix+'.'
|
|---|
| 971 | else:
|
|---|
| 972 | prefix=filename.rstrip('/')
|
|---|
| 973 | # Now do the actual splitting.
|
|---|
| [1880] | 974 | # 2010/08/20 TN
|
|---|
| 975 | # The antenna parameter for scantable constructor is ineffective at the moemnt.
|
|---|
| 976 | # Thus, we should go back to original implementation of splitant.
|
|---|
| 977 | ## outfiles=[]
|
|---|
| 978 | ## tb.open(tablename=filename+'/ANTENNA',nomodify=True)
|
|---|
| 979 | ## nant=tb.nrows()
|
|---|
| 980 | ## antnames=tb.getcol('NAME',0,nant,1)
|
|---|
| 981 | ## antpos=tb.getcol('POSITION',0,nant,1).transpose()
|
|---|
| 982 | ## tb.close()
|
|---|
| 983 | ## tb.open(tablename=filename,nomodify=True)
|
|---|
| 984 | ## ant1=tb.getcol('ANTENNA1',0,-1,1)
|
|---|
| 985 | ## tb.close()
|
|---|
| 986 | ## for antid in set(ant1):
|
|---|
| 987 | ## scan=scantable(filename,average=False,getpt=True,antenna=int(antid))
|
|---|
| 988 | ## outname=prefix+antnames[antid]+'.asap'
|
|---|
| 989 | ## scan.save(outname,format='ASAP',overwrite=overwrite)
|
|---|
| 990 | ## del scan
|
|---|
| 991 | ## outfiles.append(outname)
|
|---|
| [1819] | 992 | outfiles=[]
|
|---|
| 993 | tb.open(tablename=filename+'/ANTENNA',nomodify=True)
|
|---|
| 994 | nant=tb.nrows()
|
|---|
| 995 | antnames=tb.getcol('NAME',0,nant,1)
|
|---|
| 996 | tb.close()
|
|---|
| 997 | tb.open(tablename=filename,nomodify=True)
|
|---|
| 998 | ant1=tb.getcol('ANTENNA1',0,-1,1)
|
|---|
| [1883] | 999 | tb.close()
|
|---|
| [1880] | 1000 | tmpname='asapmath.splitant.tmp'
|
|---|
| [1819] | 1001 | for antid in set(ant1):
|
|---|
| [1883] | 1002 | tb.open(tablename=filename,nomodify=True)
|
|---|
| 1003 | #tbsel=tb.query('ANTENNA1 == %s && ANTENNA2 == %s'%(antid,antid))
|
|---|
| 1004 | #tbsel.copy(tmpname,deep=True)
|
|---|
| 1005 | tbsel=tb.query('ANTENNA1 == %s && ANTENNA2 == %s'%(antid,antid),tmpname)
|
|---|
| [1880] | 1006 | tbsel.close()
|
|---|
| [1883] | 1007 | tb.close()
|
|---|
| [1880] | 1008 | del tbsel
|
|---|
| 1009 | scan=scantable(tmpname,average=False,getpt=True,antenna=int(antid))
|
|---|
| [1819] | 1010 | outname=prefix+antnames[antid]+'.asap'
|
|---|
| 1011 | scan.save(outname,format='ASAP',overwrite=overwrite)
|
|---|
| 1012 | del scan
|
|---|
| 1013 | outfiles.append(outname)
|
|---|
| [1880] | 1014 | os.system('rm -rf '+tmpname)
|
|---|
| 1015 | tb.close()
|
|---|
| 1016 | del tb
|
|---|
| [1819] | 1017 | return outfiles
|
|---|
| 1018 |
|
|---|
| [1862] | 1019 | @asaplog_post_dec
|
|---|
| [1819] | 1020 | def _array2dOp( scan, value, mode="ADD", tsys=False ):
|
|---|
| 1021 | """
|
|---|
| 1022 | This function is workaround on the basic operation of scantable
|
|---|
| 1023 | with 2 dimensional float list.
|
|---|
| 1024 |
|
|---|
| 1025 | scan: scantable operand
|
|---|
| 1026 | value: float list operand
|
|---|
| 1027 | mode: operation mode (ADD, SUB, MUL, DIV)
|
|---|
| [1826] | 1028 | tsys: if True, operate tsys as well
|
|---|
| [1819] | 1029 | """
|
|---|
| 1030 | nrow = scan.nrow()
|
|---|
| 1031 | s = None
|
|---|
| 1032 | if len( value ) == 1:
|
|---|
| 1033 | from asap._asap import stmath
|
|---|
| 1034 | stm = stmath()
|
|---|
| 1035 | s = scantable( stm._arrayop( scan.copy(), value[0], mode, tsys ) )
|
|---|
| 1036 | del stm
|
|---|
| 1037 | elif len( value ) != nrow:
|
|---|
| [1859] | 1038 | raise ValueError( 'len(value) must be 1 or conform to scan.nrow()' )
|
|---|
| [1819] | 1039 | else:
|
|---|
| 1040 | from asap._asap import stmath
|
|---|
| 1041 | stm = stmath()
|
|---|
| [1826] | 1042 | # insitu must be True
|
|---|
| [1819] | 1043 | stm._setinsitu( True )
|
|---|
| 1044 | s = scan.copy()
|
|---|
| 1045 | sel = selector()
|
|---|
| 1046 | for irow in range( nrow ):
|
|---|
| 1047 | sel.set_rows( irow )
|
|---|
| 1048 | s.set_selection( sel )
|
|---|
| 1049 | if len( value[irow] ) == 1:
|
|---|
| 1050 | stm._unaryop( s, value[irow][0], mode, tsys )
|
|---|
| 1051 | else:
|
|---|
| 1052 | stm._arrayop( s, value[irow], mode, tsys, 'channel' )
|
|---|
| 1053 | s.set_selection()
|
|---|
| 1054 | sel.reset()
|
|---|
| 1055 | del sel
|
|---|
| 1056 | del stm
|
|---|
| 1057 | return s
|
|---|
