| [876] | 1 | from asap._asap import Scantable
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| [226] | 2 | from asap import rcParams
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| [976] | 3 | from asap import print_log, asaplog
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| [946] | 4 | from asap import selector
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| [189] | 5 | from numarray import ones,zeros
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| [102] | 6 | import sys
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| 7 |
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| [876] | 8 | class scantable(Scantable):
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| [102] | 9 | """
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| 10 | The ASAP container for scans
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| 11 | """
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| [710] | 12 |
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| [484] | 13 | def __init__(self, filename, average=None, unit=None):
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| [102] | 14 | """
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| 15 | Create a scantable from a saved one or make a reference
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| 16 | Parameters:
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| [181] | 17 | filename: the name of an asap table on disk
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| 18 | or
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| 19 | the name of a rpfits/sdfits/ms file
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| 20 | (integrations within scans are auto averaged
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| 21 | and the whole file is read)
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| 22 | or
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| 23 | [advanced] a reference to an existing
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| [102] | 24 | scantable
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| [484] | 25 | average: average all integrations withinb a scan on read.
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| 26 | The default (True) is taken from .asaprc.
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| 27 | unit: brightness unit; must be consistent with K or Jy.
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| [340] | 28 | Over-rides the default selected by the reader
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| 29 | (input rpfits/sdfits/ms) or replaces the value
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| 30 | in existing scantables
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| [710] | 31 | """
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| [976] | 32 | if average is None:
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| [710] | 33 | average = rcParams['scantable.autoaverage']
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| [484] | 34 | varlist = vars()
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| [876] | 35 | from asap._asap import stmath
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| 36 | self._math = stmath()
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| 37 | if isinstance(filename, Scantable):
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| 38 | Scantable.__init__(self, filename)
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| [181] | 39 | else:
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| [976] | 40 | if isinstance(filename,str):
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| 41 | import os.path
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| 42 | filename = os.path.expandvars(filename)
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| 43 | filename = os.path.expanduser(filename)
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| 44 | if not os.path.exists(filename):
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| 45 | s = "File '%s' not found." % (filename)
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| [718] | 46 | if rcParams['verbose']:
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| [976] | 47 | asaplog.push(s)
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| 48 | print asaplog.pop().strip()
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| [718] | 49 | return
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| [976] | 50 | raise IOError(s)
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| 51 | if os.path.isdir(filename):
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| 52 | # crude check if asap table
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| 53 | if os.path.exists(filename+'/table.info'):
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| 54 | Scantable.__init__(self, filename, "memory")
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| 55 | if unit is not None:
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| 56 | self.set_fluxunit(unit)
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| 57 | self.set_freqframe(rcParams['scantable.freqframe'])
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| [718] | 58 | else:
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| [976] | 59 | msg = "The given file '%s'is not a valid asap table." % (filename)
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| 60 | if rcParams['verbose']:
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| 61 | print msg
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| 62 | return
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| 63 | else:
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| 64 | raise IOError(msg)
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| [226] | 65 | else:
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| [976] | 66 | self._fill([filename],unit, average)
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| 67 | elif (isinstance(filename,list) or isinstance(filename,tuple)) \
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| 68 | and isinstance(filename[-1], str):
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| 69 | self._fill(filename, unit, average)
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| [714] | 70 | print_log()
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| [102] | 71 |
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| [876] | 72 | def save(self, name=None, format=None, overwrite=False):
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| [116] | 73 | """
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| [710] | 74 | Store the scantable on disk. This can be an asap (aips++) Table, SDFITS,
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| [280] | 75 | Image FITS or MS2 format.
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| [116] | 76 | Parameters:
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| [196] | 77 | name: the name of the outputfile. For format="FITS" this
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| [489] | 78 | is the directory file name into which all the files
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| [497] | 79 | will be written (default is 'asap_FITS'). For format
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| 80 | "ASCII" this is the root file name (data in 'name'.txt
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| 81 | and header in 'name'_header.txt)
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| [116] | 82 | format: an optional file format. Default is ASAP.
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| [280] | 83 | Allowed are - 'ASAP' (save as ASAP [aips++] Table),
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| [194] | 84 | 'SDFITS' (save as SDFITS file)
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| [710] | 85 | 'FITS' (saves each row as a FITS Image)
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| [200] | 86 | 'ASCII' (saves as ascii text file)
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| [226] | 87 | 'MS2' (saves as an aips++
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| 88 | MeasurementSet V2)
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| [411] | 89 | overwrite: If the file should be overwritten if it exists.
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| [256] | 90 | The default False is to return with warning
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| [411] | 91 | without writing the output. USE WITH CARE.
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| [116] | 92 | Example:
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| 93 | scan.save('myscan.asap')
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| 94 | scan.save('myscan.sdfits','SDFITS')
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| 95 | """
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| [411] | 96 | from os import path
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| [226] | 97 | if format is None: format = rcParams['scantable.save']
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| [256] | 98 | suffix = '.'+format.lower()
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| 99 | if name is None or name =="":
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| 100 | name = 'scantable'+suffix
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| [718] | 101 | from asap import asaplog
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| 102 | msg = "No filename given. Using default name %s..." % name
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| 103 | asaplog.push(msg)
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| [411] | 104 | name = path.expandvars(name)
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| [256] | 105 | if path.isfile(name) or path.isdir(name):
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| 106 | if not overwrite:
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| [718] | 107 | msg = "File %s exists." % name
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| 108 | if rcParams['verbose']:
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| 109 | print msg
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| 110 | return
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| 111 | else:
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| 112 | raise IOError(msg)
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| [451] | 113 | format2 = format.upper()
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| 114 | if format2 == 'ASAP':
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| [116] | 115 | self._save(name)
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| 116 | else:
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| [989] | 117 | from asap._asap import stwriter as stw
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| 118 | w = stw(format2)
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| 119 | w.write(self, name)
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| [718] | 120 | print_log()
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| [116] | 121 | return
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| 122 |
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| [102] | 123 | def copy(self):
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| 124 | """
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| 125 | Return a copy of this scantable.
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| 126 | Parameters:
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| [113] | 127 | none
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| [102] | 128 | Example:
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| 129 | copiedscan = scan.copy()
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| 130 | """
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| [876] | 131 | sd = scantable(Scantable._copy(self))
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| [113] | 132 | return sd
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| 133 |
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| [102] | 134 | def get_scan(self, scanid=None):
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| 135 | """
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| 136 | Return a specific scan (by scanno) or collection of scans (by
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| 137 | source name) in a new scantable.
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| 138 | Parameters:
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| [513] | 139 | scanid: a (list of) scanno or a source name, unix-style
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| 140 | patterns are accepted for source name matching, e.g.
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| 141 | '*_R' gets all 'ref scans
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| [102] | 142 | Example:
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| [513] | 143 | # get all scans containing the source '323p459'
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| 144 | newscan = scan.get_scan('323p459')
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| 145 | # get all 'off' scans
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| 146 | refscans = scan.get_scan('*_R')
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| 147 | # get a susbset of scans by scanno (as listed in scan.summary())
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| 148 | newscan = scan.get_scan([0,2,7,10])
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| [102] | 149 | """
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| 150 | if scanid is None:
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| [718] | 151 | if rcParams['verbose']:
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| 152 | print "Please specify a scan no or name to retrieve from the scantable"
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| 153 | return
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| 154 | else:
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| 155 | raise RuntimeError("No scan given")
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| 156 |
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| [102] | 157 | try:
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| [946] | 158 | bsel = self.get_selection()
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| 159 | sel = selector()
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| [102] | 160 | if type(scanid) is str:
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| [946] | 161 | sel.set_name(scanid)
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| 162 | self.set_selection(bsel+sel)
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| [876] | 163 | scopy = self._copy()
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| [946] | 164 | self.set_selection(bsel)
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| [876] | 165 | return scantable(scopy)
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| [102] | 166 | elif type(scanid) is int:
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| [946] | 167 | sel.set_scans([scanid])
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| 168 | self.set_selection(bsel+sel)
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| [876] | 169 | scopy = self._copy()
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| [946] | 170 | self.set_selection(bsel)
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| [876] | 171 | return scantable(scopy)
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| [381] | 172 | elif type(scanid) is list:
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| [946] | 173 | sel.set_scans(scanid)
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| 174 | self.set_selection(sel)
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| [876] | 175 | scopy = self._copy()
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| [946] | 176 | self.set_selection(bsel)
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| [876] | 177 | return scantable(scopy)
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| [381] | 178 | else:
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| [718] | 179 | msg = "Illegal scanid type, use 'int' or 'list' if ints."
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| 180 | if rcParams['verbose']:
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| 181 | print msg
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| 182 | else:
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| 183 | raise TypeError(msg)
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| [102] | 184 | except RuntimeError:
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| [718] | 185 | if rcParams['verbose']: print "Couldn't find any match."
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| 186 | else: raise
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| [102] | 187 |
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| 188 | def __str__(self):
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| [876] | 189 | return Scantable._summary(self,True)
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| [102] | 190 |
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| [976] | 191 | def summary(self, filename=None):
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| [102] | 192 | """
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| 193 | Print a summary of the contents of this scantable.
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| 194 | Parameters:
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| 195 | filename: the name of a file to write the putput to
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| 196 | Default - no file output
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| [381] | 197 | verbose: print extra info such as the frequency table
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| 198 | The default (False) is taken from .asaprc
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| [102] | 199 | """
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| [976] | 200 | info = Scantable._summary(self, True)
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| 201 | #if verbose is None: verbose = rcParams['scantable.verbosesummary']
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| [102] | 202 | if filename is not None:
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| [256] | 203 | if filename is "":
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| 204 | filename = 'scantable_summary.txt'
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| [415] | 205 | from os.path import expandvars, isdir
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| [411] | 206 | filename = expandvars(filename)
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| [415] | 207 | if not isdir(filename):
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| [413] | 208 | data = open(filename, 'w')
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| 209 | data.write(info)
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| 210 | data.close()
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| 211 | else:
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| [718] | 212 | msg = "Illegal file name '%s'." % (filename)
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| 213 | if rcParams['verbose']:
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| 214 | print msg
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| 215 | else:
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| 216 | raise IOError(msg)
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| 217 | if rcParams['verbose']:
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| [794] | 218 | try:
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| 219 | from IPython.genutils import page as pager
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| 220 | except ImportError:
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| 221 | from pydoc import pager
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| 222 | pager(info)
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| [718] | 223 | else:
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| 224 | return info
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| [710] | 225 |
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| [946] | 226 |
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| 227 | def get_selection(self):
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| 228 | """
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| 229 | """
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| 230 | return selector(self._getselection())
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| 231 |
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| 232 | def set_selection(self, selection):
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| 233 | """
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| 234 | """
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| 235 | self._setselection(selection)
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| 236 |
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| [553] | 237 | def set_cursor(self, beam=0, IF=0, pol=0):
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| [102] | 238 | """
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| 239 | Set the spectrum for individual operations.
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| 240 | Parameters:
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| [553] | 241 | beam, IF, pol: a number
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| [102] | 242 | Example:
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| [256] | 243 | scan.set_cursor(0,0,1)
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| [135] | 244 | pol1sig = scan.stats(all=False) # returns std dev for beam=0
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| [181] | 245 | # if=0, pol=1
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| [102] | 246 | """
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| [876] | 247 | print "DEPRECATED"
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| [484] | 248 | varlist = vars()
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| [876] | 249 | sel = asap._asap.Selector()
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| 250 | sel._setbeams([beam])
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| 251 | sel._setpols([pol])
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| 252 | sel._setifs([IF])
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| 253 | self._add_history("set_cursor", varlist)
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| [102] | 254 | return
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| 255 |
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| [256] | 256 | def get_cursor(self):
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| [113] | 257 | """
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| 258 | Return/print a the current 'cursor' into the Beam/IF/Pol cube.
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| 259 | Parameters:
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| 260 | none
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| 261 | Returns:
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| 262 | a list of values (currentBeam,currentIF,currentPol)
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| 263 | Example:
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| 264 | none
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| 265 | """
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| [876] | 266 | print "DEPRECATED"
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| 267 | sel = self._getselection()
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| 268 | i = sel.getbeams()[0]
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| 269 | j = sel.getifs()[0]
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| 270 | k = sel.getpols()[0]
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| [721] | 271 | from asap import asaplog
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| 272 | out = "--------------------------------------------------\n"
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| 273 | out += " Cursor position\n"
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| 274 | out += "--------------------------------------------------\n"
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| 275 | out += 'Beam=%d IF=%d Pol=%d ' % (i,j,k)
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| 276 | asaplog.push(out)
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| 277 | print_log()
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| 278 | return i,j,k
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| [102] | 279 |
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| [876] | 280 | def stats(self, stat='stddev', mask=None):
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| [102] | 281 | """
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| [135] | 282 | Determine the specified statistic of the current beam/if/pol
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| [102] | 283 | Takes a 'mask' as an optional parameter to specify which
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| 284 | channels should be excluded.
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| 285 | Parameters:
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| [135] | 286 | stat: 'min', 'max', 'sumsq', 'sum', 'mean'
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| 287 | 'var', 'stddev', 'avdev', 'rms', 'median'
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| 288 | mask: an optional mask specifying where the statistic
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| [102] | 289 | should be determined.
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| 290 | Example:
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| [113] | 291 | scan.set_unit('channel')
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| [102] | 292 | msk = scan.create_mask([100,200],[500,600])
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| [135] | 293 | scan.stats(stat='mean', mask=m)
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| [102] | 294 | """
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| [256] | 295 | from numarray import array,zeros,Float
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| [102] | 296 | if mask == None:
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| [876] | 297 | mask = []
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| [256] | 298 | axes = ['Beam','IF','Pol','Time']
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| [876] | 299 | if not self._check_ifs():
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| 300 | raise ValueError("Cannot apply mask as the IFs have different number of channels"
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| 301 | "Please use setselection() to select individual IFs")
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| [256] | 302 |
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| [876] | 303 | statvals = self._math._stats(self, mask, stat)
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| 304 | out = ''
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| 305 | axes = []
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| 306 | for i in range(self.nrow()):
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| 307 | axis = []
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| 308 | axis.append(self.getscan(i))
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| 309 | axis.append(self.getbeam(i))
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| 310 | axis.append(self.getif(i))
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| 311 | axis.append(self.getpol(i))
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| 312 | axis.append(self.getcycle(i))
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| 313 | axes.append(axis)
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| 314 | tm = self._gettime(i)
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| 315 | src = self._getsourcename(i)
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| 316 | out += 'Scan[%d] (%s) ' % (axis[0], src)
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| 317 | out += 'Time[%s]:\n' % (tm)
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| 318 | if self.nbeam(-1) > 1: out += ' Beam[%d] ' % (axis[1])
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| 319 | if self.nif(-1) > 1: out += ' IF[%d] ' % (axis[2])
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| 320 | if self.npol(-1) > 1: out += ' Pol[%d] ' % (axis[3])
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| 321 | out += '= %3.3f\n' % (statvals[i])
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| 322 | out += "--------------------------------------------------\n"
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| [256] | 323 |
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| [876] | 324 | if rcParams['verbose']:
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| 325 | print "--------------------------------------------------"
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| 326 | print " ",stat
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| 327 | print "--------------------------------------------------"
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| 328 | print out
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| 329 | retval = { 'axesnames': ['scanno','beamno','ifno','polno','cycleno'],
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| 330 | 'axes' : axes,
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| 331 | 'data': statvals}
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| 332 | return retval
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| [102] | 333 |
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| [876] | 334 | def stddev(self,mask=None):
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| [135] | 335 | """
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| 336 | Determine the standard deviation of the current beam/if/pol
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| 337 | Takes a 'mask' as an optional parameter to specify which
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| 338 | channels should be excluded.
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| 339 | Parameters:
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| 340 | mask: an optional mask specifying where the standard
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| 341 | deviation should be determined.
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| 342 |
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| 343 | Example:
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| 344 | scan.set_unit('channel')
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| 345 | msk = scan.create_mask([100,200],[500,600])
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| 346 | scan.stddev(mask=m)
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| 347 | """
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| [876] | 348 | return self.stats(stat='stddev',mask=mask);
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| [135] | 349 |
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| [876] | 350 | def get_tsys(self):
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| [113] | 351 | """
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| 352 | Return the System temperatures.
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| 353 | Parameters:
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| [876] | 354 |
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| [113] | 355 | Returns:
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| [876] | 356 | a list of Tsys values for the current selection
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| [113] | 357 | """
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| [256] | 358 |
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| [876] | 359 | return self._row_callback(self._gettsys, "Tsys")
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| [256] | 360 |
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| [876] | 361 | def _row_callback(self, callback, label):
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| 362 | axes = []
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| 363 | axesnames = ['scanno','beamno','ifno','polno','cycleno']
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| 364 | out = ""
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| 365 | outvec =[]
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| 366 | for i in range(self.nrow()):
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| 367 | axis = []
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| 368 | axis.append(self.getscan(i))
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| 369 | axis.append(self.getbeam(i))
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| 370 | axis.append(self.getif(i))
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| 371 | axis.append(self.getpol(i))
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| 372 | axis.append(self.getcycle(i))
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| 373 | axes.append(axis)
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| 374 | tm = self._gettime(i)
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| 375 | src = self._getsourcename(i)
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| 376 | out += 'Scan[%d] (%s) ' % (axis[0], src)
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| 377 | out += 'Time[%s]:\n' % (tm)
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| 378 | if self.nbeam(-1) > 1: out += ' Beam[%d] ' % (axis[1])
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| 379 | if self.nif(-1) > 1: out += ' IF[%d] ' % (axis[2])
|
|---|
| 380 | if self.npol(-1) > 1: out += ' Pol[%d] ' % (axis[3])
|
|---|
| 381 | outvec.append(callback(i))
|
|---|
| 382 | out += '= %3.3f\n' % (outvec[i])
|
|---|
| 383 | out += "--------------------------------------------------\n"
|
|---|
| 384 | if rcParams['verbose']:
|
|---|
| 385 | print "--------------------------------------------------"
|
|---|
| 386 | print " %s" % (label)
|
|---|
| 387 | print "--------------------------------------------------"
|
|---|
| 388 | print out
|
|---|
| 389 | retval = {'axesnames': axesnames, 'axes': axes, 'data': outvec}
|
|---|
| 390 | return retval
|
|---|
| [256] | 391 |
|
|---|
| 392 |
|
|---|
| [407] | 393 | def get_time(self, row=-1):
|
|---|
| [113] | 394 | """
|
|---|
| 395 | Get a list of time stamps for the observations.
|
|---|
| [181] | 396 | Return a string for each integration in the scantable.
|
|---|
| [113] | 397 | Parameters:
|
|---|
| [407] | 398 | row: row no of integration. Default -1 return all rows
|
|---|
| [113] | 399 | Example:
|
|---|
| 400 | none
|
|---|
| 401 | """
|
|---|
| 402 | out = []
|
|---|
| [407] | 403 | if row == -1:
|
|---|
| 404 | for i in range(self.nrow()):
|
|---|
| 405 | out.append(self._gettime(i))
|
|---|
| 406 | return out
|
|---|
| 407 | else:
|
|---|
| 408 | if row < self.nrow():
|
|---|
| 409 | return self._gettime(row)
|
|---|
| [102] | 410 |
|
|---|
| [714] | 411 | def get_sourcename(self, row=-1):
|
|---|
| 412 | """
|
|---|
| [794] | 413 | Get a list source names for the observations.
|
|---|
| [714] | 414 | Return a string for each integration in the scantable.
|
|---|
| 415 | Parameters:
|
|---|
| 416 | row: row no of integration. Default -1 return all rows
|
|---|
| 417 | Example:
|
|---|
| 418 | none
|
|---|
| 419 | """
|
|---|
| 420 | out = []
|
|---|
| 421 | if row == -1:
|
|---|
| 422 | return [self._getsourcename(i) for i in range(self.nrow())]
|
|---|
| 423 | else:
|
|---|
| 424 | if 0 <= row < self.nrow():
|
|---|
| 425 | return self._getsourcename(row)
|
|---|
| 426 |
|
|---|
| [794] | 427 | def get_elevation(self, row=-1):
|
|---|
| 428 | """
|
|---|
| 429 | Get a list of elevations for the observations.
|
|---|
| 430 | Return a float for each integration in the scantable.
|
|---|
| 431 | Parameters:
|
|---|
| 432 | row: row no of integration. Default -1 return all rows
|
|---|
| 433 | Example:
|
|---|
| 434 | none
|
|---|
| 435 | """
|
|---|
| 436 | out = []
|
|---|
| 437 | if row == -1:
|
|---|
| 438 | return [self._getelevation(i) for i in range(self.nrow())]
|
|---|
| 439 | else:
|
|---|
| 440 | if 0 <= row < self.nrow():
|
|---|
| 441 | return self._getelevation(row)
|
|---|
| 442 |
|
|---|
| 443 | def get_azimuth(self, row=-1):
|
|---|
| 444 | """
|
|---|
| 445 | Get a list of azimuths for the observations.
|
|---|
| 446 | Return a float for each integration in the scantable.
|
|---|
| 447 | Parameters:
|
|---|
| 448 | row: row no of integration. Default -1 return all rows
|
|---|
| 449 | Example:
|
|---|
| 450 | none
|
|---|
| 451 | """
|
|---|
| 452 | out = []
|
|---|
| 453 | if row == -1:
|
|---|
| 454 | return [self._getazimuth(i) for i in range(self.nrow())]
|
|---|
| 455 | else:
|
|---|
| 456 | if 0 <= row < self.nrow():
|
|---|
| 457 | return self._getazimuth(row)
|
|---|
| 458 |
|
|---|
| 459 | def get_parangle(self, row=-1):
|
|---|
| 460 | """
|
|---|
| 461 | Get a list of parallactic angles for the observations.
|
|---|
| 462 | Return a float for each integration in the scantable.
|
|---|
| 463 | Parameters:
|
|---|
| 464 | row: row no of integration. Default -1 return all rows
|
|---|
| 465 | Example:
|
|---|
| 466 | none
|
|---|
| 467 | """
|
|---|
| 468 | out = []
|
|---|
| 469 | if row == -1:
|
|---|
| 470 | return [self._getparangle(i) for i in range(self.nrow())]
|
|---|
| 471 | else:
|
|---|
| 472 | if 0 <= row < self.nrow():
|
|---|
| 473 | return self._getparangle(row)
|
|---|
| 474 |
|
|---|
| [102] | 475 | def set_unit(self, unit='channel'):
|
|---|
| 476 | """
|
|---|
| 477 | Set the unit for all following operations on this scantable
|
|---|
| 478 | Parameters:
|
|---|
| 479 | unit: optional unit, default is 'channel'
|
|---|
| [113] | 480 | one of '*Hz','km/s','channel', ''
|
|---|
| [102] | 481 | """
|
|---|
| [484] | 482 | varlist = vars()
|
|---|
| [113] | 483 | if unit in ['','pixel', 'channel']:
|
|---|
| 484 | unit = ''
|
|---|
| 485 | inf = list(self._getcoordinfo())
|
|---|
| 486 | inf[0] = unit
|
|---|
| 487 | self._setcoordinfo(inf)
|
|---|
| [484] | 488 | self._add_history("set_unit",varlist)
|
|---|
| [113] | 489 |
|
|---|
| [484] | 490 | def set_instrument(self, instr):
|
|---|
| [358] | 491 | """
|
|---|
| 492 | Set the instrument for subsequent processing
|
|---|
| 493 | Parameters:
|
|---|
| [710] | 494 | instr: Select from 'ATPKSMB', 'ATPKSHOH', 'ATMOPRA',
|
|---|
| [407] | 495 | 'DSS-43' (Tid), 'CEDUNA', and 'HOBART'
|
|---|
| [358] | 496 | """
|
|---|
| 497 | self._setInstrument(instr)
|
|---|
| [484] | 498 | self._add_history("set_instument",vars())
|
|---|
| [718] | 499 | print_log()
|
|---|
| [358] | 500 |
|
|---|
| [276] | 501 | def set_doppler(self, doppler='RADIO'):
|
|---|
| 502 | """
|
|---|
| 503 | Set the doppler for all following operations on this scantable.
|
|---|
| 504 | Parameters:
|
|---|
| 505 | doppler: One of 'RADIO', 'OPTICAL', 'Z', 'BETA', 'GAMMA'
|
|---|
| 506 | """
|
|---|
| [484] | 507 | varlist = vars()
|
|---|
| [276] | 508 | inf = list(self._getcoordinfo())
|
|---|
| 509 | inf[2] = doppler
|
|---|
| 510 | self._setcoordinfo(inf)
|
|---|
| [484] | 511 | self._add_history("set_doppler",vars())
|
|---|
| [718] | 512 | print_log()
|
|---|
| [710] | 513 |
|
|---|
| [226] | 514 | def set_freqframe(self, frame=None):
|
|---|
| [113] | 515 | """
|
|---|
| 516 | Set the frame type of the Spectral Axis.
|
|---|
| 517 | Parameters:
|
|---|
| [591] | 518 | frame: an optional frame type, default 'LSRK'. Valid frames are:
|
|---|
| 519 | 'REST','TOPO','LSRD','LSRK','BARY',
|
|---|
| 520 | 'GEO','GALACTO','LGROUP','CMB'
|
|---|
| [113] | 521 | Examples:
|
|---|
| 522 | scan.set_freqframe('BARY')
|
|---|
| 523 | """
|
|---|
| [484] | 524 | if frame is None: frame = rcParams['scantable.freqframe']
|
|---|
| 525 | varlist = vars()
|
|---|
| [113] | 526 | valid = ['REST','TOPO','LSRD','LSRK','BARY', \
|
|---|
| 527 | 'GEO','GALACTO','LGROUP','CMB']
|
|---|
| [591] | 528 |
|
|---|
| [989] | 529 | if frame in valid:
|
|---|
| [113] | 530 | inf = list(self._getcoordinfo())
|
|---|
| 531 | inf[1] = frame
|
|---|
| 532 | self._setcoordinfo(inf)
|
|---|
| [484] | 533 | self._add_history("set_freqframe",varlist)
|
|---|
| [102] | 534 | else:
|
|---|
| [718] | 535 | msg = "Please specify a valid freq type. Valid types are:\n",valid
|
|---|
| 536 | if rcParams['verbose']:
|
|---|
| 537 | print msg
|
|---|
| 538 | else:
|
|---|
| 539 | raise TypeError(msg)
|
|---|
| 540 | print_log()
|
|---|
| [710] | 541 |
|
|---|
| [989] | 542 | def set_dirframe(self, frame=""):
|
|---|
| 543 | """
|
|---|
| 544 | Set the frame type of the Direction on the sky.
|
|---|
| 545 | Parameters:
|
|---|
| 546 | frame: an optional frame type, default ''. Valid frames are:
|
|---|
| 547 | 'J2000', 'B1950', 'GALACTIC'
|
|---|
| 548 | Examples:
|
|---|
| 549 | scan.set_dirframe('GALACTIC')
|
|---|
| 550 | """
|
|---|
| 551 | varlist = vars()
|
|---|
| 552 | try:
|
|---|
| 553 | Scantable.set_dirframe(self, frame)
|
|---|
| 554 | except RuntimeError,msg:
|
|---|
| 555 | if rcParams['verbose']:
|
|---|
| 556 | print msg
|
|---|
| 557 | else:
|
|---|
| 558 | raise
|
|---|
| 559 | self._add_history("set_dirframe",varlist)
|
|---|
| 560 |
|
|---|
| [113] | 561 | def get_unit(self):
|
|---|
| 562 | """
|
|---|
| 563 | Get the default unit set in this scantable
|
|---|
| 564 | Parameters:
|
|---|
| 565 | Returns:
|
|---|
| 566 | A unit string
|
|---|
| 567 | """
|
|---|
| 568 | inf = self._getcoordinfo()
|
|---|
| 569 | unit = inf[0]
|
|---|
| 570 | if unit == '': unit = 'channel'
|
|---|
| 571 | return unit
|
|---|
| [102] | 572 |
|
|---|
| [158] | 573 | def get_abcissa(self, rowno=0):
|
|---|
| [102] | 574 | """
|
|---|
| [158] | 575 | Get the abcissa in the current coordinate setup for the currently
|
|---|
| [113] | 576 | selected Beam/IF/Pol
|
|---|
| 577 | Parameters:
|
|---|
| [226] | 578 | rowno: an optional row number in the scantable. Default is the
|
|---|
| 579 | first row, i.e. rowno=0
|
|---|
| [113] | 580 | Returns:
|
|---|
| [407] | 581 | The abcissa values and it's format string (as a dictionary)
|
|---|
| [113] | 582 | """
|
|---|
| [256] | 583 | abc = self._getabcissa(rowno)
|
|---|
| [710] | 584 | lbl = self._getabcissalabel(rowno)
|
|---|
| [718] | 585 | print_log()
|
|---|
| [158] | 586 | return abc, lbl
|
|---|
| [113] | 587 |
|
|---|
| 588 | def create_mask(self, *args, **kwargs):
|
|---|
| 589 | """
|
|---|
| [102] | 590 | Compute and return a mask based on [min,max] windows.
|
|---|
| [189] | 591 | The specified windows are to be INCLUDED, when the mask is
|
|---|
| [113] | 592 | applied.
|
|---|
| [102] | 593 | Parameters:
|
|---|
| 594 | [min,max],[min2,max2],...
|
|---|
| 595 | Pairs of start/end points specifying the regions
|
|---|
| 596 | to be masked
|
|---|
| [189] | 597 | invert: optional argument. If specified as True,
|
|---|
| 598 | return an inverted mask, i.e. the regions
|
|---|
| 599 | specified are EXCLUDED
|
|---|
| [513] | 600 | row: create the mask using the specified row for
|
|---|
| 601 | unit conversions, default is row=0
|
|---|
| 602 | only necessary if frequency varies over rows.
|
|---|
| [102] | 603 | Example:
|
|---|
| [113] | 604 | scan.set_unit('channel')
|
|---|
| 605 |
|
|---|
| 606 | a)
|
|---|
| [102] | 607 | msk = scan.set_mask([400,500],[800,900])
|
|---|
| [189] | 608 | # masks everything outside 400 and 500
|
|---|
| [113] | 609 | # and 800 and 900 in the unit 'channel'
|
|---|
| 610 |
|
|---|
| 611 | b)
|
|---|
| 612 | msk = scan.set_mask([400,500],[800,900], invert=True)
|
|---|
| [189] | 613 | # masks the regions between 400 and 500
|
|---|
| [113] | 614 | # and 800 and 900 in the unit 'channel'
|
|---|
| [710] | 615 |
|
|---|
| [102] | 616 | """
|
|---|
| [513] | 617 | row = 0
|
|---|
| 618 | if kwargs.has_key("row"):
|
|---|
| 619 | row = kwargs.get("row")
|
|---|
| 620 | data = self._getabcissa(row)
|
|---|
| [113] | 621 | u = self._getcoordinfo()[0]
|
|---|
| [718] | 622 | if rcParams['verbose']:
|
|---|
| [113] | 623 | if u == "": u = "channel"
|
|---|
| [718] | 624 | from asap import asaplog
|
|---|
| 625 | msg = "The current mask window unit is %s" % u
|
|---|
| [914] | 626 | if not self._check_ifs():
|
|---|
| [876] | 627 | msg += "\nThis mask is only valid for IF=%d" % (self.getif(i))
|
|---|
| [718] | 628 | asaplog.push(msg)
|
|---|
| [102] | 629 | n = self.nchan()
|
|---|
| [189] | 630 | msk = zeros(n)
|
|---|
| [710] | 631 | # test if args is a 'list' or a 'normal *args - UGLY!!!
|
|---|
| 632 |
|
|---|
| 633 | ws = (isinstance(args[-1][-1],int) or isinstance(args[-1][-1],float)) and args or args[0]
|
|---|
| 634 | for window in ws:
|
|---|
| [102] | 635 | if (len(window) != 2 or window[0] > window[1] ):
|
|---|
| [718] | 636 | raise TypeError("A window needs to be defined as [min,max]")
|
|---|
| [102] | 637 | for i in range(n):
|
|---|
| [113] | 638 | if data[i] >= window[0] and data[i] < window[1]:
|
|---|
| [189] | 639 | msk[i] = 1
|
|---|
| [113] | 640 | if kwargs.has_key('invert'):
|
|---|
| 641 | if kwargs.get('invert'):
|
|---|
| 642 | from numarray import logical_not
|
|---|
| [710] | 643 | msk = logical_not(msk)
|
|---|
| [718] | 644 | print_log()
|
|---|
| [102] | 645 | return msk
|
|---|
| [710] | 646 |
|
|---|
| [256] | 647 | def get_restfreqs(self):
|
|---|
| 648 | """
|
|---|
| 649 | Get the restfrequency(s) stored in this scantable.
|
|---|
| 650 | The return value(s) are always of unit 'Hz'
|
|---|
| 651 | Parameters:
|
|---|
| 652 | none
|
|---|
| 653 | Returns:
|
|---|
| 654 | a list of doubles
|
|---|
| 655 | """
|
|---|
| 656 | return list(self._getrestfreqs())
|
|---|
| [102] | 657 |
|
|---|
| [402] | 658 |
|
|---|
| [931] | 659 | def set_restfreqs(self, freqs=None, unit='Hz'):
|
|---|
| 660 | """
|
|---|
| 661 | Set or replace the restfrequency specified and
|
|---|
| 662 | If the 'freqs' argument holds a scalar,
|
|---|
| 663 | then that rest frequency will be applied to all the selected
|
|---|
| 664 | data. If the 'freqs' argument holds
|
|---|
| 665 | a vector, then it MUST be of equal or smaller length than
|
|---|
| 666 | the number of IFs (and the available restfrequencies will be
|
|---|
| 667 | replaced by this vector). In this case, *all* data have
|
|---|
| 668 | the restfrequency set per IF according
|
|---|
| 669 | to the corresponding value you give in the 'freqs' vector.
|
|---|
| 670 | E.g. 'freqs=[1e9,2e9]' would mean IF 0 gets restfreq 1e9 and
|
|---|
| 671 | IF 1 gets restfreq 2e9.
|
|---|
| 672 | You can also specify the frequencies via known line names
|
|---|
| 673 | from the built-in Lovas table.
|
|---|
| 674 | Parameters:
|
|---|
| 675 | freqs: list of rest frequency values or string idenitfiers
|
|---|
| 676 | unit: unit for rest frequency (default 'Hz')
|
|---|
| [402] | 677 |
|
|---|
| [931] | 678 | Example:
|
|---|
| 679 | # set the given restfrequency for the whole table
|
|---|
| 680 | scan.set_restfreqs(freqs=1.4e9)
|
|---|
| 681 | # If thee number of IFs in the data is >= 2 the IF0 gets the first
|
|---|
| 682 | # value IF1 the second...
|
|---|
| 683 | scan.set_restfreqs(freqs=[1.4e9,1.67e9])
|
|---|
| 684 | #set the given restfrequency for the whole table (by name)
|
|---|
| 685 | scan.set_restfreqs(freqs="OH1667")
|
|---|
| [391] | 686 |
|
|---|
| [931] | 687 | Note:
|
|---|
| 688 | To do more sophisticate Restfrequency setting, e.g. on a
|
|---|
| 689 | source and IF basis, use scantable.set_selection() before using
|
|---|
| 690 | this function.
|
|---|
| 691 | # provide your scantable is call scan
|
|---|
| 692 | selection = selector()
|
|---|
| 693 | selection.set_name("ORION*")
|
|---|
| 694 | selection.set_ifs([1])
|
|---|
| 695 | scan.set_selection(selection)
|
|---|
| 696 | scan.set_restfreqs(freqs=86.6e9)
|
|---|
| 697 |
|
|---|
| 698 | """
|
|---|
| 699 | varlist = vars()
|
|---|
| 700 |
|
|---|
| 701 | t = type(freqs)
|
|---|
| 702 | if isinstance(freqs, int) or isinstance(freqs,float):
|
|---|
| 703 | self._setrestfreqs(freqs, unit)
|
|---|
| 704 | elif isinstance(freqs, list) or isinstance(freqs,tuple):
|
|---|
| 705 | if isinstance(freqs[-1], int) or isinstance(freqs[-1],float):
|
|---|
| 706 | sel = selector()
|
|---|
| 707 | savesel = self._getselection()
|
|---|
| 708 | for i in xrange(len(freqs)):
|
|---|
| [946] | 709 | sel.set_ifs([i])
|
|---|
| [931] | 710 | self._setselection(sel)
|
|---|
| 711 | self._setrestfreqs(freqs[i], unit)
|
|---|
| 712 | self._setselection(savesel)
|
|---|
| 713 | elif isinstance(freqs[-1], str):
|
|---|
| 714 | # not yet implemented
|
|---|
| 715 | pass
|
|---|
| 716 | else:
|
|---|
| 717 | return
|
|---|
| 718 | self._add_history("set_restfreqs", varlist)
|
|---|
| 719 |
|
|---|
| 720 |
|
|---|
| 721 |
|
|---|
| [484] | 722 | def history(self):
|
|---|
| 723 | hist = list(self._gethistory())
|
|---|
| [794] | 724 | out = "-"*80
|
|---|
| [484] | 725 | for h in hist:
|
|---|
| [489] | 726 | if h.startswith("---"):
|
|---|
| [794] | 727 | out += "\n"+h
|
|---|
| [489] | 728 | else:
|
|---|
| 729 | items = h.split("##")
|
|---|
| 730 | date = items[0]
|
|---|
| 731 | func = items[1]
|
|---|
| 732 | items = items[2:]
|
|---|
| [794] | 733 | out += "\n"+date+"\n"
|
|---|
| 734 | out += "Function: %s\n Parameters:" % (func)
|
|---|
| [489] | 735 | for i in items:
|
|---|
| 736 | s = i.split("=")
|
|---|
| [794] | 737 | out += "\n %s = %s" % (s[0],s[1])
|
|---|
| 738 | out += "\n"+"-"*80
|
|---|
| 739 | try:
|
|---|
| 740 | from IPython.genutils import page as pager
|
|---|
| 741 | except ImportError:
|
|---|
| 742 | from pydoc import pager
|
|---|
| 743 | pager(out)
|
|---|
| [484] | 744 | return
|
|---|
| 745 |
|
|---|
| [513] | 746 | #
|
|---|
| 747 | # Maths business
|
|---|
| 748 | #
|
|---|
| 749 |
|
|---|
| [931] | 750 | def average_time(self, mask=None, scanav=False, weight='tint', align=False):
|
|---|
| [513] | 751 | """
|
|---|
| 752 | Return the (time) average of a scan, or apply it 'insitu'.
|
|---|
| 753 | Note:
|
|---|
| 754 | in channels only
|
|---|
| 755 | The cursor of the output scan is set to 0.
|
|---|
| 756 | Parameters:
|
|---|
| 757 | one scan or comma separated scans
|
|---|
| 758 | mask: an optional mask (only used for 'var' and 'tsys'
|
|---|
| 759 | weighting)
|
|---|
| [558] | 760 | scanav: True averages each scan separately
|
|---|
| 761 | False (default) averages all scans together,
|
|---|
| [524] | 762 | weight: Weighting scheme. 'none', 'var' (1/var(spec)
|
|---|
| [535] | 763 | weighted), 'tsys' (1/Tsys**2 weighted), 'tint'
|
|---|
| 764 | (integration time weighted) or 'tintsys' (Tint/Tsys**2).
|
|---|
| 765 | The default is 'tint'
|
|---|
| [931] | 766 | align: align the spectra in velocity before averaging. It takes
|
|---|
| 767 | the time of the first spectrum as reference time.
|
|---|
| [513] | 768 | Example:
|
|---|
| 769 | # time average the scantable without using a mask
|
|---|
| [710] | 770 | newscan = scan.average_time()
|
|---|
| [513] | 771 | """
|
|---|
| 772 | varlist = vars()
|
|---|
| [976] | 773 | if weight is None: weight = 'TINT'
|
|---|
| [513] | 774 | if mask is None: mask = ()
|
|---|
| [876] | 775 | if scanav:
|
|---|
| [981] | 776 | scanav = "SCAN"
|
|---|
| [876] | 777 | else:
|
|---|
| [981] | 778 | scanav = "NONE"
|
|---|
| 779 | scan = (self,)
|
|---|
| [989] | 780 | try:
|
|---|
| 781 | if align:
|
|---|
| 782 | scan = (self.freq_align(insitu=False),)
|
|---|
| 783 | s = scantable(self._math._average(scan, mask, weight.upper(),
|
|---|
| 784 | scanav))
|
|---|
| 785 | except RuntimeError,msg:
|
|---|
| 786 | if rcParams['verbose']:
|
|---|
| 787 | print msg
|
|---|
| 788 | return
|
|---|
| 789 | else: raise
|
|---|
| [513] | 790 | s._add_history("average_time",varlist)
|
|---|
| [718] | 791 | print_log()
|
|---|
| [513] | 792 | return s
|
|---|
| [710] | 793 |
|
|---|
| [876] | 794 | def convert_flux(self, jyperk=None, eta=None, d=None, insitu=None):
|
|---|
| [513] | 795 | """
|
|---|
| 796 | Return a scan where all spectra are converted to either
|
|---|
| 797 | Jansky or Kelvin depending upon the flux units of the scan table.
|
|---|
| 798 | By default the function tries to look the values up internally.
|
|---|
| 799 | If it can't find them (or if you want to over-ride), you must
|
|---|
| 800 | specify EITHER jyperk OR eta (and D which it will try to look up
|
|---|
| 801 | also if you don't set it). jyperk takes precedence if you set both.
|
|---|
| 802 | Parameters:
|
|---|
| 803 | jyperk: the Jy / K conversion factor
|
|---|
| 804 | eta: the aperture efficiency
|
|---|
| 805 | d: the geomtric diameter (metres)
|
|---|
| 806 | insitu: if False a new scantable is returned.
|
|---|
| 807 | Otherwise, the scaling is done in-situ
|
|---|
| 808 | The default is taken from .asaprc (False)
|
|---|
| 809 | allaxes: if True apply to all spectra. Otherwise
|
|---|
| 810 | apply only to the selected (beam/pol/if)spectra only
|
|---|
| 811 | The default is taken from .asaprc (True if none)
|
|---|
| 812 | """
|
|---|
| 813 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 814 | self._math._setinsitu(insitu)
|
|---|
| [513] | 815 | varlist = vars()
|
|---|
| 816 | if jyperk is None: jyperk = -1.0
|
|---|
| 817 | if d is None: d = -1.0
|
|---|
| 818 | if eta is None: eta = -1.0
|
|---|
| [876] | 819 | s = scantable(self._math._convertflux(self, d, eta, jyperk))
|
|---|
| 820 | s._add_history("convert_flux", varlist)
|
|---|
| 821 | print_log()
|
|---|
| 822 | if insitu: self._assign(s)
|
|---|
| 823 | else: return s
|
|---|
| [513] | 824 |
|
|---|
| [876] | 825 | def gain_el(self, poly=None, filename="", method="linear", insitu=None):
|
|---|
| [513] | 826 | """
|
|---|
| 827 | Return a scan after applying a gain-elevation correction.
|
|---|
| 828 | The correction can be made via either a polynomial or a
|
|---|
| 829 | table-based interpolation (and extrapolation if necessary).
|
|---|
| 830 | You specify polynomial coefficients, an ascii table or neither.
|
|---|
| 831 | If you specify neither, then a polynomial correction will be made
|
|---|
| 832 | with built in coefficients known for certain telescopes (an error
|
|---|
| 833 | will occur if the instrument is not known).
|
|---|
| 834 | The data and Tsys are *divided* by the scaling factors.
|
|---|
| 835 | Parameters:
|
|---|
| 836 | poly: Polynomial coefficients (default None) to compute a
|
|---|
| 837 | gain-elevation correction as a function of
|
|---|
| 838 | elevation (in degrees).
|
|---|
| 839 | filename: The name of an ascii file holding correction factors.
|
|---|
| 840 | The first row of the ascii file must give the column
|
|---|
| 841 | names and these MUST include columns
|
|---|
| 842 | "ELEVATION" (degrees) and "FACTOR" (multiply data
|
|---|
| 843 | by this) somewhere.
|
|---|
| 844 | The second row must give the data type of the
|
|---|
| 845 | column. Use 'R' for Real and 'I' for Integer.
|
|---|
| 846 | An example file would be
|
|---|
| 847 | (actual factors are arbitrary) :
|
|---|
| 848 |
|
|---|
| 849 | TIME ELEVATION FACTOR
|
|---|
| 850 | R R R
|
|---|
| 851 | 0.1 0 0.8
|
|---|
| 852 | 0.2 20 0.85
|
|---|
| 853 | 0.3 40 0.9
|
|---|
| 854 | 0.4 60 0.85
|
|---|
| 855 | 0.5 80 0.8
|
|---|
| 856 | 0.6 90 0.75
|
|---|
| 857 | method: Interpolation method when correcting from a table.
|
|---|
| 858 | Values are "nearest", "linear" (default), "cubic"
|
|---|
| 859 | and "spline"
|
|---|
| 860 | insitu: if False a new scantable is returned.
|
|---|
| 861 | Otherwise, the scaling is done in-situ
|
|---|
| 862 | The default is taken from .asaprc (False)
|
|---|
| 863 | """
|
|---|
| 864 |
|
|---|
| 865 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 866 | self._math._setinsitu(insitu)
|
|---|
| [513] | 867 | varlist = vars()
|
|---|
| 868 | if poly is None:
|
|---|
| 869 | poly = ()
|
|---|
| 870 | from os.path import expandvars
|
|---|
| 871 | filename = expandvars(filename)
|
|---|
| [876] | 872 | s = scantable(self._math._gainel(self, poly, filename, method))
|
|---|
| 873 | s._add_history("gain_el", varlist)
|
|---|
| 874 | print_log()
|
|---|
| 875 | if insitu: self._assign(s)
|
|---|
| 876 | else: return s
|
|---|
| [710] | 877 |
|
|---|
| [931] | 878 | def freq_align(self, reftime=None, method='cubic', insitu=None):
|
|---|
| [513] | 879 | """
|
|---|
| 880 | Return a scan where all rows have been aligned in frequency/velocity.
|
|---|
| 881 | The alignment frequency frame (e.g. LSRK) is that set by function
|
|---|
| 882 | set_freqframe.
|
|---|
| 883 | Parameters:
|
|---|
| 884 | reftime: reference time to align at. By default, the time of
|
|---|
| 885 | the first row of data is used.
|
|---|
| 886 | method: Interpolation method for regridding the spectra.
|
|---|
| 887 | Choose from "nearest", "linear", "cubic" (default)
|
|---|
| 888 | and "spline"
|
|---|
| 889 | insitu: if False a new scantable is returned.
|
|---|
| 890 | Otherwise, the scaling is done in-situ
|
|---|
| 891 | The default is taken from .asaprc (False)
|
|---|
| 892 | """
|
|---|
| [931] | 893 | if insitu is None: insitu = rcParams["insitu"]
|
|---|
| [876] | 894 | self._math._setinsitu(insitu)
|
|---|
| [513] | 895 | varlist = vars()
|
|---|
| [931] | 896 | if reftime is None: reftime = ""
|
|---|
| 897 | s = scantable(self._math._freq_align(self, reftime, method))
|
|---|
| [876] | 898 | s._add_history("freq_align", varlist)
|
|---|
| 899 | print_log()
|
|---|
| 900 | if insitu: self._assign(s)
|
|---|
| 901 | else: return s
|
|---|
| [513] | 902 |
|
|---|
| [876] | 903 | def opacity(self, tau, insitu=None):
|
|---|
| [513] | 904 | """
|
|---|
| 905 | Apply an opacity correction. The data
|
|---|
| 906 | and Tsys are multiplied by the correction factor.
|
|---|
| 907 | Parameters:
|
|---|
| 908 | tau: Opacity from which the correction factor is
|
|---|
| 909 | exp(tau*ZD)
|
|---|
| 910 | where ZD is the zenith-distance
|
|---|
| 911 | insitu: if False a new scantable is returned.
|
|---|
| 912 | Otherwise, the scaling is done in-situ
|
|---|
| 913 | The default is taken from .asaprc (False)
|
|---|
| 914 | """
|
|---|
| 915 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 916 | self._math._setinsitu(insitu)
|
|---|
| [513] | 917 | varlist = vars()
|
|---|
| [876] | 918 | s = scantable(self._math._opacity(self, tau))
|
|---|
| 919 | s._add_history("opacity", varlist)
|
|---|
| 920 | print_log()
|
|---|
| 921 | if insitu: self._assign(s)
|
|---|
| 922 | else: return s
|
|---|
| [513] | 923 |
|
|---|
| 924 | def bin(self, width=5, insitu=None):
|
|---|
| 925 | """
|
|---|
| 926 | Return a scan where all spectra have been binned up.
|
|---|
| 927 | width: The bin width (default=5) in pixels
|
|---|
| 928 | insitu: if False a new scantable is returned.
|
|---|
| 929 | Otherwise, the scaling is done in-situ
|
|---|
| 930 | The default is taken from .asaprc (False)
|
|---|
| 931 | """
|
|---|
| 932 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 933 | self._math._setinsitu(insitu)
|
|---|
| [513] | 934 | varlist = vars()
|
|---|
| [876] | 935 | s = scantable(self._math._bin(self, width))
|
|---|
| 936 | s._add_history("bin",varlist)
|
|---|
| 937 | print_log()
|
|---|
| 938 | if insitu: self._assign(s)
|
|---|
| 939 | else: return s
|
|---|
| [513] | 940 |
|
|---|
| [710] | 941 |
|
|---|
| [513] | 942 | def resample(self, width=5, method='cubic', insitu=None):
|
|---|
| 943 | """
|
|---|
| 944 | Return a scan where all spectra have been binned up
|
|---|
| 945 | width: The bin width (default=5) in pixels
|
|---|
| 946 | method: Interpolation method when correcting from a table.
|
|---|
| 947 | Values are "nearest", "linear", "cubic" (default)
|
|---|
| 948 | and "spline"
|
|---|
| 949 | insitu: if False a new scantable is returned.
|
|---|
| 950 | Otherwise, the scaling is done in-situ
|
|---|
| 951 | The default is taken from .asaprc (False)
|
|---|
| 952 | """
|
|---|
| 953 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 954 | self._math._setinsitu(insitu)
|
|---|
| [513] | 955 | varlist = vars()
|
|---|
| [876] | 956 | s = scantable(self._math._resample(self, method, width))
|
|---|
| 957 | s._add_history("resample",varlist)
|
|---|
| 958 | print_log()
|
|---|
| 959 | if insitu: self._assign(s)
|
|---|
| 960 | else: return s
|
|---|
| [513] | 961 |
|
|---|
| 962 |
|
|---|
| [946] | 963 | def average_pol(self, mask=None, weight='none'):
|
|---|
| 964 | """
|
|---|
| 965 | Average the Polarisations together.
|
|---|
| 966 | Parameters:
|
|---|
| 967 | mask: An optional mask defining the region, where the
|
|---|
| 968 | averaging will be applied. The output will have all
|
|---|
| 969 | specified points masked.
|
|---|
| 970 | weight: Weighting scheme. 'none' (default), 'var' (1/var(spec)
|
|---|
| 971 | weighted), or 'tsys' (1/Tsys**2 weighted)
|
|---|
| 972 | """
|
|---|
| 973 | varlist = vars()
|
|---|
| 974 | if mask is None:
|
|---|
| 975 | mask = ()
|
|---|
| [992] | 976 | s = scantable(self._math._averagepol(self, mask, weight))
|
|---|
| [946] | 977 | s._add_history("average_pol",varlist)
|
|---|
| 978 | print_log()
|
|---|
| [992] | 979 | return s
|
|---|
| [513] | 980 |
|
|---|
| [992] | 981 | def convert_pol(self, poltype=None):
|
|---|
| 982 | """
|
|---|
| 983 | Convert the data to a different polarisation type.
|
|---|
| 984 | Parameters:
|
|---|
| 985 | poltype: The new polarisation type. Valid types are:
|
|---|
| 986 | "linear", "stokes" and "circular"
|
|---|
| 987 | """
|
|---|
| 988 | varlist = vars()
|
|---|
| 989 | try:
|
|---|
| 990 | s = scantable(self._math._convertpol(self, poltype))
|
|---|
| 991 | except RuntimeError,msg:
|
|---|
| 992 | if rcParams['verbose']:
|
|---|
| 993 | print msg
|
|---|
| 994 | return
|
|---|
| 995 | else:
|
|---|
| 996 | raise
|
|---|
| 997 | s._add_history("convert_pol",varlist)
|
|---|
| 998 | print_log()
|
|---|
| 999 | return s
|
|---|
| 1000 |
|
|---|
| [876] | 1001 | def smooth(self, kernel="hanning", width=5.0, insitu=None):
|
|---|
| [513] | 1002 | """
|
|---|
| 1003 | Smooth the spectrum by the specified kernel (conserving flux).
|
|---|
| 1004 | Parameters:
|
|---|
| 1005 | scan: The input scan
|
|---|
| 1006 | kernel: The type of smoothing kernel. Select from
|
|---|
| 1007 | 'hanning' (default), 'gaussian' and 'boxcar'.
|
|---|
| 1008 | The first three characters are sufficient.
|
|---|
| 1009 | width: The width of the kernel in pixels. For hanning this is
|
|---|
| 1010 | ignored otherwise it defauls to 5 pixels.
|
|---|
| 1011 | For 'gaussian' it is the Full Width Half
|
|---|
| 1012 | Maximum. For 'boxcar' it is the full width.
|
|---|
| 1013 | insitu: if False a new scantable is returned.
|
|---|
| 1014 | Otherwise, the scaling is done in-situ
|
|---|
| 1015 | The default is taken from .asaprc (False)
|
|---|
| 1016 | Example:
|
|---|
| 1017 | none
|
|---|
| 1018 | """
|
|---|
| 1019 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 1020 | self._math._setinsitu(insitu)
|
|---|
| [513] | 1021 | varlist = vars()
|
|---|
| [876] | 1022 | s = scantable(self._math._smooth(self,kernel,width))
|
|---|
| 1023 | s._add_history("smooth", varlist)
|
|---|
| 1024 | print_log()
|
|---|
| 1025 | if insitu: self._assign(s)
|
|---|
| 1026 | else: return s
|
|---|
| [513] | 1027 |
|
|---|
| [876] | 1028 |
|
|---|
| 1029 | def poly_baseline(self, mask=None, order=0, insitu=None):
|
|---|
| [513] | 1030 | """
|
|---|
| 1031 | Return a scan which has been baselined (all rows) by a polynomial.
|
|---|
| 1032 | Parameters:
|
|---|
| [794] | 1033 | scan: a scantable
|
|---|
| 1034 | mask: an optional mask
|
|---|
| 1035 | order: the order of the polynomial (default is 0)
|
|---|
| 1036 | insitu: if False a new scantable is returned.
|
|---|
| 1037 | Otherwise, the scaling is done in-situ
|
|---|
| 1038 | The default is taken from .asaprc (False)
|
|---|
| 1039 | allaxes: If True (default) apply to all spectra. Otherwise
|
|---|
| 1040 | apply only to the selected (beam/pol/if)spectra only
|
|---|
| 1041 | The default is taken from .asaprc (True if none)
|
|---|
| [513] | 1042 | Example:
|
|---|
| 1043 | # return a scan baselined by a third order polynomial,
|
|---|
| 1044 | # not using a mask
|
|---|
| 1045 | bscan = scan.poly_baseline(order=3)
|
|---|
| [579] | 1046 | """
|
|---|
| [513] | 1047 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| 1048 | varlist = vars()
|
|---|
| 1049 | if mask is None:
|
|---|
| 1050 | from numarray import ones
|
|---|
| [876] | 1051 | mask = list(ones(self.nchan(-1)))
|
|---|
| [513] | 1052 | from asap.asapfitter import fitter
|
|---|
| 1053 | f = fitter()
|
|---|
| 1054 | f.set_scan(self, mask)
|
|---|
| 1055 | f.set_function(poly=order)
|
|---|
| [876] | 1056 | s = f.auto_fit(insitu)
|
|---|
| 1057 | s._add_history("poly_baseline", varlist)
|
|---|
| [718] | 1058 | print_log()
|
|---|
| [876] | 1059 | if insitu: self._assign(s)
|
|---|
| 1060 | else: return s
|
|---|
| [513] | 1061 |
|
|---|
| [931] | 1062 | def auto_poly_baseline(self, mask=[], edge=(0,0), order=0,
|
|---|
| [880] | 1063 | threshold=3, insitu=None):
|
|---|
| 1064 | """
|
|---|
| 1065 | Return a scan which has been baselined (all rows) by a polynomial.
|
|---|
| 1066 | Spectral lines are detected first using linefinder and masked out
|
|---|
| 1067 | to avoid them affecting the baseline solution.
|
|---|
| 1068 |
|
|---|
| 1069 | Parameters:
|
|---|
| 1070 | mask: an optional mask retreived from scantable
|
|---|
| 1071 | edge: an optional number of channel to drop at
|
|---|
| 1072 | the edge of spectrum. If only one value is
|
|---|
| 1073 | specified, the same number will be dropped from
|
|---|
| 1074 | both sides of the spectrum. Default is to keep
|
|---|
| [907] | 1075 | all channels. Nested tuples represent individual
|
|---|
| [976] | 1076 | edge selection for different IFs (a number of spectral
|
|---|
| 1077 | channels can be different)
|
|---|
| [880] | 1078 | order: the order of the polynomial (default is 0)
|
|---|
| 1079 | threshold: the threshold used by line finder. It is better to
|
|---|
| 1080 | keep it large as only strong lines affect the
|
|---|
| 1081 | baseline solution.
|
|---|
| 1082 | insitu: if False a new scantable is returned.
|
|---|
| 1083 | Otherwise, the scaling is done in-situ
|
|---|
| 1084 | The default is taken from .asaprc (False)
|
|---|
| 1085 |
|
|---|
| 1086 | Example:
|
|---|
| 1087 | scan2=scan.auto_poly_baseline(order=7)
|
|---|
| 1088 | """
|
|---|
| 1089 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| 1090 | varlist = vars()
|
|---|
| 1091 | from asap.asapfitter import fitter
|
|---|
| 1092 | from asap.asaplinefind import linefinder
|
|---|
| 1093 | from asap import _is_sequence_or_number as _is_valid
|
|---|
| 1094 |
|
|---|
| [976] | 1095 | # check whether edge is set up for each IF individually
|
|---|
| 1096 | individualEdge = False;
|
|---|
| 1097 | if len(edge)>1:
|
|---|
| 1098 | if isinstance(edge[0],list) or isinstance(edge[0],tuple):
|
|---|
| 1099 | individualEdge = True;
|
|---|
| [907] | 1100 |
|
|---|
| 1101 | if not _is_valid(edge, int) and not individualEdge:
|
|---|
| [909] | 1102 | raise ValueError, "Parameter 'edge' has to be an integer or a \
|
|---|
| [907] | 1103 | pair of integers specified as a tuple. Nested tuples are allowed \
|
|---|
| 1104 | to make individual selection for different IFs."
|
|---|
| [919] | 1105 |
|
|---|
| [976] | 1106 | curedge = (0,0)
|
|---|
| 1107 | if individualEdge:
|
|---|
| 1108 | for edge_par in edge:
|
|---|
| 1109 | if not _is_valid(edge,int):
|
|---|
| 1110 | raise ValueError, "Each element of the 'edge' tuple has \
|
|---|
| [907] | 1111 | to be a pair of integers or an integer."
|
|---|
| 1112 | else:
|
|---|
| [976] | 1113 | curedge = edge;
|
|---|
| [880] | 1114 |
|
|---|
| 1115 | # setup fitter
|
|---|
| 1116 | f = fitter()
|
|---|
| 1117 | f.set_function(poly=order)
|
|---|
| 1118 |
|
|---|
| 1119 | # setup line finder
|
|---|
| 1120 | fl=linefinder()
|
|---|
| 1121 | fl.set_options(threshold=threshold)
|
|---|
| 1122 |
|
|---|
| 1123 | if not insitu:
|
|---|
| 1124 | workscan=self.copy()
|
|---|
| 1125 | else:
|
|---|
| 1126 | workscan=self
|
|---|
| 1127 |
|
|---|
| [907] | 1128 | fl.set_scan(workscan)
|
|---|
| 1129 |
|
|---|
| [880] | 1130 | rows=range(workscan.nrow())
|
|---|
| 1131 | from asap import asaplog
|
|---|
| 1132 | asaplog.push("Processing:")
|
|---|
| 1133 | for r in rows:
|
|---|
| 1134 | msg = " Scan[%d] Beam[%d] IF[%d] Pol[%d] Cycle[%d]" % (workscan.getscan(r),workscan.getbeam(r),workscan.getif(r),workscan.getpol(r), workscan.getcycle(r))
|
|---|
| 1135 | asaplog.push(msg, False)
|
|---|
| [907] | 1136 |
|
|---|
| [976] | 1137 | # figure out edge parameter
|
|---|
| 1138 | if individualEdge:
|
|---|
| 1139 | if len(edge)>=workscan.getif(r):
|
|---|
| 1140 | raise RuntimeError, "Number of edge elements appear to be less than the number of IFs"
|
|---|
| 1141 | curedge = edge[workscan.getif(r)]
|
|---|
| [919] | 1142 |
|
|---|
| [976] | 1143 | # setup line finder
|
|---|
| [907] | 1144 | fl.find_lines(r,mask,curedge)
|
|---|
| [880] | 1145 | f.set_scan(workscan, fl.get_mask())
|
|---|
| 1146 | f.x = workscan._getabcissa(r)
|
|---|
| 1147 | f.y = workscan._getspectrum(r)
|
|---|
| 1148 | f.data = None
|
|---|
| 1149 | f.fit()
|
|---|
| 1150 | x = f.get_parameters()
|
|---|
| 1151 | workscan._setspectrum(f.fitter.getresidual(), r)
|
|---|
| 1152 | workscan._add_history("poly_baseline", varlist)
|
|---|
| 1153 | if insitu:
|
|---|
| 1154 | self._assign(workscan)
|
|---|
| 1155 | else:
|
|---|
| 1156 | return workscan
|
|---|
| 1157 |
|
|---|
| [914] | 1158 | def rotate_linpolphase(self, angle):
|
|---|
| 1159 | """
|
|---|
| 1160 | Rotate the phase of the complex polarization O=Q+iU correlation.
|
|---|
| 1161 | This is always done in situ in the raw data. So if you call this
|
|---|
| 1162 | function more than once then each call rotates the phase further.
|
|---|
| 1163 | Parameters:
|
|---|
| 1164 | angle: The angle (degrees) to rotate (add) by.
|
|---|
| 1165 | Examples:
|
|---|
| 1166 | scan.rotate_linpolphase(2.3)
|
|---|
| 1167 | """
|
|---|
| 1168 | varlist = vars()
|
|---|
| [936] | 1169 | self._math._rotate_linpolphase(self, angle)
|
|---|
| [914] | 1170 | self._add_history("rotate_linpolphase", varlist)
|
|---|
| 1171 | print_log()
|
|---|
| 1172 | return
|
|---|
| [710] | 1173 |
|
|---|
| [513] | 1174 |
|
|---|
| [914] | 1175 | def rotate_xyphase(self, angle):
|
|---|
| 1176 | """
|
|---|
| 1177 | Rotate the phase of the XY correlation. This is always done in situ
|
|---|
| 1178 | in the data. So if you call this function more than once
|
|---|
| 1179 | then each call rotates the phase further.
|
|---|
| 1180 | Parameters:
|
|---|
| 1181 | angle: The angle (degrees) to rotate (add) by.
|
|---|
| 1182 | Examples:
|
|---|
| 1183 | scan.rotate_xyphase(2.3)
|
|---|
| 1184 | """
|
|---|
| 1185 | varlist = vars()
|
|---|
| [936] | 1186 | self._math._rotate_xyphase(self, angle)
|
|---|
| [914] | 1187 | self._add_history("rotate_xyphase", varlist)
|
|---|
| 1188 | print_log()
|
|---|
| 1189 | return
|
|---|
| 1190 |
|
|---|
| 1191 | def swap_linears(self):
|
|---|
| 1192 | """
|
|---|
| 1193 | Swap the linear polarisations XX and YY
|
|---|
| 1194 | """
|
|---|
| 1195 | varlist = vars()
|
|---|
| [936] | 1196 | self._math._swap_linears(self)
|
|---|
| [914] | 1197 | self._add_history("swap_linears", varlist)
|
|---|
| 1198 | print_log()
|
|---|
| 1199 | return
|
|---|
| 1200 |
|
|---|
| 1201 | def invert_phase(self):
|
|---|
| 1202 | """
|
|---|
| 1203 | Invert the phase of the complex polarisation
|
|---|
| 1204 | """
|
|---|
| 1205 | varlist = vars()
|
|---|
| [936] | 1206 | self._math._invert_phase(self)
|
|---|
| [914] | 1207 | self._add_history("invert_phase", varlist)
|
|---|
| 1208 | print_log()
|
|---|
| 1209 | return
|
|---|
| 1210 |
|
|---|
| [876] | 1211 | def add(self, offset, insitu=None):
|
|---|
| [513] | 1212 | """
|
|---|
| 1213 | Return a scan where all spectra have the offset added
|
|---|
| 1214 | Parameters:
|
|---|
| 1215 | offset: the offset
|
|---|
| 1216 | insitu: if False a new scantable is returned.
|
|---|
| 1217 | Otherwise, the scaling is done in-situ
|
|---|
| 1218 | The default is taken from .asaprc (False)
|
|---|
| 1219 | """
|
|---|
| 1220 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 1221 | self._math._setinsitu(insitu)
|
|---|
| [513] | 1222 | varlist = vars()
|
|---|
| [876] | 1223 | s = scantable(self._math._unaryop(self, offset, "ADD", False))
|
|---|
| 1224 | s._add_history("add",varlist)
|
|---|
| 1225 | print_log()
|
|---|
| 1226 | if insitu:
|
|---|
| 1227 | self._assign(s)
|
|---|
| 1228 | else:
|
|---|
| [513] | 1229 | return s
|
|---|
| 1230 |
|
|---|
| [876] | 1231 | def scale(self, factor, tsys=True, insitu=None,):
|
|---|
| [513] | 1232 | """
|
|---|
| 1233 | Return a scan where all spectra are scaled by the give 'factor'
|
|---|
| 1234 | Parameters:
|
|---|
| 1235 | factor: the scaling factor
|
|---|
| 1236 | insitu: if False a new scantable is returned.
|
|---|
| 1237 | Otherwise, the scaling is done in-situ
|
|---|
| 1238 | The default is taken from .asaprc (False)
|
|---|
| 1239 | tsys: if True (default) then apply the operation to Tsys
|
|---|
| 1240 | as well as the data
|
|---|
| 1241 | """
|
|---|
| 1242 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 1243 | self._math._setinsitu(insitu)
|
|---|
| [513] | 1244 | varlist = vars()
|
|---|
| [876] | 1245 | s = scantable(self._math._unaryop(self, factor, "MUL", tsys))
|
|---|
| 1246 | s._add_history("scale",varlist)
|
|---|
| 1247 | print_log()
|
|---|
| 1248 | if insitu:
|
|---|
| 1249 | self._assign(s)
|
|---|
| 1250 | else:
|
|---|
| [513] | 1251 | return s
|
|---|
| 1252 |
|
|---|
| [876] | 1253 | def auto_quotient(self, mode='time', preserve=True):
|
|---|
| [670] | 1254 | """
|
|---|
| 1255 | This function allows to build quotients automatically.
|
|---|
| 1256 | It assumes the observation to have the same numer of
|
|---|
| 1257 | "ons" and "offs"
|
|---|
| 1258 | It will support "closest off in time" in the future
|
|---|
| 1259 | Parameters:
|
|---|
| 1260 | mode: the on/off detection mode; 'suffix' (default)
|
|---|
| 1261 | 'suffix' identifies 'off' scans by the
|
|---|
| 1262 | trailing '_R' (Mopra/Parkes) or
|
|---|
| 1263 | '_e'/'_w' (Tid)
|
|---|
| [710] | 1264 | preserve: you can preserve (default) the continuum or
|
|---|
| 1265 | remove it. The equations used are
|
|---|
| [670] | 1266 | preserve: Output = Toff * (on/off) - Toff
|
|---|
| 1267 | remove: Output = Tref * (on/off) - Ton
|
|---|
| 1268 | """
|
|---|
| [876] | 1269 | modes = ["time"]
|
|---|
| [670] | 1270 | if not mode in modes:
|
|---|
| [876] | 1271 | msg = "please provide valid mode. Valid modes are %s" % (modes)
|
|---|
| 1272 | raise ValueError(msg)
|
|---|
| 1273 | varlist = vars()
|
|---|
| 1274 | s = scantable(self._math._quotient(self, mode, preserve))
|
|---|
| 1275 | s._add_history("auto_quotient",varlist)
|
|---|
| 1276 | print_log()
|
|---|
| 1277 | return s
|
|---|
| [710] | 1278 |
|
|---|
| [513] | 1279 |
|
|---|
| [876] | 1280 |
|
|---|
| 1281 |
|
|---|
| [718] | 1282 | def freq_switch(self, insitu=None):
|
|---|
| 1283 | """
|
|---|
| 1284 | Apply frequency switching to the data.
|
|---|
| 1285 | Parameters:
|
|---|
| 1286 | insitu: if False a new scantable is returned.
|
|---|
| 1287 | Otherwise, the swictching is done in-situ
|
|---|
| 1288 | The default is taken from .asaprc (False)
|
|---|
| 1289 | Example:
|
|---|
| 1290 | none
|
|---|
| 1291 | """
|
|---|
| 1292 | if insitu is None: insitu = rcParams['insitu']
|
|---|
| [876] | 1293 | self._math._setinsitu(insitu)
|
|---|
| [718] | 1294 | varlist = vars()
|
|---|
| [876] | 1295 | s = scantable(self._math._freqswitch(self))
|
|---|
| 1296 | s._add_history("freq_switch",varlist)
|
|---|
| 1297 | print_log()
|
|---|
| 1298 | if insitu: self._assign(s)
|
|---|
| 1299 | else: return s
|
|---|
| [718] | 1300 |
|
|---|
| [780] | 1301 | def recalc_azel(self):
|
|---|
| 1302 | """
|
|---|
| 1303 | Recalculate the azimuth and elevation for each position.
|
|---|
| 1304 | Parameters:
|
|---|
| 1305 | none
|
|---|
| 1306 | Example:
|
|---|
| 1307 | """
|
|---|
| 1308 | varlist = vars()
|
|---|
| [876] | 1309 | self._recalcazel()
|
|---|
| [780] | 1310 | self._add_history("recalc_azel", varlist)
|
|---|
| 1311 | print_log()
|
|---|
| 1312 | return
|
|---|
| 1313 |
|
|---|
| [513] | 1314 | def __add__(self, other):
|
|---|
| 1315 | varlist = vars()
|
|---|
| 1316 | s = None
|
|---|
| 1317 | if isinstance(other, scantable):
|
|---|
| [876] | 1318 | print "scantable + scantable NYI"
|
|---|
| 1319 | return
|
|---|
| [513] | 1320 | elif isinstance(other, float):
|
|---|
| [876] | 1321 | s = scantable(self._math._unaryop(self, other, "ADD", False))
|
|---|
| [513] | 1322 | else:
|
|---|
| [718] | 1323 | raise TypeError("Other input is not a scantable or float value")
|
|---|
| [513] | 1324 | s._add_history("operator +", varlist)
|
|---|
| [718] | 1325 | print_log()
|
|---|
| [513] | 1326 | return s
|
|---|
| 1327 |
|
|---|
| 1328 | def __sub__(self, other):
|
|---|
| 1329 | """
|
|---|
| 1330 | implicit on all axes and on Tsys
|
|---|
| 1331 | """
|
|---|
| 1332 | varlist = vars()
|
|---|
| 1333 | s = None
|
|---|
| 1334 | if isinstance(other, scantable):
|
|---|
| [876] | 1335 | print "scantable - scantable NYI"
|
|---|
| 1336 | return
|
|---|
| [513] | 1337 | elif isinstance(other, float):
|
|---|
| [876] | 1338 | s = scantable(self._math._unaryop(self, other, "SUB", False))
|
|---|
| [513] | 1339 | else:
|
|---|
| [718] | 1340 | raise TypeError("Other input is not a scantable or float value")
|
|---|
| [513] | 1341 | s._add_history("operator -", varlist)
|
|---|
| [718] | 1342 | print_log()
|
|---|
| [513] | 1343 | return s
|
|---|
| [710] | 1344 |
|
|---|
| [513] | 1345 | def __mul__(self, other):
|
|---|
| 1346 | """
|
|---|
| 1347 | implicit on all axes and on Tsys
|
|---|
| 1348 | """
|
|---|
| 1349 | varlist = vars()
|
|---|
| 1350 | s = None
|
|---|
| 1351 | if isinstance(other, scantable):
|
|---|
| [876] | 1352 | print "scantable * scantable NYI"
|
|---|
| 1353 | return
|
|---|
| [513] | 1354 | elif isinstance(other, float):
|
|---|
| [876] | 1355 | s = scantable(self._math._unaryop(self, other, "MUL", False))
|
|---|
| [513] | 1356 | else:
|
|---|
| [718] | 1357 | raise TypeError("Other input is not a scantable or float value")
|
|---|
| [513] | 1358 | s._add_history("operator *", varlist)
|
|---|
| [718] | 1359 | print_log()
|
|---|
| [513] | 1360 | return s
|
|---|
| 1361 |
|
|---|
| [710] | 1362 |
|
|---|
| [513] | 1363 | def __div__(self, other):
|
|---|
| 1364 | """
|
|---|
| 1365 | implicit on all axes and on Tsys
|
|---|
| 1366 | """
|
|---|
| 1367 | varlist = vars()
|
|---|
| 1368 | s = None
|
|---|
| 1369 | if isinstance(other, scantable):
|
|---|
| [876] | 1370 | print "scantable / scantable NYI"
|
|---|
| 1371 | return
|
|---|
| [513] | 1372 | elif isinstance(other, float):
|
|---|
| 1373 | if other == 0.0:
|
|---|
| [718] | 1374 | raise ZeroDivisionError("Dividing by zero is not recommended")
|
|---|
| [876] | 1375 | s = scantable(self._math._unaryop(self, other, "DIV", False))
|
|---|
| [513] | 1376 | else:
|
|---|
| [718] | 1377 | raise TypeError("Other input is not a scantable or float value")
|
|---|
| [513] | 1378 | s._add_history("operator /", varlist)
|
|---|
| [718] | 1379 | print_log()
|
|---|
| [513] | 1380 | return s
|
|---|
| 1381 |
|
|---|
| [530] | 1382 | def get_fit(self, row=0):
|
|---|
| 1383 | """
|
|---|
| 1384 | Print or return the stored fits for a row in the scantable
|
|---|
| 1385 | Parameters:
|
|---|
| 1386 | row: the row which the fit has been applied to.
|
|---|
| 1387 | """
|
|---|
| 1388 | if row > self.nrow():
|
|---|
| 1389 | return
|
|---|
| [976] | 1390 | from asap.asapfit import asapfit
|
|---|
| [530] | 1391 | fit = asapfit(self._getfit(row))
|
|---|
| [718] | 1392 | if rcParams['verbose']:
|
|---|
| [530] | 1393 | print fit
|
|---|
| 1394 | return
|
|---|
| 1395 | else:
|
|---|
| 1396 | return fit.as_dict()
|
|---|
| 1397 |
|
|---|
| [484] | 1398 | def _add_history(self, funcname, parameters):
|
|---|
| 1399 | # create date
|
|---|
| 1400 | sep = "##"
|
|---|
| 1401 | from datetime import datetime
|
|---|
| 1402 | dstr = datetime.now().strftime('%Y/%m/%d %H:%M:%S')
|
|---|
| 1403 | hist = dstr+sep
|
|---|
| 1404 | hist += funcname+sep#cdate+sep
|
|---|
| 1405 | if parameters.has_key('self'): del parameters['self']
|
|---|
| 1406 | for k,v in parameters.iteritems():
|
|---|
| 1407 | if type(v) is dict:
|
|---|
| 1408 | for k2,v2 in v.iteritems():
|
|---|
| 1409 | hist += k2
|
|---|
| 1410 | hist += "="
|
|---|
| 1411 | if isinstance(v2,scantable):
|
|---|
| 1412 | hist += 'scantable'
|
|---|
| 1413 | elif k2 == 'mask':
|
|---|
| [513] | 1414 | if isinstance(v2,list) or isinstance(v2,tuple):
|
|---|
| 1415 | hist += str(self._zip_mask(v2))
|
|---|
| 1416 | else:
|
|---|
| 1417 | hist += str(v2)
|
|---|
| [484] | 1418 | else:
|
|---|
| [513] | 1419 | hist += str(v2)
|
|---|
| [484] | 1420 | else:
|
|---|
| 1421 | hist += k
|
|---|
| 1422 | hist += "="
|
|---|
| 1423 | if isinstance(v,scantable):
|
|---|
| 1424 | hist += 'scantable'
|
|---|
| 1425 | elif k == 'mask':
|
|---|
| [513] | 1426 | if isinstance(v,list) or isinstance(v,tuple):
|
|---|
| 1427 | hist += str(self._zip_mask(v))
|
|---|
| 1428 | else:
|
|---|
| 1429 | hist += str(v)
|
|---|
| [484] | 1430 | else:
|
|---|
| 1431 | hist += str(v)
|
|---|
| 1432 | hist += sep
|
|---|
| 1433 | hist = hist[:-2] # remove trailing '##'
|
|---|
| 1434 | self._addhistory(hist)
|
|---|
| 1435 |
|
|---|
| [710] | 1436 |
|
|---|
| [484] | 1437 | def _zip_mask(self, mask):
|
|---|
| 1438 | mask = list(mask)
|
|---|
| 1439 | i = 0
|
|---|
| 1440 | segments = []
|
|---|
| 1441 | while mask[i:].count(1):
|
|---|
| 1442 | i += mask[i:].index(1)
|
|---|
| 1443 | if mask[i:].count(0):
|
|---|
| 1444 | j = i + mask[i:].index(0)
|
|---|
| 1445 | else:
|
|---|
| [710] | 1446 | j = len(mask)
|
|---|
| [484] | 1447 | segments.append([i,j])
|
|---|
| [710] | 1448 | i = j
|
|---|
| [484] | 1449 | return segments
|
|---|
| [714] | 1450 |
|
|---|
| [626] | 1451 | def _get_ordinate_label(self):
|
|---|
| 1452 | fu = "("+self.get_fluxunit()+")"
|
|---|
| 1453 | import re
|
|---|
| 1454 | lbl = "Intensity"
|
|---|
| 1455 | if re.match(".K.",fu):
|
|---|
| 1456 | lbl = "Brightness Temperature "+ fu
|
|---|
| 1457 | elif re.match(".Jy.",fu):
|
|---|
| 1458 | lbl = "Flux density "+ fu
|
|---|
| 1459 | return lbl
|
|---|
| [710] | 1460 |
|
|---|
| [876] | 1461 | def _check_ifs(self):
|
|---|
| 1462 | nchans = [self.nchan(i) for i in range(self.nif(-1))]
|
|---|
| [889] | 1463 | nchans = filter(lambda t: t > 0, nchans)
|
|---|
| [876] | 1464 | return (sum(nchans)/len(nchans) == nchans[0])
|
|---|
| [976] | 1465 |
|
|---|
| 1466 | def _fill(self, names, unit, average):
|
|---|
| 1467 | import os
|
|---|
| 1468 | varlist = vars()
|
|---|
| 1469 | from asap._asap import stfiller
|
|---|
| 1470 | first = True
|
|---|
| 1471 | fullnames = []
|
|---|
| 1472 | for name in names:
|
|---|
| 1473 | name = os.path.expandvars(name)
|
|---|
| 1474 | name = os.path.expanduser(name)
|
|---|
| 1475 | if not os.path.exists(name):
|
|---|
| 1476 | msg = "File '%s' does not exists" % (name)
|
|---|
| 1477 | if rcParams['verbose']:
|
|---|
| 1478 | asaplog.push(msg)
|
|---|
| 1479 | print asaplog.pop().strip()
|
|---|
| 1480 | return
|
|---|
| 1481 | raise IOError(msg)
|
|---|
| 1482 | fullnames.append(name)
|
|---|
| 1483 | if average:
|
|---|
| 1484 | asaplog.push('Auto averaging integrations')
|
|---|
| 1485 | for name in fullnames:
|
|---|
| 1486 | r = stfiller()
|
|---|
| 1487 | msg = "Importing %s..." % (name)
|
|---|
| 1488 | asaplog.push(msg,False)
|
|---|
| 1489 | print_log()
|
|---|
| 1490 | r._open(name,-1,-1)
|
|---|
| 1491 | r._read()
|
|---|
| 1492 | tbl = r._getdata()
|
|---|
| 1493 | if average:
|
|---|
| [981] | 1494 | tbl = self._math._average((tbl,),(),'NONE','SCAN')
|
|---|
| [976] | 1495 | #tbl = tbl2
|
|---|
| 1496 | if not first:
|
|---|
| 1497 | tbl = self._math._merge([self, tbl])
|
|---|
| 1498 | #tbl = tbl2
|
|---|
| 1499 | Scantable.__init__(self, tbl)
|
|---|
| 1500 | r._close()
|
|---|
| 1501 | del r,tbl
|
|---|
| 1502 | first = False
|
|---|
| 1503 | if unit is not None:
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| 1504 | self.set_fluxunit(unit)
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| 1505 | self.set_freqframe(rcParams['scantable.freqframe'])
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| 1506 | #self._add_history("scantable", varlist)
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| 1507 |
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