| 1 | from asap._asap import sdtable |
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| 2 | from asap import rcParams |
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| 3 | from numarray import ones,zeros |
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| 4 | import sys |
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| 5 | |
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| 6 | class scantable(sdtable): |
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| 7 | """ |
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| 8 | The ASAP container for scans |
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| 9 | """ |
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| 10 | |
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| 11 | def __init__(self, filename, unit=None): |
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| 12 | """ |
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| 13 | Create a scantable from a saved one or make a reference |
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| 14 | Parameters: |
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| 15 | filename: the name of an asap table on disk |
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| 16 | or |
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| 17 | the name of a rpfits/sdfits/ms file |
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| 18 | (integrations within scans are auto averaged |
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| 19 | and the whole file is read) |
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| 20 | or |
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| 21 | [advanced] a reference to an existing |
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| 22 | scantable |
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| 23 | unit: brightness unit; must be consistent with K or Jy. |
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| 24 | Over-rides the default selected by the reader |
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| 25 | (input rpfits/sdfits/ms) or replaces the value |
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| 26 | in existing scantables |
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| 27 | """ |
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| 28 | self._vb = rcParams['verbose'] |
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| 29 | self._p = None |
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| 30 | from os import stat as st |
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| 31 | import stat |
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| 32 | if isinstance(filename,sdtable): |
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| 33 | sdtable.__init__(self, filename) |
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| 34 | if unit is not None: |
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| 35 | self.set_fluxunit(unit) |
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| 36 | else: |
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| 37 | import os.path |
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| 38 | if not os.path.exists(filename): |
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| 39 | print "File '%s' not found." % (filename) |
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| 40 | return |
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| 41 | filename = os.path.expandvars(filename) |
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| 42 | if os.path.isdir(filename): |
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| 43 | # crude check if asap table |
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| 44 | if os.path.exists(filename+'/table.info'): |
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| 45 | sdtable.__init__(self, filename) |
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| 46 | if unit is not None: |
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| 47 | self.set_fluxunit(unit) |
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| 48 | else: |
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| 49 | print "The given file '%s'is not a valid asap table." % (filename) |
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| 50 | return |
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| 51 | else: |
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| 52 | autoav = rcParams['scantable.autoaverage'] |
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| 53 | |
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| 54 | from asap._asap import sdreader |
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| 55 | ifSel = -1 |
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| 56 | beamSel = -1 |
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| 57 | r = sdreader(filename,ifSel,beamSel) |
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| 58 | print 'Importing data...' |
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| 59 | r._read([-1]) |
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| 60 | tbl = r._getdata() |
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| 61 | if unit is not None: |
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| 62 | tbl.set_fluxunit(unit) |
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| 63 | if autoav: |
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| 64 | from asap._asap import average |
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| 65 | tmp = tuple([tbl]) |
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| 66 | print 'Auto averaging integrations...' |
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| 67 | tbl2 = average(tmp,(),True,'none') |
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| 68 | sdtable.__init__(self,tbl2) |
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| 69 | del r,tbl |
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| 70 | else: |
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| 71 | sdtable.__init__(self,tbl) |
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| 72 | |
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| 73 | def save(self, name=None, format=None, overwrite=False): |
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| 74 | """ |
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| 75 | Store the scantable on disk. This can be an asap (aips++) Table, SDFITS, |
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| 76 | Image FITS or MS2 format. |
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| 77 | Parameters: |
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| 78 | name: the name of the outputfile. For format="FITS" this |
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| 79 | is the directory file name into which all the files will |
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| 80 | be written (default is 'asap_FITS') |
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| 81 | format: an optional file format. Default is ASAP. |
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| 82 | Allowed are - 'ASAP' (save as ASAP [aips++] Table), |
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| 83 | 'SDFITS' (save as SDFITS file) |
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| 84 | 'FITS' (saves each row as a FITS Image) |
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| 85 | 'ASCII' (saves as ascii text file) |
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| 86 | 'MS2' (saves as an aips++ |
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| 87 | MeasurementSet V2) |
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| 88 | overwrite: If the file should be overwritten if it exists. |
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| 89 | The default False is to return with warning |
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| 90 | without writing the output. USE WITH CARE. |
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| 91 | Example: |
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| 92 | scan.save('myscan.asap') |
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| 93 | scan.save('myscan.sdfits','SDFITS') |
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| 94 | """ |
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| 95 | from os import path |
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| 96 | if format is None: format = rcParams['scantable.save'] |
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| 97 | suffix = '.'+format.lower() |
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| 98 | if name is None or name =="": |
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| 99 | name = 'scantable'+suffix |
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| 100 | print "No filename given. Using default name %s..." % name |
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| 101 | name = path.expandvars(name) |
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| 102 | if path.isfile(name) or path.isdir(name): |
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| 103 | if not overwrite: |
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| 104 | print "File %s already exists." % name |
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| 105 | return |
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| 106 | if format == 'ASAP': |
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| 107 | self._save(name) |
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| 108 | else: |
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| 109 | from asap._asap import sdwriter as _sw |
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| 110 | w = _sw(format) |
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| 111 | w.write(self, name) |
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| 112 | return |
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| 113 | |
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| 114 | def copy(self): |
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| 115 | """ |
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| 116 | Return a copy of this scantable. |
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| 117 | Parameters: |
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| 118 | none |
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| 119 | Example: |
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| 120 | copiedscan = scan.copy() |
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| 121 | """ |
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| 122 | sd = scantable(sdtable._copy(self)) |
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| 123 | return sd |
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| 124 | |
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| 125 | def get_scan(self, scanid=None): |
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| 126 | """ |
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| 127 | Return a specific scan (by scanno) or collection of scans (by |
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| 128 | source name) in a new scantable. |
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| 129 | Parameters: |
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| 130 | scanid: a scanno or a source name |
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| 131 | Example: |
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| 132 | scan.get_scan('323p459') |
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| 133 | # gets all scans containing the source '323p459' |
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| 134 | """ |
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| 135 | if scanid is None: |
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| 136 | print "Please specify a scan no or name to retrieve from the scantable" |
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| 137 | try: |
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| 138 | if type(scanid) is str: |
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| 139 | s = sdtable._getsource(self,scanid) |
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| 140 | return scantable(s) |
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| 141 | elif type(scanid) is int: |
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| 142 | s = sdtable._getscan(self,[scanid]) |
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| 143 | return scantable(s) |
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| 144 | elif type(scanid) is list: |
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| 145 | s = sdtable._getscan(self,scanid) |
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| 146 | return scantable(s) |
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| 147 | else: |
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| 148 | print "Illegal scanid type, use 'int' or 'list' if ints." |
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| 149 | except RuntimeError: |
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| 150 | print "Couldn't find any match." |
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| 151 | |
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| 152 | def __str__(self): |
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| 153 | return sdtable._summary(self,True) |
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| 154 | |
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| 155 | def summary(self,filename=None, verbose=None): |
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| 156 | """ |
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| 157 | Print a summary of the contents of this scantable. |
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| 158 | Parameters: |
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| 159 | filename: the name of a file to write the putput to |
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| 160 | Default - no file output |
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| 161 | verbose: print extra info such as the frequency table |
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| 162 | The default (False) is taken from .asaprc |
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| 163 | """ |
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| 164 | info = sdtable._summary(self, verbose) |
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| 165 | if verbose is None: verbose = rcParams['scantable.verbosesummary'] |
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| 166 | if filename is not None: |
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| 167 | if filename is "": |
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| 168 | filename = 'scantable_summary.txt' |
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| 169 | from os.path import expandvars, isdir |
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| 170 | filename = expandvars(filename) |
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| 171 | if not isdir(filename): |
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| 172 | data = open(filename, 'w') |
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| 173 | data.write(info) |
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| 174 | data.close() |
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| 175 | else: |
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| 176 | print "Illegal file name '%s'." % (filename) |
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| 177 | print info |
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| 178 | |
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| 179 | def set_cursor(self, thebeam=0,theif=0,thepol=0): |
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| 180 | """ |
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| 181 | Set the spectrum for individual operations. |
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| 182 | Parameters: |
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| 183 | thebeam,theif,thepol: a number |
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| 184 | Example: |
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| 185 | scan.set_cursor(0,0,1) |
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| 186 | pol1sig = scan.stats(all=False) # returns std dev for beam=0 |
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| 187 | # if=0, pol=1 |
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| 188 | """ |
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| 189 | self.setbeam(thebeam) |
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| 190 | self.setpol(thepol) |
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| 191 | self.setif(theif) |
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| 192 | return |
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| 193 | |
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| 194 | def get_cursor(self): |
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| 195 | """ |
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| 196 | Return/print a the current 'cursor' into the Beam/IF/Pol cube. |
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| 197 | Parameters: |
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| 198 | none |
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| 199 | Returns: |
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| 200 | a list of values (currentBeam,currentIF,currentPol) |
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| 201 | Example: |
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| 202 | none |
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| 203 | """ |
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| 204 | i = self.getbeam() |
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| 205 | j = self.getif() |
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| 206 | k = self.getpol() |
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| 207 | if self._vb: |
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| 208 | print "--------------------------------------------------" |
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| 209 | print " Cursor position" |
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| 210 | print "--------------------------------------------------" |
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| 211 | out = 'Beam=%d IF=%d Pol=%d ' % (i,j,k) |
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| 212 | print out |
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| 213 | return i,j,k |
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| 214 | |
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| 215 | def stats(self, stat='stddev', mask=None, all=None): |
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| 216 | """ |
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| 217 | Determine the specified statistic of the current beam/if/pol |
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| 218 | Takes a 'mask' as an optional parameter to specify which |
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| 219 | channels should be excluded. |
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| 220 | Parameters: |
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| 221 | stat: 'min', 'max', 'sumsq', 'sum', 'mean' |
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| 222 | 'var', 'stddev', 'avdev', 'rms', 'median' |
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| 223 | mask: an optional mask specifying where the statistic |
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| 224 | should be determined. |
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| 225 | all: if true show all (default or .asaprc) rather |
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| 226 | that the cursor selected spectrum of Beam/IF/Pol |
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| 227 | |
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| 228 | Example: |
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| 229 | scan.set_unit('channel') |
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| 230 | msk = scan.create_mask([100,200],[500,600]) |
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| 231 | scan.stats(stat='mean', mask=m) |
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| 232 | """ |
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| 233 | if all is None: all = rcParams['scantable.allaxes'] |
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| 234 | from asap._asap import stats as _stats |
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| 235 | from numarray import array,zeros,Float |
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| 236 | if mask == None: |
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| 237 | mask = ones(self.nchan()) |
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| 238 | axes = ['Beam','IF','Pol','Time'] |
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| 239 | |
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| 240 | if all: |
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| 241 | n = self.nbeam()*self.nif()*self.npol()*self.nrow() |
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| 242 | shp = [self.nbeam(),self.nif(),self.npol(),self.nrow()] |
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| 243 | arr = array(zeros(n),shape=shp,type=Float) |
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| 244 | |
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| 245 | for i in range(self.nbeam()): |
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| 246 | self.setbeam(i) |
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| 247 | for j in range(self.nif()): |
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| 248 | self.setif(j) |
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| 249 | for k in range(self.npol()): |
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| 250 | self.setpol(k) |
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| 251 | arr[i,j,k,:] = _stats(self,mask,stat,-1) |
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| 252 | retval = {'axes': axes, 'data': arr, 'cursor':None} |
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| 253 | tm = [self._gettime(val) for val in range(self.nrow())] |
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| 254 | if self._vb: |
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| 255 | self._print_values(retval,stat,tm) |
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| 256 | return retval |
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| 257 | |
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| 258 | else: |
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| 259 | i,j,k = (self.getbeam(),self.getif(),self.getpol()) |
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| 260 | statval = _stats(self,mask,stat,-1) |
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| 261 | out = '' |
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| 262 | for l in range(self.nrow()): |
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| 263 | tm = self._gettime(l) |
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| 264 | out += 'Time[%s]:\n' % (tm) |
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| 265 | if self.nbeam() > 1: out += ' Beam[%d] ' % (i) |
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| 266 | if self.nif() > 1: out += ' IF[%d] ' % (j) |
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| 267 | if self.npol() > 1: out += ' Pol[%d] ' % (k) |
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| 268 | out += '= %3.3f\n' % (statval[l]) |
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| 269 | out += "--------------------------------------------------\n" |
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| 270 | |
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| 271 | if self._vb: |
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| 272 | print "--------------------------------------------------" |
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| 273 | print " ",stat |
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| 274 | print "--------------------------------------------------" |
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| 275 | print out |
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| 276 | retval = {'axes': axes, 'data': array(statval), 'cursor':(i,j,k)} |
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| 277 | return retval |
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| 278 | |
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| 279 | def stddev(self,mask=None, all=None): |
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| 280 | """ |
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| 281 | Determine the standard deviation of the current beam/if/pol |
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| 282 | Takes a 'mask' as an optional parameter to specify which |
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| 283 | channels should be excluded. |
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| 284 | Parameters: |
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| 285 | mask: an optional mask specifying where the standard |
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| 286 | deviation should be determined. |
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| 287 | all: optional flag to show all or a cursor selected |
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| 288 | spectrum of Beam/IF/Pol. Default is all or taken |
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| 289 | from .asaprc |
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| 290 | |
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| 291 | Example: |
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| 292 | scan.set_unit('channel') |
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| 293 | msk = scan.create_mask([100,200],[500,600]) |
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| 294 | scan.stddev(mask=m) |
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| 295 | """ |
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| 296 | if all is None: all = rcParams['scantable.allaxes'] |
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| 297 | return self.stats(stat='stddev',mask=mask, all=all); |
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| 298 | |
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| 299 | def get_tsys(self, all=None): |
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| 300 | """ |
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| 301 | Return the System temperatures. |
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| 302 | Parameters: |
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| 303 | all: optional parameter to get the Tsys values for all |
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| 304 | Beams/IFs/Pols (default) or just the one selected |
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| 305 | with scantable.set_cursor() |
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| 306 | [True or False] |
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| 307 | Returns: |
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| 308 | a list of Tsys values. |
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| 309 | """ |
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| 310 | if all is None: all = rcParams['scantable.allaxes'] |
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| 311 | from numarray import array,zeros,Float |
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| 312 | axes = ['Beam','IF','Pol','Time'] |
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| 313 | |
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| 314 | if all: |
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| 315 | n = self.nbeam()*self.nif()*self.npol()*self.nrow() |
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| 316 | shp = [self.nbeam(),self.nif(),self.npol(),self.nrow()] |
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| 317 | arr = array(zeros(n),shape=shp,type=Float) |
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| 318 | |
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| 319 | for i in range(self.nbeam()): |
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| 320 | self.setbeam(i) |
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| 321 | for j in range(self.nif()): |
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| 322 | self.setif(j) |
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| 323 | for k in range(self.npol()): |
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| 324 | self.setpol(k) |
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| 325 | arr[i,j,k,:] = self._gettsys() |
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| 326 | retval = {'axes': axes, 'data': arr, 'cursor':None} |
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| 327 | tm = [self._gettime(val) for val in range(self.nrow())] |
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| 328 | if self._vb: |
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| 329 | self._print_values(retval,'Tsys',tm) |
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| 330 | return retval |
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| 331 | |
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| 332 | else: |
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| 333 | i,j,k = (self.getbeam(),self.getif(),self.getpol()) |
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| 334 | statval = self._gettsys() |
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| 335 | out = '' |
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| 336 | for l in range(self.nrow()): |
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| 337 | tm = self._gettime(l) |
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| 338 | out += 'Time[%s]:\n' % (tm) |
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| 339 | if self.nbeam() > 1: out += ' Beam[%d] ' % (i) |
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| 340 | if self.nif() > 1: out += ' IF[%d] ' % (j) |
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| 341 | if self.npol() > 1: out += ' Pol[%d] ' % (k) |
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| 342 | out += '= %3.3f\n' % (statval[l]) |
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| 343 | out += "--------------------------------------------------\n" |
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| 344 | |
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| 345 | if self._vb: |
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| 346 | print "--------------------------------------------------" |
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| 347 | print " TSys" |
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| 348 | print "--------------------------------------------------" |
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| 349 | print out |
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| 350 | retval = {'axes': axes, 'data': array(statval), 'cursor':(i,j,k)} |
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| 351 | return retval |
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| 352 | |
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| 353 | def get_time(self, row=-1): |
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| 354 | """ |
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| 355 | Get a list of time stamps for the observations. |
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| 356 | Return a string for each integration in the scantable. |
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| 357 | Parameters: |
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| 358 | row: row no of integration. Default -1 return all rows |
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| 359 | Example: |
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| 360 | none |
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| 361 | """ |
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| 362 | out = [] |
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| 363 | if row == -1: |
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| 364 | for i in range(self.nrow()): |
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| 365 | out.append(self._gettime(i)) |
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| 366 | return out |
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| 367 | else: |
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| 368 | if row < self.nrow(): |
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| 369 | return self._gettime(row) |
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| 370 | |
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| 371 | def set_unit(self, unit='channel'): |
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| 372 | """ |
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| 373 | Set the unit for all following operations on this scantable |
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| 374 | Parameters: |
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| 375 | unit: optional unit, default is 'channel' |
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| 376 | one of '*Hz','km/s','channel', '' |
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| 377 | """ |
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| 378 | |
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| 379 | if unit in ['','pixel', 'channel']: |
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| 380 | unit = '' |
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| 381 | inf = list(self._getcoordinfo()) |
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| 382 | inf[0] = unit |
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| 383 | self._setcoordinfo(inf) |
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| 384 | if self._p: self.plot() |
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| 385 | |
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| 386 | def set_instrument (self, instr): |
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| 387 | """ |
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| 388 | Set the instrument for subsequent processing |
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| 389 | Parameters: |
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| 390 | instr: Select from 'ATPKSMB', 'ATPKSHOH', 'ATMOPRA', |
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| 391 | 'DSS-43' (Tid), 'CEDUNA', and 'HOBART' |
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| 392 | """ |
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| 393 | self._setInstrument(instr) |
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| 394 | |
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| 395 | def set_doppler(self, doppler='RADIO'): |
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| 396 | """ |
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| 397 | Set the doppler for all following operations on this scantable. |
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| 398 | Parameters: |
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| 399 | doppler: One of 'RADIO', 'OPTICAL', 'Z', 'BETA', 'GAMMA' |
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| 400 | """ |
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| 401 | |
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| 402 | inf = list(self._getcoordinfo()) |
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| 403 | inf[2] = doppler |
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| 404 | self._setcoordinfo(inf) |
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| 405 | if self._p: self.plot() |
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| 406 | |
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| 407 | def set_freqframe(self, frame=None): |
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| 408 | """ |
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| 409 | Set the frame type of the Spectral Axis. |
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| 410 | Parameters: |
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| 411 | frame: an optional frame type, default 'LSRK'. |
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| 412 | Examples: |
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| 413 | scan.set_freqframe('BARY') |
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| 414 | """ |
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| 415 | if not frame: frame = rcParams['scantable.freqframe'] |
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| 416 | valid = ['REST','TOPO','LSRD','LSRK','BARY', \ |
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| 417 | 'GEO','GALACTO','LGROUP','CMB'] |
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| 418 | if frame in valid: |
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| 419 | inf = list(self._getcoordinfo()) |
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| 420 | inf[1] = frame |
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| 421 | self._setcoordinfo(inf) |
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| 422 | else: |
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| 423 | print "Please specify a valid freq type. Valid types are:\n",valid |
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| 424 | |
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| 425 | def get_unit(self): |
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| 426 | """ |
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| 427 | Get the default unit set in this scantable |
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| 428 | Parameters: |
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| 429 | Returns: |
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| 430 | A unit string |
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| 431 | """ |
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| 432 | inf = self._getcoordinfo() |
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| 433 | unit = inf[0] |
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| 434 | if unit == '': unit = 'channel' |
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| 435 | return unit |
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| 436 | |
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| 437 | def get_abcissa(self, rowno=0): |
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| 438 | """ |
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| 439 | Get the abcissa in the current coordinate setup for the currently |
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| 440 | selected Beam/IF/Pol |
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| 441 | Parameters: |
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| 442 | rowno: an optional row number in the scantable. Default is the |
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| 443 | first row, i.e. rowno=0 |
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| 444 | Returns: |
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| 445 | The abcissa values and it's format string (as a dictionary) |
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| 446 | """ |
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| 447 | abc = self._getabcissa(rowno) |
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| 448 | lbl = self._getabcissalabel(rowno) |
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| 449 | return abc, lbl |
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| 450 | #return {'abcissa':abc,'label':lbl} |
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| 451 | |
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| 452 | def create_mask(self, *args, **kwargs): |
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| 453 | """ |
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| 454 | Compute and return a mask based on [min,max] windows. |
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| 455 | The specified windows are to be INCLUDED, when the mask is |
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| 456 | applied. |
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| 457 | Parameters: |
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| 458 | [min,max],[min2,max2],... |
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| 459 | Pairs of start/end points specifying the regions |
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| 460 | to be masked |
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| 461 | invert: optional argument. If specified as True, |
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| 462 | return an inverted mask, i.e. the regions |
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| 463 | specified are EXCLUDED |
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| 464 | Example: |
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| 465 | scan.set_unit('channel') |
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| 466 | |
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| 467 | a) |
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| 468 | msk = scan.set_mask([400,500],[800,900]) |
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| 469 | # masks everything outside 400 and 500 |
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| 470 | # and 800 and 900 in the unit 'channel' |
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| 471 | |
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| 472 | b) |
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| 473 | msk = scan.set_mask([400,500],[800,900], invert=True) |
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| 474 | # masks the regions between 400 and 500 |
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| 475 | # and 800 and 900 in the unit 'channel' |
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| 476 | |
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| 477 | """ |
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| 478 | u = self._getcoordinfo()[0] |
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| 479 | if self._vb: |
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| 480 | if u == "": u = "channel" |
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| 481 | print "The current mask window unit is", u |
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| 482 | n = self.nchan() |
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| 483 | data = self._getabcissa() |
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| 484 | msk = zeros(n) |
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| 485 | for window in args: |
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| 486 | if (len(window) != 2 or window[0] > window[1] ): |
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| 487 | print "A window needs to be defined as [min,max]" |
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| 488 | return |
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| 489 | for i in range(n): |
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| 490 | if data[i] >= window[0] and data[i] < window[1]: |
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| 491 | msk[i] = 1 |
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| 492 | if kwargs.has_key('invert'): |
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| 493 | if kwargs.get('invert'): |
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| 494 | from numarray import logical_not |
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| 495 | msk = logical_not(msk) |
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| 496 | return msk |
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| 497 | |
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| 498 | def get_restfreqs(self): |
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| 499 | """ |
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| 500 | Get the restfrequency(s) stored in this scantable. |
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| 501 | The return value(s) are always of unit 'Hz' |
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| 502 | Parameters: |
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| 503 | none |
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| 504 | Returns: |
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| 505 | a list of doubles |
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| 506 | """ |
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| 507 | return list(self._getrestfreqs()) |
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| 508 | |
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| 509 | def lines(self): |
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| 510 | """ |
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| 511 | Print the list of known spectral lines |
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| 512 | """ |
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| 513 | sdtable._lines(self) |
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| 514 | |
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| 515 | def set_restfreqs(self, freqs=None, unit='Hz', lines=None, source=None, theif=None): |
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| 516 | """ |
|---|
| 517 | Select the restfrequency for the specified source and IF OR |
|---|
| 518 | replace for all IFs. If the 'freqs' argument holds a scalar, |
|---|
| 519 | then that rest frequency will be applied to the selected |
|---|
| 520 | data (and added to the list of available rest frequencies). |
|---|
| 521 | In this way, you can set a rest frequency for each |
|---|
| 522 | source and IF combination. If the 'freqs' argument holds |
|---|
| 523 | a vector, then it MUST be of length the number of IFs |
|---|
| 524 | (and the available restfrequencies will be replaced by |
|---|
| 525 | this vector). In this case, *all* data ('source' and |
|---|
| 526 | 'theif' are ignored) have the restfrequency set per IF according |
|---|
| 527 | to the corresponding value you give in the 'freqs' vector. |
|---|
| 528 | E.g. 'freqs=[1e9,2e9]' would mean IF 0 gets restfreq 1e9 and |
|---|
| 529 | IF 1 gets restfreq 2e9. |
|---|
| 530 | |
|---|
| 531 | You can also specify the frequencies via known line names |
|---|
| 532 | in the argument 'lines'. Use 'freqs' or 'lines'. 'freqs' |
|---|
| 533 | takes precedence. See the list of known names via function |
|---|
| 534 | scantable.lines() |
|---|
| 535 | Parameters: |
|---|
| 536 | freqs: list of rest frequencies |
|---|
| 537 | unit: unit for rest frequency (default 'Hz') |
|---|
| 538 | lines: list of known spectral lines names (alternative to freqs). |
|---|
| 539 | See possible list via scantable.lines() |
|---|
| 540 | source: Source name (blank means all) |
|---|
| 541 | theif: IF (-1 means all) |
|---|
| 542 | Example: |
|---|
| 543 | scan.set_restfreqs(freqs=1.4e9, source='NGC253', theif=2) |
|---|
| 544 | scan.set_restfreqs(freqs=[1.4e9,1.67e9]) |
|---|
| 545 | """ |
|---|
| 546 | if source is None: |
|---|
| 547 | source = "" |
|---|
| 548 | if theif is None: |
|---|
| 549 | theif = -1 |
|---|
| 550 | t = type(freqs) |
|---|
| 551 | if t is int or t is float: |
|---|
| 552 | freqs = [freqs] |
|---|
| 553 | if freqs is None: |
|---|
| 554 | freqs = [] |
|---|
| 555 | t = type(lines) |
|---|
| 556 | if t is str: |
|---|
| 557 | lines = [lines] |
|---|
| 558 | if lines is None: |
|---|
| 559 | lines = [] |
|---|
| 560 | sdtable._setrestfreqs(self, freqs, unit, lines, source, theif) |
|---|
| 561 | return |
|---|
| 562 | |
|---|
| 563 | |
|---|
| 564 | def flag_spectrum(self, thebeam, theif, thepol): |
|---|
| 565 | """ |
|---|
| 566 | This flags a selected spectrum in the scan 'for good'. |
|---|
| 567 | USE WITH CARE - not reversible. |
|---|
| 568 | Use masks for non-permanent exclusion of channels. |
|---|
| 569 | Parameters: |
|---|
| 570 | thebeam,theif,thepol: all have to be explicitly |
|---|
| 571 | specified |
|---|
| 572 | Example: |
|---|
| 573 | scan.flag_spectrum(0,0,1) |
|---|
| 574 | flags the spectrum for Beam=0, IF=0, Pol=1 |
|---|
| 575 | """ |
|---|
| 576 | if (thebeam < self.nbeam() and |
|---|
| 577 | theif < self.nif() and |
|---|
| 578 | thepol < self.npol()): |
|---|
| 579 | sdtable.setbeam(self, thebeam) |
|---|
| 580 | sdtable.setif(self, theif) |
|---|
| 581 | sdtable.setpol(self, thepol) |
|---|
| 582 | sdtable._flag(self) |
|---|
| 583 | else: |
|---|
| 584 | print "Please specify a valid (Beam/IF/Pol)" |
|---|
| 585 | return |
|---|
| 586 | |
|---|
| 587 | def rotate_xyphase (self, angle, all=None): |
|---|
| 588 | """ |
|---|
| 589 | Rotate the phase of the XY correlation. This is done in situ |
|---|
| 590 | in the data. So if you call this function more than once |
|---|
| 591 | then each call rotates the phase further. |
|---|
| 592 | Parameters: |
|---|
| 593 | angle: The angle (degrees) to rotate (add) by. |
|---|
| 594 | all: if true operate on all axes (default or .asaprc) rather |
|---|
| 595 | than the cursor selected spectrum of Beam/IF |
|---|
| 596 | Examples: |
|---|
| 597 | scan.rotate_xyphase(2.3) |
|---|
| 598 | """ |
|---|
| 599 | if all is None: all = rcParams['scantable.allaxes'] |
|---|
| 600 | sdtable._rotate_xyphase(self, angle, all) |
|---|
| 601 | |
|---|
| 602 | def plot(self, what='spectrum',col='Pol', panel=None): |
|---|
| 603 | """ |
|---|
| 604 | Plot the spectra contained in the scan. Alternatively you can also |
|---|
| 605 | Plot Tsys vs Time |
|---|
| 606 | Parameters: |
|---|
| 607 | what: a choice of 'spectrum' (default) or 'tsys' |
|---|
| 608 | col: which out of Beams/IFs/Pols should be colour stacked |
|---|
| 609 | panel: set up multiple panels, currently not working. |
|---|
| 610 | """ |
|---|
| 611 | print "Warning! Not fully functional. Use plotter.plot() instead" |
|---|
| 612 | |
|---|
| 613 | validcol = {'Beam':self.nbeam(),'IF':self.nif(),'Pol':self.npol()} |
|---|
| 614 | |
|---|
| 615 | validyax = ['spectrum','tsys'] |
|---|
| 616 | from asap.asaplot import ASAPlot |
|---|
| 617 | if not self._p: |
|---|
| 618 | self._p = ASAPlot() |
|---|
| 619 | #print "Plotting not enabled" |
|---|
| 620 | #return |
|---|
| 621 | if self._p.is_dead: |
|---|
| 622 | del self._p |
|---|
| 623 | self._p = ASAPlot() |
|---|
| 624 | npan = 1 |
|---|
| 625 | x = None |
|---|
| 626 | if what == 'tsys': |
|---|
| 627 | n = self.nrow() |
|---|
| 628 | if n < 2: |
|---|
| 629 | print "Only one integration. Can't plot." |
|---|
| 630 | return |
|---|
| 631 | self._p.hold() |
|---|
| 632 | self._p.clear() |
|---|
| 633 | if panel == 'Time': |
|---|
| 634 | npan = self.nrow() |
|---|
| 635 | self._p.set_panels(rows=npan) |
|---|
| 636 | xlab,ylab,tlab = None,None,None |
|---|
| 637 | self._vb = False |
|---|
| 638 | sel = self.get_cursor() |
|---|
| 639 | for i in range(npan): |
|---|
| 640 | if npan > 1: |
|---|
| 641 | self._p.subplot(i) |
|---|
| 642 | for j in range(validcol[col]): |
|---|
| 643 | x = None |
|---|
| 644 | y = None |
|---|
| 645 | m = None |
|---|
| 646 | tlab = self._getsourcename(i) |
|---|
| 647 | import re |
|---|
| 648 | tlab = re.sub('_S','',tlab) |
|---|
| 649 | if col == 'Beam': |
|---|
| 650 | self.setbeam(j) |
|---|
| 651 | elif col == 'IF': |
|---|
| 652 | self.setif(j) |
|---|
| 653 | elif col == 'Pol': |
|---|
| 654 | self.setpol(j) |
|---|
| 655 | if what == 'tsys': |
|---|
| 656 | x = range(self.nrow()) |
|---|
| 657 | xlab = 'Time [pixel]' |
|---|
| 658 | m = list(ones(len(x))) |
|---|
| 659 | y = [] |
|---|
| 660 | ylab = r'$T_{sys}$' |
|---|
| 661 | for k in range(len(x)): |
|---|
| 662 | y.append(self._gettsys(k)) |
|---|
| 663 | else: |
|---|
| 664 | x,xlab = self.get_abcissa(i) |
|---|
| 665 | y = self._getspectrum(i) |
|---|
| 666 | ylab = r'Flux' |
|---|
| 667 | m = self._getmask(i) |
|---|
| 668 | llab = col+' '+str(j) |
|---|
| 669 | self._p.set_line(label=llab) |
|---|
| 670 | self._p.plot(x,y,m) |
|---|
| 671 | self._p.set_axes('xlabel',xlab) |
|---|
| 672 | self._p.set_axes('ylabel',ylab) |
|---|
| 673 | self._p.set_axes('title',tlab) |
|---|
| 674 | self._p.release() |
|---|
| 675 | self.set_cursor(sel[0],sel[1],sel[2]) |
|---|
| 676 | self._vb = rcParams['verbose'] |
|---|
| 677 | return |
|---|
| 678 | |
|---|
| 679 | print out |
|---|
| 680 | |
|---|
| 681 | def _print_values(self, dat, label='', timestamps=[]): |
|---|
| 682 | d = dat['data'] |
|---|
| 683 | a = dat['axes'] |
|---|
| 684 | shp = d.getshape() |
|---|
| 685 | out = '' |
|---|
| 686 | for i in range(shp[3]): |
|---|
| 687 | out += '%s [%s]:\n' % (a[3],timestamps[i]) |
|---|
| 688 | t = d[:,:,:,i] |
|---|
| 689 | for j in range(shp[0]): |
|---|
| 690 | if shp[0] > 1: out += ' %s[%d] ' % (a[0],j) |
|---|
| 691 | for k in range(shp[1]): |
|---|
| 692 | if shp[1] > 1: out += ' %s[%d] ' % (a[1],k) |
|---|
| 693 | for l in range(shp[2]): |
|---|
| 694 | if shp[2] > 1: out += ' %s[%d] ' % (a[2],l) |
|---|
| 695 | out += '= %3.3f\n' % (t[j,k,l]) |
|---|
| 696 | out += "--------------------------------------------------\n" |
|---|
| 697 | print "--------------------------------------------------" |
|---|
| 698 | print " ", label |
|---|
| 699 | print "--------------------------------------------------" |
|---|
| 700 | print out |
|---|
