[876] | 1 | from asap._asap import Scantable |
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[226] | 2 | from asap import rcParams |
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[1118] | 3 | from asap import print_log |
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| 4 | from asap import asaplog |
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[946] | 5 | from asap import selector |
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[1153] | 6 | from asap import linecatalog |
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[1295] | 7 | from asap import _n_bools, mask_not, mask_and, mask_or |
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[102] | 8 | |
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[876] | 9 | class scantable(Scantable): |
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[102] | 10 | """ |
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| 11 | The ASAP container for scans |
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| 12 | """ |
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[710] | 13 | |
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[484] | 14 | def __init__(self, filename, average=None, unit=None): |
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[102] | 15 | """ |
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| 16 | Create a scantable from a saved one or make a reference |
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| 17 | Parameters: |
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[181] | 18 | filename: the name of an asap table on disk |
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| 19 | or |
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| 20 | the name of a rpfits/sdfits/ms file |
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| 21 | (integrations within scans are auto averaged |
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| 22 | and the whole file is read) |
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| 23 | or |
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| 24 | [advanced] a reference to an existing |
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[102] | 25 | scantable |
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[484] | 26 | average: average all integrations withinb a scan on read. |
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| 27 | The default (True) is taken from .asaprc. |
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| 28 | unit: brightness unit; must be consistent with K or Jy. |
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[340] | 29 | Over-rides the default selected by the reader |
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| 30 | (input rpfits/sdfits/ms) or replaces the value |
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| 31 | in existing scantables |
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[710] | 32 | """ |
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[976] | 33 | if average is None: |
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[710] | 34 | average = rcParams['scantable.autoaverage'] |
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[1259] | 35 | varlist = vars() |
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[876] | 36 | from asap._asap import stmath |
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| 37 | self._math = stmath() |
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| 38 | if isinstance(filename, Scantable): |
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| 39 | Scantable.__init__(self, filename) |
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[181] | 40 | else: |
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[1118] | 41 | if isinstance(filename, str): |
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[976] | 42 | import os.path |
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| 43 | filename = os.path.expandvars(filename) |
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| 44 | filename = os.path.expanduser(filename) |
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| 45 | if not os.path.exists(filename): |
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| 46 | s = "File '%s' not found." % (filename) |
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[718] | 47 | if rcParams['verbose']: |
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[976] | 48 | asaplog.push(s) |
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| 49 | print asaplog.pop().strip() |
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[718] | 50 | return |
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[976] | 51 | raise IOError(s) |
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[1115] | 52 | if os.path.isdir(filename) \ |
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[1118] | 53 | and not os.path.exists(filename+'/table.f1'): |
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[976] | 54 | # crude check if asap table |
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| 55 | if os.path.exists(filename+'/table.info'): |
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[1118] | 56 | ondisk = rcParams['scantable.storage'] == 'disk' |
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| 57 | Scantable.__init__(self, filename, ondisk) |
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[976] | 58 | if unit is not None: |
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| 59 | self.set_fluxunit(unit) |
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| 60 | self.set_freqframe(rcParams['scantable.freqframe']) |
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[718] | 61 | else: |
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[1118] | 62 | msg = "The given file '%s'is not a valid " \ |
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| 63 | "asap table." % (filename) |
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[976] | 64 | if rcParams['verbose']: |
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| 65 | print msg |
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| 66 | return |
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| 67 | else: |
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| 68 | raise IOError(msg) |
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[226] | 69 | else: |
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[1118] | 70 | self._fill([filename], unit, average) |
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| 71 | elif (isinstance(filename, list) or isinstance(filename, tuple)) \ |
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[976] | 72 | and isinstance(filename[-1], str): |
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| 73 | self._fill(filename, unit, average) |
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[1259] | 74 | self._add_history("scantable", varlist) |
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[714] | 75 | print_log() |
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[102] | 76 | |
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[876] | 77 | def save(self, name=None, format=None, overwrite=False): |
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[116] | 78 | """ |
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[1280] | 79 | Store the scantable on disk. This can be an asap (aips++) Table, |
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| 80 | SDFITS or MS2 format. |
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[116] | 81 | Parameters: |
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[1093] | 82 | name: the name of the outputfile. For format "ASCII" |
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| 83 | this is the root file name (data in 'name'.txt |
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[497] | 84 | and header in 'name'_header.txt) |
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[116] | 85 | format: an optional file format. Default is ASAP. |
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[280] | 86 | Allowed are - 'ASAP' (save as ASAP [aips++] Table), |
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[194] | 87 | 'SDFITS' (save as SDFITS file) |
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[200] | 88 | 'ASCII' (saves as ascii text file) |
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[226] | 89 | 'MS2' (saves as an aips++ |
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| 90 | MeasurementSet V2) |
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[411] | 91 | overwrite: If the file should be overwritten if it exists. |
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[256] | 92 | The default False is to return with warning |
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[411] | 93 | without writing the output. USE WITH CARE. |
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[116] | 94 | Example: |
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| 95 | scan.save('myscan.asap') |
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[1118] | 96 | scan.save('myscan.sdfits', 'SDFITS') |
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[116] | 97 | """ |
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[411] | 98 | from os import path |
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[226] | 99 | if format is None: format = rcParams['scantable.save'] |
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[256] | 100 | suffix = '.'+format.lower() |
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[1118] | 101 | if name is None or name == "": |
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[256] | 102 | name = 'scantable'+suffix |
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[718] | 103 | msg = "No filename given. Using default name %s..." % name |
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| 104 | asaplog.push(msg) |
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[411] | 105 | name = path.expandvars(name) |
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[256] | 106 | if path.isfile(name) or path.isdir(name): |
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| 107 | if not overwrite: |
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[718] | 108 | msg = "File %s exists." % name |
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| 109 | if rcParams['verbose']: |
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| 110 | print msg |
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| 111 | return |
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| 112 | else: |
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| 113 | raise IOError(msg) |
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[451] | 114 | format2 = format.upper() |
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| 115 | if format2 == 'ASAP': |
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[116] | 116 | self._save(name) |
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| 117 | else: |
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[989] | 118 | from asap._asap import stwriter as stw |
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[1118] | 119 | writer = stw(format2) |
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| 120 | writer.write(self, name) |
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[718] | 121 | print_log() |
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[116] | 122 | return |
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| 123 | |
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[102] | 124 | def copy(self): |
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| 125 | """ |
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| 126 | Return a copy of this scantable. |
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[1348] | 127 | Note: |
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| 128 | This makes a full (deep) copy. scan2 = scan1 makes a reference. |
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[102] | 129 | Parameters: |
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[113] | 130 | none |
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[102] | 131 | Example: |
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| 132 | copiedscan = scan.copy() |
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| 133 | """ |
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[876] | 134 | sd = scantable(Scantable._copy(self)) |
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[113] | 135 | return sd |
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| 136 | |
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[1093] | 137 | def drop_scan(self, scanid=None): |
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| 138 | """ |
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| 139 | Return a new scantable where the specified scan number(s) has(have) |
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| 140 | been dropped. |
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| 141 | Parameters: |
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| 142 | scanid: a (list of) scan number(s) |
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| 143 | """ |
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| 144 | from asap import _is_sequence_or_number as _is_valid |
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| 145 | from asap import _to_list |
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| 146 | from asap import unique |
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| 147 | if not _is_valid(scanid): |
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| 148 | if rcParams['verbose']: |
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| 149 | print "Please specify a scanno to drop from the scantable" |
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| 150 | return |
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| 151 | else: |
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| 152 | raise RuntimeError("No scan given") |
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| 153 | try: |
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| 154 | scanid = _to_list(scanid) |
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| 155 | allscans = unique([ self.getscan(i) for i in range(self.nrow())]) |
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| 156 | for sid in scanid: allscans.remove(sid) |
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[1118] | 157 | if len(allscans) == 0: |
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| 158 | raise ValueError("Can't remove all scans") |
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[1093] | 159 | except ValueError: |
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| 160 | if rcParams['verbose']: |
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| 161 | print "Couldn't find any match." |
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| 162 | return |
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| 163 | else: raise |
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| 164 | try: |
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| 165 | bsel = self.get_selection() |
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| 166 | sel = selector() |
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| 167 | sel.set_scans(allscans) |
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| 168 | self.set_selection(bsel+sel) |
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| 169 | scopy = self._copy() |
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| 170 | self.set_selection(bsel) |
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| 171 | return scantable(scopy) |
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| 172 | except RuntimeError: |
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[1118] | 173 | if rcParams['verbose']: |
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| 174 | print "Couldn't find any match." |
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| 175 | else: |
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| 176 | raise |
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[1093] | 177 | |
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| 178 | |
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[102] | 179 | def get_scan(self, scanid=None): |
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| 180 | """ |
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| 181 | Return a specific scan (by scanno) or collection of scans (by |
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| 182 | source name) in a new scantable. |
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[1348] | 183 | Note: |
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| 184 | See scantable.drop_scan() for the inverse operation. |
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[102] | 185 | Parameters: |
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[513] | 186 | scanid: a (list of) scanno or a source name, unix-style |
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| 187 | patterns are accepted for source name matching, e.g. |
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| 188 | '*_R' gets all 'ref scans |
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[102] | 189 | Example: |
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[513] | 190 | # get all scans containing the source '323p459' |
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| 191 | newscan = scan.get_scan('323p459') |
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| 192 | # get all 'off' scans |
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| 193 | refscans = scan.get_scan('*_R') |
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| 194 | # get a susbset of scans by scanno (as listed in scan.summary()) |
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[1118] | 195 | newscan = scan.get_scan([0, 2, 7, 10]) |
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[102] | 196 | """ |
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| 197 | if scanid is None: |
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[718] | 198 | if rcParams['verbose']: |
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[1118] | 199 | print "Please specify a scan no or name to " \ |
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| 200 | "retrieve from the scantable" |
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[718] | 201 | return |
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| 202 | else: |
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| 203 | raise RuntimeError("No scan given") |
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| 204 | |
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[102] | 205 | try: |
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[946] | 206 | bsel = self.get_selection() |
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| 207 | sel = selector() |
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[102] | 208 | if type(scanid) is str: |
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[946] | 209 | sel.set_name(scanid) |
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| 210 | self.set_selection(bsel+sel) |
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[876] | 211 | scopy = self._copy() |
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[946] | 212 | self.set_selection(bsel) |
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[876] | 213 | return scantable(scopy) |
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[102] | 214 | elif type(scanid) is int: |
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[946] | 215 | sel.set_scans([scanid]) |
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| 216 | self.set_selection(bsel+sel) |
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[876] | 217 | scopy = self._copy() |
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[946] | 218 | self.set_selection(bsel) |
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[876] | 219 | return scantable(scopy) |
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[381] | 220 | elif type(scanid) is list: |
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[946] | 221 | sel.set_scans(scanid) |
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| 222 | self.set_selection(sel) |
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[876] | 223 | scopy = self._copy() |
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[946] | 224 | self.set_selection(bsel) |
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[876] | 225 | return scantable(scopy) |
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[381] | 226 | else: |
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[718] | 227 | msg = "Illegal scanid type, use 'int' or 'list' if ints." |
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| 228 | if rcParams['verbose']: |
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| 229 | print msg |
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| 230 | else: |
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| 231 | raise TypeError(msg) |
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[102] | 232 | except RuntimeError: |
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[718] | 233 | if rcParams['verbose']: print "Couldn't find any match." |
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| 234 | else: raise |
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[102] | 235 | |
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| 236 | def __str__(self): |
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[1118] | 237 | return Scantable._summary(self, True) |
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[102] | 238 | |
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[976] | 239 | def summary(self, filename=None): |
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[102] | 240 | """ |
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| 241 | Print a summary of the contents of this scantable. |
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| 242 | Parameters: |
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| 243 | filename: the name of a file to write the putput to |
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| 244 | Default - no file output |
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[381] | 245 | verbose: print extra info such as the frequency table |
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| 246 | The default (False) is taken from .asaprc |
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[102] | 247 | """ |
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[976] | 248 | info = Scantable._summary(self, True) |
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| 249 | #if verbose is None: verbose = rcParams['scantable.verbosesummary'] |
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[102] | 250 | if filename is not None: |
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[256] | 251 | if filename is "": |
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| 252 | filename = 'scantable_summary.txt' |
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[415] | 253 | from os.path import expandvars, isdir |
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[411] | 254 | filename = expandvars(filename) |
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[415] | 255 | if not isdir(filename): |
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[413] | 256 | data = open(filename, 'w') |
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| 257 | data.write(info) |
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| 258 | data.close() |
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| 259 | else: |
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[718] | 260 | msg = "Illegal file name '%s'." % (filename) |
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| 261 | if rcParams['verbose']: |
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| 262 | print msg |
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| 263 | else: |
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| 264 | raise IOError(msg) |
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| 265 | if rcParams['verbose']: |
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[794] | 266 | try: |
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| 267 | from IPython.genutils import page as pager |
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| 268 | except ImportError: |
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| 269 | from pydoc import pager |
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| 270 | pager(info) |
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[718] | 271 | else: |
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| 272 | return info |
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[710] | 273 | |
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[946] | 274 | |
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| 275 | def get_selection(self): |
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| 276 | """ |
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[1005] | 277 | Get the selection object currently set on this scantable. |
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| 278 | Parameters: |
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| 279 | none |
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| 280 | Example: |
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| 281 | sel = scan.get_selection() |
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| 282 | sel.set_ifs(0) # select IF 0 |
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| 283 | scan.set_selection(sel) # apply modified selection |
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[946] | 284 | """ |
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| 285 | return selector(self._getselection()) |
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| 286 | |
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[1005] | 287 | def set_selection(self, selection=selector()): |
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[946] | 288 | """ |
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[1005] | 289 | Select a subset of the data. All following operations on this scantable |
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| 290 | are only applied to thi selection. |
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| 291 | Parameters: |
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| 292 | selection: a selector object (default unset the selection) |
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| 293 | Examples: |
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| 294 | sel = selector() # create a selection object |
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[1118] | 295 | self.set_scans([0, 3]) # select SCANNO 0 and 3 |
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[1005] | 296 | scan.set_selection(sel) # set the selection |
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| 297 | scan.summary() # will only print summary of scanno 0 an 3 |
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| 298 | scan.set_selection() # unset the selection |
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[946] | 299 | """ |
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| 300 | self._setselection(selection) |
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| 301 | |
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[1446] | 302 | def get_row(self, row=0, insitu=None): |
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| 303 | """ |
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| 304 | Select a row in the scantable. |
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| 305 | Return a scantable with single row. |
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| 306 | Parameters: |
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| 307 | row: row no of integration, default is 0. |
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| 308 | insitu: if False a new scantable is returned. |
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| 309 | Otherwise, the scaling is done in-situ |
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| 310 | The default is taken from .asaprc (False) |
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| 311 | """ |
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| 312 | if insitu is None: insitu = rcParams['insitu'] |
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| 313 | if not insitu: |
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| 314 | workscan = self.copy() |
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| 315 | else: |
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| 316 | workscan = self |
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| 317 | # Select a row |
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| 318 | sel=selector() |
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| 319 | sel.set_scans([workscan.getscan(row)]) |
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| 320 | sel.set_cycles([workscan.getcycle(row)]) |
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| 321 | sel.set_beams([workscan.getbeam(row)]) |
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| 322 | sel.set_ifs([workscan.getif(row)]) |
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| 323 | sel.set_polarisations([workscan.getpol(row)]) |
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| 324 | sel.set_name(workscan._getsourcename(row)) |
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| 325 | workscan.set_selection(sel) |
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| 326 | if not workscan.nrow() == 1: |
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| 327 | msg = "Cloud not identify single row. %d rows selected."%(workscan.nrow()) |
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| 328 | raise RuntimeError(msg) |
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| 329 | del sel |
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| 330 | if insitu: |
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| 331 | self._assign(workscan) |
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| 332 | else: |
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| 333 | return workscan |
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| 334 | |
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[876] | 335 | def stats(self, stat='stddev', mask=None): |
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[102] | 336 | """ |
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[135] | 337 | Determine the specified statistic of the current beam/if/pol |
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[102] | 338 | Takes a 'mask' as an optional parameter to specify which |
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| 339 | channels should be excluded. |
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| 340 | Parameters: |
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[135] | 341 | stat: 'min', 'max', 'sumsq', 'sum', 'mean' |
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| 342 | 'var', 'stddev', 'avdev', 'rms', 'median' |
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| 343 | mask: an optional mask specifying where the statistic |
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[102] | 344 | should be determined. |
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| 345 | Example: |
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[113] | 346 | scan.set_unit('channel') |
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[1118] | 347 | msk = scan.create_mask([100, 200], [500, 600]) |
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[135] | 348 | scan.stats(stat='mean', mask=m) |
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[102] | 349 | """ |
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| 350 | if mask == None: |
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[876] | 351 | mask = [] |
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[1118] | 352 | axes = ['Beam', 'IF', 'Pol', 'Time'] |
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[876] | 353 | if not self._check_ifs(): |
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[1118] | 354 | raise ValueError("Cannot apply mask as the IFs have different " |
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| 355 | "number of channels. Please use setselection() " |
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| 356 | "to select individual IFs") |
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[256] | 357 | |
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[876] | 358 | statvals = self._math._stats(self, mask, stat) |
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| 359 | out = '' |
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| 360 | axes = [] |
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| 361 | for i in range(self.nrow()): |
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| 362 | axis = [] |
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| 363 | axis.append(self.getscan(i)) |
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| 364 | axis.append(self.getbeam(i)) |
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| 365 | axis.append(self.getif(i)) |
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| 366 | axis.append(self.getpol(i)) |
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| 367 | axis.append(self.getcycle(i)) |
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| 368 | axes.append(axis) |
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| 369 | tm = self._gettime(i) |
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| 370 | src = self._getsourcename(i) |
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| 371 | out += 'Scan[%d] (%s) ' % (axis[0], src) |
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| 372 | out += 'Time[%s]:\n' % (tm) |
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| 373 | if self.nbeam(-1) > 1: out += ' Beam[%d] ' % (axis[1]) |
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| 374 | if self.nif(-1) > 1: out += ' IF[%d] ' % (axis[2]) |
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| 375 | if self.npol(-1) > 1: out += ' Pol[%d] ' % (axis[3]) |
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| 376 | out += '= %3.3f\n' % (statvals[i]) |
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| 377 | out += "--------------------------------------------------\n" |
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[256] | 378 | |
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[876] | 379 | if rcParams['verbose']: |
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| 380 | print "--------------------------------------------------" |
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[1118] | 381 | print " ", stat |
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[876] | 382 | print "--------------------------------------------------" |
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| 383 | print out |
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[1295] | 384 | #else: |
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| 385 | #retval = { 'axesnames': ['scanno', 'beamno', 'ifno', 'polno', 'cycleno'], |
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| 386 | # 'axes' : axes, |
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| 387 | # 'data': statvals} |
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| 388 | return statvals |
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[102] | 389 | |
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[1118] | 390 | def stddev(self, mask=None): |
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[135] | 391 | """ |
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| 392 | Determine the standard deviation of the current beam/if/pol |
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| 393 | Takes a 'mask' as an optional parameter to specify which |
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| 394 | channels should be excluded. |
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| 395 | Parameters: |
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| 396 | mask: an optional mask specifying where the standard |
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| 397 | deviation should be determined. |
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| 398 | |
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| 399 | Example: |
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| 400 | scan.set_unit('channel') |
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[1118] | 401 | msk = scan.create_mask([100, 200], [500, 600]) |
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[135] | 402 | scan.stddev(mask=m) |
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| 403 | """ |
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[1118] | 404 | return self.stats(stat='stddev', mask=mask); |
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[135] | 405 | |
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[1003] | 406 | |
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[1259] | 407 | def get_column_names(self): |
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[1003] | 408 | """ |
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| 409 | Return a list of column names, which can be used for selection. |
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| 410 | """ |
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[1259] | 411 | return list(Scantable.get_column_names(self)) |
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[1003] | 412 | |
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[876] | 413 | def get_tsys(self): |
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[113] | 414 | """ |
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| 415 | Return the System temperatures. |
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| 416 | Returns: |
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[876] | 417 | a list of Tsys values for the current selection |
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[113] | 418 | """ |
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[256] | 419 | |
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[876] | 420 | return self._row_callback(self._gettsys, "Tsys") |
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[256] | 421 | |
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[876] | 422 | def _row_callback(self, callback, label): |
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| 423 | axes = [] |
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[1118] | 424 | axesnames = ['scanno', 'beamno', 'ifno', 'polno', 'cycleno'] |
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[876] | 425 | out = "" |
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[1118] | 426 | outvec = [] |
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[876] | 427 | for i in range(self.nrow()): |
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| 428 | axis = [] |
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| 429 | axis.append(self.getscan(i)) |
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| 430 | axis.append(self.getbeam(i)) |
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| 431 | axis.append(self.getif(i)) |
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| 432 | axis.append(self.getpol(i)) |
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| 433 | axis.append(self.getcycle(i)) |
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| 434 | axes.append(axis) |
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| 435 | tm = self._gettime(i) |
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| 436 | src = self._getsourcename(i) |
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| 437 | out += 'Scan[%d] (%s) ' % (axis[0], src) |
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| 438 | out += 'Time[%s]:\n' % (tm) |
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| 439 | if self.nbeam(-1) > 1: out += ' Beam[%d] ' % (axis[1]) |
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| 440 | if self.nif(-1) > 1: out += ' IF[%d] ' % (axis[2]) |
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| 441 | if self.npol(-1) > 1: out += ' Pol[%d] ' % (axis[3]) |
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| 442 | outvec.append(callback(i)) |
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| 443 | out += '= %3.3f\n' % (outvec[i]) |
---|
| 444 | out += "--------------------------------------------------\n" |
---|
| 445 | if rcParams['verbose']: |
---|
| 446 | print "--------------------------------------------------" |
---|
| 447 | print " %s" % (label) |
---|
| 448 | print "--------------------------------------------------" |
---|
| 449 | print out |
---|
[1175] | 450 | # disabled because the vector seems more useful |
---|
| 451 | #retval = {'axesnames': axesnames, 'axes': axes, 'data': outvec} |
---|
| 452 | return outvec |
---|
[256] | 453 | |
---|
[1070] | 454 | def _get_column(self, callback, row=-1): |
---|
| 455 | """ |
---|
| 456 | """ |
---|
| 457 | if row == -1: |
---|
| 458 | return [callback(i) for i in range(self.nrow())] |
---|
| 459 | else: |
---|
| 460 | if 0 <= row < self.nrow(): |
---|
| 461 | return callback(row) |
---|
[256] | 462 | |
---|
[1070] | 463 | |
---|
[1348] | 464 | def get_time(self, row=-1, asdatetime=False): |
---|
[113] | 465 | """ |
---|
| 466 | Get a list of time stamps for the observations. |
---|
[1348] | 467 | Return a datetime object for each integration time stamp in the scantable. |
---|
[113] | 468 | Parameters: |
---|
[1348] | 469 | row: row no of integration. Default -1 return all rows |
---|
| 470 | asdatetime: return values as datetime objects rather than strings |
---|
[113] | 471 | Example: |
---|
| 472 | none |
---|
| 473 | """ |
---|
[1175] | 474 | from time import strptime |
---|
| 475 | from datetime import datetime |
---|
[1348] | 476 | if not asdatetime: |
---|
| 477 | return self._get_column(self._gettime, row) |
---|
[1175] | 478 | format = "%Y/%m/%d/%H:%M:%S" |
---|
| 479 | if isinstance(times, list): |
---|
| 480 | return [datetime(*strptime(i, format)[:6]) for i in times] |
---|
| 481 | else: |
---|
| 482 | return datetime(*strptime(times, format)[:6]) |
---|
[102] | 483 | |
---|
[1348] | 484 | |
---|
| 485 | def get_inttime(self, row=-1): |
---|
| 486 | """ |
---|
| 487 | Get a list of integration times for the observations. |
---|
| 488 | Return a time in seconds for each integration in the scantable. |
---|
| 489 | Parameters: |
---|
| 490 | row: row no of integration. Default -1 return all rows. |
---|
| 491 | Example: |
---|
| 492 | none |
---|
| 493 | """ |
---|
| 494 | return self._get_column(self._getinttime, row) |
---|
| 495 | |
---|
| 496 | |
---|
[714] | 497 | def get_sourcename(self, row=-1): |
---|
| 498 | """ |
---|
[794] | 499 | Get a list source names for the observations. |
---|
[714] | 500 | Return a string for each integration in the scantable. |
---|
| 501 | Parameters: |
---|
[1348] | 502 | row: row no of integration. Default -1 return all rows. |
---|
[714] | 503 | Example: |
---|
| 504 | none |
---|
| 505 | """ |
---|
[1070] | 506 | return self._get_column(self._getsourcename, row) |
---|
[714] | 507 | |
---|
[794] | 508 | def get_elevation(self, row=-1): |
---|
| 509 | """ |
---|
| 510 | Get a list of elevations for the observations. |
---|
| 511 | Return a float for each integration in the scantable. |
---|
| 512 | Parameters: |
---|
[1348] | 513 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 514 | Example: |
---|
| 515 | none |
---|
| 516 | """ |
---|
[1070] | 517 | return self._get_column(self._getelevation, row) |
---|
[794] | 518 | |
---|
| 519 | def get_azimuth(self, row=-1): |
---|
| 520 | """ |
---|
| 521 | Get a list of azimuths for the observations. |
---|
| 522 | Return a float for each integration in the scantable. |
---|
| 523 | Parameters: |
---|
[1348] | 524 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 525 | Example: |
---|
| 526 | none |
---|
| 527 | """ |
---|
[1070] | 528 | return self._get_column(self._getazimuth, row) |
---|
[794] | 529 | |
---|
| 530 | def get_parangle(self, row=-1): |
---|
| 531 | """ |
---|
| 532 | Get a list of parallactic angles for the observations. |
---|
| 533 | Return a float for each integration in the scantable. |
---|
| 534 | Parameters: |
---|
[1348] | 535 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 536 | Example: |
---|
| 537 | none |
---|
| 538 | """ |
---|
[1070] | 539 | return self._get_column(self._getparangle, row) |
---|
[794] | 540 | |
---|
[1070] | 541 | def get_direction(self, row=-1): |
---|
| 542 | """ |
---|
| 543 | Get a list of Positions on the sky (direction) for the observations. |
---|
| 544 | Return a float for each integration in the scantable. |
---|
| 545 | Parameters: |
---|
| 546 | row: row no of integration. Default -1 return all rows |
---|
| 547 | Example: |
---|
| 548 | none |
---|
| 549 | """ |
---|
| 550 | return self._get_column(self._getdirection, row) |
---|
| 551 | |
---|
[1389] | 552 | def get_directionval(self, row=-1): |
---|
| 553 | """ |
---|
| 554 | Get a list of Positions on the sky (direction) for the observations. |
---|
| 555 | Return a float for each integration in the scantable. |
---|
| 556 | Parameters: |
---|
| 557 | row: row no of integration. Default -1 return all rows |
---|
| 558 | Example: |
---|
| 559 | none |
---|
| 560 | """ |
---|
| 561 | return self._get_column(self._getdirectionvec, row) |
---|
| 562 | |
---|
[102] | 563 | def set_unit(self, unit='channel'): |
---|
| 564 | """ |
---|
| 565 | Set the unit for all following operations on this scantable |
---|
| 566 | Parameters: |
---|
| 567 | unit: optional unit, default is 'channel' |
---|
[1118] | 568 | one of '*Hz', 'km/s', 'channel', '' |
---|
[102] | 569 | """ |
---|
[484] | 570 | varlist = vars() |
---|
[1118] | 571 | if unit in ['', 'pixel', 'channel']: |
---|
[113] | 572 | unit = '' |
---|
| 573 | inf = list(self._getcoordinfo()) |
---|
| 574 | inf[0] = unit |
---|
| 575 | self._setcoordinfo(inf) |
---|
[1118] | 576 | self._add_history("set_unit", varlist) |
---|
[113] | 577 | |
---|
[484] | 578 | def set_instrument(self, instr): |
---|
[358] | 579 | """ |
---|
[1348] | 580 | Set the instrument for subsequent processing. |
---|
[358] | 581 | Parameters: |
---|
[710] | 582 | instr: Select from 'ATPKSMB', 'ATPKSHOH', 'ATMOPRA', |
---|
[407] | 583 | 'DSS-43' (Tid), 'CEDUNA', and 'HOBART' |
---|
[358] | 584 | """ |
---|
| 585 | self._setInstrument(instr) |
---|
[1118] | 586 | self._add_history("set_instument", vars()) |
---|
[718] | 587 | print_log() |
---|
[358] | 588 | |
---|
[1190] | 589 | def set_feedtype(self, feedtype): |
---|
| 590 | """ |
---|
| 591 | Overwrite the feed type, which might not be set correctly. |
---|
| 592 | Parameters: |
---|
| 593 | feedtype: 'linear' or 'circular' |
---|
| 594 | """ |
---|
| 595 | self._setfeedtype(feedtype) |
---|
| 596 | self._add_history("set_feedtype", vars()) |
---|
| 597 | print_log() |
---|
| 598 | |
---|
[276] | 599 | def set_doppler(self, doppler='RADIO'): |
---|
| 600 | """ |
---|
| 601 | Set the doppler for all following operations on this scantable. |
---|
| 602 | Parameters: |
---|
| 603 | doppler: One of 'RADIO', 'OPTICAL', 'Z', 'BETA', 'GAMMA' |
---|
| 604 | """ |
---|
[484] | 605 | varlist = vars() |
---|
[276] | 606 | inf = list(self._getcoordinfo()) |
---|
| 607 | inf[2] = doppler |
---|
| 608 | self._setcoordinfo(inf) |
---|
[1118] | 609 | self._add_history("set_doppler", vars()) |
---|
[718] | 610 | print_log() |
---|
[710] | 611 | |
---|
[226] | 612 | def set_freqframe(self, frame=None): |
---|
[113] | 613 | """ |
---|
| 614 | Set the frame type of the Spectral Axis. |
---|
| 615 | Parameters: |
---|
[591] | 616 | frame: an optional frame type, default 'LSRK'. Valid frames are: |
---|
[1118] | 617 | 'REST', 'TOPO', 'LSRD', 'LSRK', 'BARY', |
---|
| 618 | 'GEO', 'GALACTO', 'LGROUP', 'CMB' |
---|
[113] | 619 | Examples: |
---|
| 620 | scan.set_freqframe('BARY') |
---|
| 621 | """ |
---|
[484] | 622 | if frame is None: frame = rcParams['scantable.freqframe'] |
---|
| 623 | varlist = vars() |
---|
[1118] | 624 | valid = ['REST', 'TOPO', 'LSRD', 'LSRK', 'BARY', \ |
---|
| 625 | 'GEO', 'GALACTO', 'LGROUP', 'CMB'] |
---|
[591] | 626 | |
---|
[989] | 627 | if frame in valid: |
---|
[113] | 628 | inf = list(self._getcoordinfo()) |
---|
| 629 | inf[1] = frame |
---|
| 630 | self._setcoordinfo(inf) |
---|
[1118] | 631 | self._add_history("set_freqframe", varlist) |
---|
[102] | 632 | else: |
---|
[1118] | 633 | msg = "Please specify a valid freq type. Valid types are:\n", valid |
---|
[718] | 634 | if rcParams['verbose']: |
---|
| 635 | print msg |
---|
| 636 | else: |
---|
| 637 | raise TypeError(msg) |
---|
| 638 | print_log() |
---|
[710] | 639 | |
---|
[989] | 640 | def set_dirframe(self, frame=""): |
---|
| 641 | """ |
---|
| 642 | Set the frame type of the Direction on the sky. |
---|
| 643 | Parameters: |
---|
| 644 | frame: an optional frame type, default ''. Valid frames are: |
---|
| 645 | 'J2000', 'B1950', 'GALACTIC' |
---|
| 646 | Examples: |
---|
| 647 | scan.set_dirframe('GALACTIC') |
---|
| 648 | """ |
---|
| 649 | varlist = vars() |
---|
| 650 | try: |
---|
| 651 | Scantable.set_dirframe(self, frame) |
---|
[1118] | 652 | except RuntimeError, msg: |
---|
[989] | 653 | if rcParams['verbose']: |
---|
| 654 | print msg |
---|
| 655 | else: |
---|
| 656 | raise |
---|
[1118] | 657 | self._add_history("set_dirframe", varlist) |
---|
[989] | 658 | |
---|
[113] | 659 | def get_unit(self): |
---|
| 660 | """ |
---|
| 661 | Get the default unit set in this scantable |
---|
| 662 | Returns: |
---|
| 663 | A unit string |
---|
| 664 | """ |
---|
| 665 | inf = self._getcoordinfo() |
---|
| 666 | unit = inf[0] |
---|
| 667 | if unit == '': unit = 'channel' |
---|
| 668 | return unit |
---|
[102] | 669 | |
---|
[158] | 670 | def get_abcissa(self, rowno=0): |
---|
[102] | 671 | """ |
---|
[158] | 672 | Get the abcissa in the current coordinate setup for the currently |
---|
[113] | 673 | selected Beam/IF/Pol |
---|
| 674 | Parameters: |
---|
[226] | 675 | rowno: an optional row number in the scantable. Default is the |
---|
| 676 | first row, i.e. rowno=0 |
---|
[113] | 677 | Returns: |
---|
[1348] | 678 | The abcissa values and the format string (as a dictionary) |
---|
[113] | 679 | """ |
---|
[256] | 680 | abc = self._getabcissa(rowno) |
---|
[710] | 681 | lbl = self._getabcissalabel(rowno) |
---|
[718] | 682 | print_log() |
---|
[158] | 683 | return abc, lbl |
---|
[113] | 684 | |
---|
[1401] | 685 | def flag(self, mask=None, unflag=False): |
---|
[1001] | 686 | """ |
---|
| 687 | Flag the selected data using an optional channel mask. |
---|
| 688 | Parameters: |
---|
| 689 | mask: an optional channel mask, created with create_mask. Default |
---|
| 690 | (no mask) is all channels. |
---|
[1401] | 691 | unflag: if True, unflag the data |
---|
[1001] | 692 | """ |
---|
| 693 | varlist = vars() |
---|
[1118] | 694 | if mask is None: |
---|
| 695 | mask = [] |
---|
[1001] | 696 | try: |
---|
[1401] | 697 | self._flag(mask, unflag) |
---|
[1118] | 698 | except RuntimeError, msg: |
---|
[1001] | 699 | if rcParams['verbose']: |
---|
| 700 | print msg |
---|
| 701 | return |
---|
| 702 | else: raise |
---|
| 703 | self._add_history("flag", varlist) |
---|
| 704 | |
---|
[1203] | 705 | def lag_flag(self, frequency, width=0.0, unit="GHz", insitu=None): |
---|
[1192] | 706 | """ |
---|
| 707 | Flag the data in 'lag' space by providing a frequency to remove. |
---|
| 708 | Flagged data in the scantable gets set to 0.0 before the fft. |
---|
| 709 | No taper is applied. |
---|
| 710 | Parameters: |
---|
[1348] | 711 | frequency: the frequency (really a period within the bandwidth) |
---|
| 712 | to remove |
---|
| 713 | width: the width of the frequency to remove, to remove a |
---|
| 714 | range of frequencies aroung the centre. |
---|
[1203] | 715 | unit: the frequency unit (default "GHz") |
---|
| 716 | Notes: |
---|
[1348] | 717 | It is recommended to flag edges of the band or strong |
---|
| 718 | signals beforehand. |
---|
[1192] | 719 | """ |
---|
| 720 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 721 | self._math._setinsitu(insitu) |
---|
| 722 | varlist = vars() |
---|
[1370] | 723 | base = { "GHz": 1000000000., "MHz": 1000000., "kHz": 1000., "Hz": 1. } |
---|
[1192] | 724 | if not base.has_key(unit): |
---|
| 725 | raise ValueError("%s is not a valid unit." % unit) |
---|
| 726 | try: |
---|
[1200] | 727 | s = scantable(self._math._lag_flag(self, frequency*base[unit], |
---|
| 728 | width*base[unit])) |
---|
[1192] | 729 | except RuntimeError, msg: |
---|
| 730 | if rcParams['verbose']: |
---|
| 731 | print msg |
---|
| 732 | return |
---|
| 733 | else: raise |
---|
| 734 | s._add_history("lag_flag", varlist) |
---|
| 735 | print_log() |
---|
| 736 | if insitu: |
---|
| 737 | self._assign(s) |
---|
| 738 | else: |
---|
| 739 | return s |
---|
[1001] | 740 | |
---|
[1192] | 741 | |
---|
[113] | 742 | def create_mask(self, *args, **kwargs): |
---|
| 743 | """ |
---|
[1118] | 744 | Compute and return a mask based on [min, max] windows. |
---|
[189] | 745 | The specified windows are to be INCLUDED, when the mask is |
---|
[113] | 746 | applied. |
---|
[102] | 747 | Parameters: |
---|
[1118] | 748 | [min, max], [min2, max2], ... |
---|
[1024] | 749 | Pairs of start/end points (inclusive)specifying the regions |
---|
[102] | 750 | to be masked |
---|
[189] | 751 | invert: optional argument. If specified as True, |
---|
| 752 | return an inverted mask, i.e. the regions |
---|
| 753 | specified are EXCLUDED |
---|
[513] | 754 | row: create the mask using the specified row for |
---|
| 755 | unit conversions, default is row=0 |
---|
| 756 | only necessary if frequency varies over rows. |
---|
[102] | 757 | Example: |
---|
[113] | 758 | scan.set_unit('channel') |
---|
| 759 | a) |
---|
[1118] | 760 | msk = scan.create_mask([400, 500], [800, 900]) |
---|
[189] | 761 | # masks everything outside 400 and 500 |
---|
[113] | 762 | # and 800 and 900 in the unit 'channel' |
---|
| 763 | |
---|
| 764 | b) |
---|
[1118] | 765 | msk = scan.create_mask([400, 500], [800, 900], invert=True) |
---|
[189] | 766 | # masks the regions between 400 and 500 |
---|
[113] | 767 | # and 800 and 900 in the unit 'channel' |
---|
[1024] | 768 | c) |
---|
| 769 | mask only channel 400 |
---|
[1118] | 770 | msk = scan.create_mask([400, 400]) |
---|
[102] | 771 | """ |
---|
[513] | 772 | row = 0 |
---|
| 773 | if kwargs.has_key("row"): |
---|
| 774 | row = kwargs.get("row") |
---|
| 775 | data = self._getabcissa(row) |
---|
[113] | 776 | u = self._getcoordinfo()[0] |
---|
[718] | 777 | if rcParams['verbose']: |
---|
[113] | 778 | if u == "": u = "channel" |
---|
[718] | 779 | msg = "The current mask window unit is %s" % u |
---|
[1118] | 780 | i = self._check_ifs() |
---|
| 781 | if not i: |
---|
[876] | 782 | msg += "\nThis mask is only valid for IF=%d" % (self.getif(i)) |
---|
[718] | 783 | asaplog.push(msg) |
---|
[102] | 784 | n = self.nchan() |
---|
[1295] | 785 | msk = _n_bools(n, False) |
---|
[710] | 786 | # test if args is a 'list' or a 'normal *args - UGLY!!! |
---|
| 787 | |
---|
[1118] | 788 | ws = (isinstance(args[-1][-1], int) or isinstance(args[-1][-1], float)) \ |
---|
| 789 | and args or args[0] |
---|
[710] | 790 | for window in ws: |
---|
[102] | 791 | if (len(window) != 2 or window[0] > window[1] ): |
---|
[1118] | 792 | raise TypeError("A window needs to be defined as [min, max]") |
---|
[102] | 793 | for i in range(n): |
---|
[1024] | 794 | if data[i] >= window[0] and data[i] <= window[1]: |
---|
[1295] | 795 | msk[i] = True |
---|
[113] | 796 | if kwargs.has_key('invert'): |
---|
| 797 | if kwargs.get('invert'): |
---|
[1295] | 798 | msk = mask_not(msk) |
---|
[718] | 799 | print_log() |
---|
[102] | 800 | return msk |
---|
[710] | 801 | |
---|
[1446] | 802 | def get_masklist(self, mask=None, row=0): |
---|
[256] | 803 | """ |
---|
[1446] | 804 | Compute and return a list of mask windows, [min, max]. |
---|
| 805 | Parameters: |
---|
| 806 | mask: channel mask, created with create_mask. |
---|
| 807 | row: calcutate the masklist using the specified row |
---|
| 808 | for unit conversions, default is row=0 |
---|
| 809 | only necessary if frequency varies over rows. |
---|
| 810 | Returns: |
---|
| 811 | [min, max], [min2, max2], ... |
---|
| 812 | Pairs of start/end points (inclusive)specifying |
---|
| 813 | the masked regions |
---|
| 814 | """ |
---|
| 815 | if not (isinstance(mask,list) or isinstance(mask, tuple)): |
---|
| 816 | raise TypeError("The mask should be list or tuple.") |
---|
| 817 | if len(mask) < 2: |
---|
| 818 | raise TypeError("The mask elements should be > 1") |
---|
| 819 | if self.nchan() != len(mask): |
---|
| 820 | msg = "Number of channels in scantable != number of mask elements" |
---|
| 821 | raise TypeError(msg) |
---|
| 822 | data = self._getabcissa(row) |
---|
| 823 | u = self._getcoordinfo()[0] |
---|
| 824 | if rcParams['verbose']: |
---|
| 825 | if u == "": u = "channel" |
---|
| 826 | msg = "The current mask window unit is %s" % u |
---|
| 827 | i = self._check_ifs() |
---|
| 828 | if not i: |
---|
| 829 | msg += "\nThis mask is only valid for IF=%d" % (self.getif(i)) |
---|
| 830 | asaplog.push(msg) |
---|
| 831 | masklist=[] |
---|
| 832 | ist, ien = None, None |
---|
| 833 | ist, ien=self.get_mask_indices(mask) |
---|
| 834 | if ist is not None and ien is not None: |
---|
| 835 | for i in xrange(len(ist)): |
---|
| 836 | range=[data[ist[i]],data[ien[i]]] |
---|
| 837 | range.sort() |
---|
| 838 | masklist.append([range[0],range[1]]) |
---|
| 839 | return masklist |
---|
| 840 | |
---|
| 841 | def get_mask_indices(self, mask=None): |
---|
| 842 | """ |
---|
| 843 | Compute and Return lists of mask start indices and mask end indices. |
---|
| 844 | Parameters: |
---|
| 845 | mask: channel mask, created with create_mask. |
---|
| 846 | Returns: |
---|
| 847 | List of mask start indices and that of mask end indices, |
---|
| 848 | i.e., [istart1,istart2,....], [iend1,iend2,....]. |
---|
| 849 | """ |
---|
| 850 | if not (isinstance(mask,list) or isinstance(mask, tuple)): |
---|
| 851 | raise TypeError("The mask should be list or tuple.") |
---|
| 852 | if len(mask) < 2: |
---|
| 853 | raise TypeError("The mask elements should be > 1") |
---|
| 854 | istart=[] |
---|
| 855 | iend=[] |
---|
| 856 | if mask[0]: istart.append(0) |
---|
| 857 | for i in range(len(mask)-1): |
---|
| 858 | if not mask[i] and mask[i+1]: |
---|
| 859 | istart.append(i+1) |
---|
| 860 | elif mask[i] and not mask[i+1]: |
---|
| 861 | iend.append(i) |
---|
| 862 | if mask[len(mask)-1]: iend.append(len(mask)-1) |
---|
| 863 | if len(istart) != len(iend): |
---|
| 864 | raise RuntimeError("Numbers of mask start != mask end.") |
---|
| 865 | for i in range(len(istart)): |
---|
| 866 | if istart[i] > iend[i]: |
---|
| 867 | raise RuntimeError("Mask start index > mask end index") |
---|
| 868 | break |
---|
| 869 | return istart,iend |
---|
| 870 | |
---|
| 871 | # def get_restfreqs(self): |
---|
| 872 | # """ |
---|
| 873 | # Get the restfrequency(s) stored in this scantable. |
---|
| 874 | # The return value(s) are always of unit 'Hz' |
---|
| 875 | # Parameters: |
---|
| 876 | # none |
---|
| 877 | # Returns: |
---|
| 878 | # a list of doubles |
---|
| 879 | # """ |
---|
| 880 | # return list(self._getrestfreqs()) |
---|
| 881 | |
---|
| 882 | def get_restfreqs(self, ids=None): |
---|
| 883 | """ |
---|
[256] | 884 | Get the restfrequency(s) stored in this scantable. |
---|
| 885 | The return value(s) are always of unit 'Hz' |
---|
| 886 | Parameters: |
---|
[1446] | 887 | ids: (optional) a list of MOLECULE_ID for that restfrequency(s) to |
---|
| 888 | be retrieved |
---|
[256] | 889 | Returns: |
---|
[1446] | 890 | dictionary containing ids and a list of doubles for each id |
---|
[256] | 891 | """ |
---|
[1446] | 892 | if ids is None: |
---|
| 893 | rfreqs={} |
---|
| 894 | idlist = self.getmolnos() |
---|
| 895 | for i in idlist: |
---|
| 896 | rfreqs[i]=list(self._getrestfreqs(i)) |
---|
| 897 | return rfreqs |
---|
| 898 | else: |
---|
| 899 | if type(ids)==list or type(ids)==tuple: |
---|
| 900 | rfreqs={} |
---|
| 901 | for i in ids: |
---|
| 902 | rfreqs[i]=list(self._getrestfreqs(i)) |
---|
| 903 | return rfreqs |
---|
| 904 | else: |
---|
| 905 | return list(self._getrestfreqs(ids)) |
---|
| 906 | #return list(self._getrestfreqs(ids)) |
---|
[102] | 907 | |
---|
[931] | 908 | def set_restfreqs(self, freqs=None, unit='Hz'): |
---|
| 909 | """ |
---|
[1446] | 910 | ********NEED TO BE UPDATED begin************ |
---|
[931] | 911 | Set or replace the restfrequency specified and |
---|
| 912 | If the 'freqs' argument holds a scalar, |
---|
| 913 | then that rest frequency will be applied to all the selected |
---|
| 914 | data. If the 'freqs' argument holds |
---|
| 915 | a vector, then it MUST be of equal or smaller length than |
---|
| 916 | the number of IFs (and the available restfrequencies will be |
---|
| 917 | replaced by this vector). In this case, *all* data have |
---|
| 918 | the restfrequency set per IF according |
---|
| 919 | to the corresponding value you give in the 'freqs' vector. |
---|
[1118] | 920 | E.g. 'freqs=[1e9, 2e9]' would mean IF 0 gets restfreq 1e9 and |
---|
[931] | 921 | IF 1 gets restfreq 2e9. |
---|
[1446] | 922 | ********NEED TO BE UPDATED end************ |
---|
[1153] | 923 | You can also specify the frequencies via a linecatalog/ |
---|
| 924 | |
---|
[931] | 925 | Parameters: |
---|
| 926 | freqs: list of rest frequency values or string idenitfiers |
---|
| 927 | unit: unit for rest frequency (default 'Hz') |
---|
[402] | 928 | |
---|
[931] | 929 | Example: |
---|
[1446] | 930 | # set the given restfrequency for the all currently selected IFs |
---|
[931] | 931 | scan.set_restfreqs(freqs=1.4e9) |
---|
[1446] | 932 | # set multiple restfrequencies to all the selected data |
---|
| 933 | scan.set_restfreqs(freqs=[1.4e9, 1.41e9, 1.42e9]) |
---|
| 934 | # If the number of IFs in the data is >= 2 the IF0 gets the first |
---|
| 935 | # value IF1 the second... NOTE that freqs needs to be |
---|
| 936 | # specified in list of list (e.g. [[],[],...] ). |
---|
| 937 | scan.set_restfreqs(freqs=[[1.4e9],[1.67e9]]) |
---|
[931] | 938 | #set the given restfrequency for the whole table (by name) |
---|
| 939 | scan.set_restfreqs(freqs="OH1667") |
---|
[391] | 940 | |
---|
[931] | 941 | Note: |
---|
| 942 | To do more sophisticate Restfrequency setting, e.g. on a |
---|
| 943 | source and IF basis, use scantable.set_selection() before using |
---|
| 944 | this function. |
---|
| 945 | # provide your scantable is call scan |
---|
| 946 | selection = selector() |
---|
| 947 | selection.set_name("ORION*") |
---|
| 948 | selection.set_ifs([1]) |
---|
| 949 | scan.set_selection(selection) |
---|
| 950 | scan.set_restfreqs(freqs=86.6e9) |
---|
| 951 | |
---|
| 952 | """ |
---|
| 953 | varlist = vars() |
---|
[1157] | 954 | from asap import linecatalog |
---|
| 955 | # simple value |
---|
[1118] | 956 | if isinstance(freqs, int) or isinstance(freqs, float): |
---|
[1446] | 957 | # TT mod |
---|
| 958 | #self._setrestfreqs(freqs, "",unit) |
---|
| 959 | self._setrestfreqs([freqs], [""],unit) |
---|
[1157] | 960 | # list of values |
---|
[1118] | 961 | elif isinstance(freqs, list) or isinstance(freqs, tuple): |
---|
[1157] | 962 | # list values are scalars |
---|
[1118] | 963 | if isinstance(freqs[-1], int) or isinstance(freqs[-1], float): |
---|
[1446] | 964 | self._setrestfreqs(freqs, [""],unit) |
---|
[1157] | 965 | # list values are tuples, (value, name) |
---|
| 966 | elif isinstance(freqs[-1], dict): |
---|
[1446] | 967 | #sel = selector() |
---|
| 968 | #savesel = self._getselection() |
---|
| 969 | #iflist = self.getifnos() |
---|
| 970 | #for i in xrange(len(freqs)): |
---|
| 971 | # sel.set_ifs(iflist[i]) |
---|
| 972 | # self._setselection(sel) |
---|
| 973 | # self._setrestfreqs(freqs[i], "",unit) |
---|
| 974 | #self._setselection(savesel) |
---|
| 975 | self._setrestfreqs(freqs["value"], |
---|
| 976 | freqs["name"], "MHz") |
---|
| 977 | elif isinstance(freqs[-1], list) or isinstance(freqs[-1], tuple): |
---|
[1157] | 978 | sel = selector() |
---|
| 979 | savesel = self._getselection() |
---|
[1322] | 980 | iflist = self.getifnos() |
---|
[1446] | 981 | if len(freqs)>len(iflist): |
---|
| 982 | raise ValueError("number of elements in list of list exeeds the current IF selections") |
---|
[1157] | 983 | for i in xrange(len(freqs)): |
---|
[1322] | 984 | sel.set_ifs(iflist[i]) |
---|
[1259] | 985 | self._setselection(sel) |
---|
[1157] | 986 | self._setrestfreqs(freqs[i]["value"], |
---|
| 987 | freqs[i]["name"], "MHz") |
---|
| 988 | self._setselection(savesel) |
---|
| 989 | # freqs are to be taken from a linecatalog |
---|
[1153] | 990 | elif isinstance(freqs, linecatalog): |
---|
| 991 | sel = selector() |
---|
| 992 | savesel = self._getselection() |
---|
| 993 | for i in xrange(freqs.nrow()): |
---|
[1322] | 994 | sel.set_ifs(iflist[i]) |
---|
[1153] | 995 | self._setselection(sel) |
---|
| 996 | self._setrestfreqs(freqs.get_frequency(i), |
---|
| 997 | freqs.get_name(i), "MHz") |
---|
| 998 | # ensure that we are not iterating past nIF |
---|
| 999 | if i == self.nif()-1: break |
---|
| 1000 | self._setselection(savesel) |
---|
[931] | 1001 | else: |
---|
| 1002 | return |
---|
| 1003 | self._add_history("set_restfreqs", varlist) |
---|
| 1004 | |
---|
[1360] | 1005 | def shift_refpix(self, delta): |
---|
| 1006 | """ |
---|
| 1007 | Shift the reference pixel of the Spectra Coordinate by an |
---|
| 1008 | integer amount. |
---|
| 1009 | Parameters: |
---|
| 1010 | delta: the amount to shift by |
---|
| 1011 | Note: |
---|
| 1012 | Be careful using this with broadband data. |
---|
| 1013 | """ |
---|
| 1014 | Scantable.shift(self, delta) |
---|
[931] | 1015 | |
---|
[1259] | 1016 | def history(self, filename=None): |
---|
| 1017 | """ |
---|
| 1018 | Print the history. Optionally to a file. |
---|
[1348] | 1019 | Parameters: |
---|
| 1020 | filename: The name of the file to save the history to. |
---|
[1259] | 1021 | """ |
---|
[484] | 1022 | hist = list(self._gethistory()) |
---|
[794] | 1023 | out = "-"*80 |
---|
[484] | 1024 | for h in hist: |
---|
[489] | 1025 | if h.startswith("---"): |
---|
[794] | 1026 | out += "\n"+h |
---|
[489] | 1027 | else: |
---|
| 1028 | items = h.split("##") |
---|
| 1029 | date = items[0] |
---|
| 1030 | func = items[1] |
---|
| 1031 | items = items[2:] |
---|
[794] | 1032 | out += "\n"+date+"\n" |
---|
| 1033 | out += "Function: %s\n Parameters:" % (func) |
---|
[489] | 1034 | for i in items: |
---|
| 1035 | s = i.split("=") |
---|
[1118] | 1036 | out += "\n %s = %s" % (s[0], s[1]) |
---|
[794] | 1037 | out += "\n"+"-"*80 |
---|
[1259] | 1038 | if filename is not None: |
---|
| 1039 | if filename is "": |
---|
| 1040 | filename = 'scantable_history.txt' |
---|
| 1041 | import os |
---|
| 1042 | filename = os.path.expandvars(os.path.expanduser(filename)) |
---|
| 1043 | if not os.path.isdir(filename): |
---|
| 1044 | data = open(filename, 'w') |
---|
| 1045 | data.write(out) |
---|
| 1046 | data.close() |
---|
| 1047 | else: |
---|
| 1048 | msg = "Illegal file name '%s'." % (filename) |
---|
| 1049 | if rcParams['verbose']: |
---|
| 1050 | print msg |
---|
| 1051 | else: |
---|
| 1052 | raise IOError(msg) |
---|
| 1053 | if rcParams['verbose']: |
---|
| 1054 | try: |
---|
| 1055 | from IPython.genutils import page as pager |
---|
| 1056 | except ImportError: |
---|
| 1057 | from pydoc import pager |
---|
| 1058 | pager(out) |
---|
| 1059 | else: |
---|
| 1060 | return out |
---|
[484] | 1061 | return |
---|
[513] | 1062 | # |
---|
| 1063 | # Maths business |
---|
| 1064 | # |
---|
| 1065 | |
---|
[931] | 1066 | def average_time(self, mask=None, scanav=False, weight='tint', align=False): |
---|
[513] | 1067 | """ |
---|
[1070] | 1068 | Return the (time) weighted average of a scan. |
---|
[513] | 1069 | Note: |
---|
[1070] | 1070 | in channels only - align if necessary |
---|
[513] | 1071 | Parameters: |
---|
| 1072 | mask: an optional mask (only used for 'var' and 'tsys' |
---|
| 1073 | weighting) |
---|
[558] | 1074 | scanav: True averages each scan separately |
---|
| 1075 | False (default) averages all scans together, |
---|
[1099] | 1076 | weight: Weighting scheme. |
---|
| 1077 | 'none' (mean no weight) |
---|
| 1078 | 'var' (1/var(spec) weighted) |
---|
| 1079 | 'tsys' (1/Tsys**2 weighted) |
---|
| 1080 | 'tint' (integration time weighted) |
---|
| 1081 | 'tintsys' (Tint/Tsys**2) |
---|
| 1082 | 'median' ( median averaging) |
---|
[535] | 1083 | The default is 'tint' |
---|
[931] | 1084 | align: align the spectra in velocity before averaging. It takes |
---|
| 1085 | the time of the first spectrum as reference time. |
---|
[513] | 1086 | Example: |
---|
| 1087 | # time average the scantable without using a mask |
---|
[710] | 1088 | newscan = scan.average_time() |
---|
[513] | 1089 | """ |
---|
| 1090 | varlist = vars() |
---|
[976] | 1091 | if weight is None: weight = 'TINT' |
---|
[513] | 1092 | if mask is None: mask = () |
---|
[1099] | 1093 | if scanav: scanav = "SCAN" |
---|
| 1094 | else: scanav = "NONE" |
---|
[1118] | 1095 | scan = (self, ) |
---|
[989] | 1096 | try: |
---|
[1118] | 1097 | if align: |
---|
| 1098 | scan = (self.freq_align(insitu=False), ) |
---|
| 1099 | s = None |
---|
| 1100 | if weight.upper() == 'MEDIAN': |
---|
| 1101 | s = scantable(self._math._averagechannel(scan[0], 'MEDIAN', |
---|
| 1102 | scanav)) |
---|
| 1103 | else: |
---|
| 1104 | s = scantable(self._math._average(scan, mask, weight.upper(), |
---|
| 1105 | scanav)) |
---|
| 1106 | except RuntimeError, msg: |
---|
[989] | 1107 | if rcParams['verbose']: |
---|
| 1108 | print msg |
---|
| 1109 | return |
---|
| 1110 | else: raise |
---|
[1099] | 1111 | s._add_history("average_time", varlist) |
---|
[718] | 1112 | print_log() |
---|
[513] | 1113 | return s |
---|
[710] | 1114 | |
---|
[876] | 1115 | def convert_flux(self, jyperk=None, eta=None, d=None, insitu=None): |
---|
[513] | 1116 | """ |
---|
| 1117 | Return a scan where all spectra are converted to either |
---|
| 1118 | Jansky or Kelvin depending upon the flux units of the scan table. |
---|
| 1119 | By default the function tries to look the values up internally. |
---|
| 1120 | If it can't find them (or if you want to over-ride), you must |
---|
| 1121 | specify EITHER jyperk OR eta (and D which it will try to look up |
---|
| 1122 | also if you don't set it). jyperk takes precedence if you set both. |
---|
| 1123 | Parameters: |
---|
| 1124 | jyperk: the Jy / K conversion factor |
---|
| 1125 | eta: the aperture efficiency |
---|
| 1126 | d: the geomtric diameter (metres) |
---|
| 1127 | insitu: if False a new scantable is returned. |
---|
| 1128 | Otherwise, the scaling is done in-situ |
---|
| 1129 | The default is taken from .asaprc (False) |
---|
| 1130 | """ |
---|
| 1131 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1132 | self._math._setinsitu(insitu) |
---|
[513] | 1133 | varlist = vars() |
---|
| 1134 | if jyperk is None: jyperk = -1.0 |
---|
| 1135 | if d is None: d = -1.0 |
---|
| 1136 | if eta is None: eta = -1.0 |
---|
[876] | 1137 | s = scantable(self._math._convertflux(self, d, eta, jyperk)) |
---|
| 1138 | s._add_history("convert_flux", varlist) |
---|
| 1139 | print_log() |
---|
| 1140 | if insitu: self._assign(s) |
---|
| 1141 | else: return s |
---|
[513] | 1142 | |
---|
[876] | 1143 | def gain_el(self, poly=None, filename="", method="linear", insitu=None): |
---|
[513] | 1144 | """ |
---|
| 1145 | Return a scan after applying a gain-elevation correction. |
---|
| 1146 | The correction can be made via either a polynomial or a |
---|
| 1147 | table-based interpolation (and extrapolation if necessary). |
---|
| 1148 | You specify polynomial coefficients, an ascii table or neither. |
---|
| 1149 | If you specify neither, then a polynomial correction will be made |
---|
| 1150 | with built in coefficients known for certain telescopes (an error |
---|
| 1151 | will occur if the instrument is not known). |
---|
| 1152 | The data and Tsys are *divided* by the scaling factors. |
---|
| 1153 | Parameters: |
---|
| 1154 | poly: Polynomial coefficients (default None) to compute a |
---|
| 1155 | gain-elevation correction as a function of |
---|
| 1156 | elevation (in degrees). |
---|
| 1157 | filename: The name of an ascii file holding correction factors. |
---|
| 1158 | The first row of the ascii file must give the column |
---|
| 1159 | names and these MUST include columns |
---|
| 1160 | "ELEVATION" (degrees) and "FACTOR" (multiply data |
---|
| 1161 | by this) somewhere. |
---|
| 1162 | The second row must give the data type of the |
---|
| 1163 | column. Use 'R' for Real and 'I' for Integer. |
---|
| 1164 | An example file would be |
---|
| 1165 | (actual factors are arbitrary) : |
---|
| 1166 | |
---|
| 1167 | TIME ELEVATION FACTOR |
---|
| 1168 | R R R |
---|
| 1169 | 0.1 0 0.8 |
---|
| 1170 | 0.2 20 0.85 |
---|
| 1171 | 0.3 40 0.9 |
---|
| 1172 | 0.4 60 0.85 |
---|
| 1173 | 0.5 80 0.8 |
---|
| 1174 | 0.6 90 0.75 |
---|
| 1175 | method: Interpolation method when correcting from a table. |
---|
| 1176 | Values are "nearest", "linear" (default), "cubic" |
---|
| 1177 | and "spline" |
---|
| 1178 | insitu: if False a new scantable is returned. |
---|
| 1179 | Otherwise, the scaling is done in-situ |
---|
| 1180 | The default is taken from .asaprc (False) |
---|
| 1181 | """ |
---|
| 1182 | |
---|
| 1183 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1184 | self._math._setinsitu(insitu) |
---|
[513] | 1185 | varlist = vars() |
---|
| 1186 | if poly is None: |
---|
[1118] | 1187 | poly = () |
---|
[513] | 1188 | from os.path import expandvars |
---|
| 1189 | filename = expandvars(filename) |
---|
[876] | 1190 | s = scantable(self._math._gainel(self, poly, filename, method)) |
---|
| 1191 | s._add_history("gain_el", varlist) |
---|
| 1192 | print_log() |
---|
| 1193 | if insitu: self._assign(s) |
---|
| 1194 | else: return s |
---|
[710] | 1195 | |
---|
[931] | 1196 | def freq_align(self, reftime=None, method='cubic', insitu=None): |
---|
[513] | 1197 | """ |
---|
| 1198 | Return a scan where all rows have been aligned in frequency/velocity. |
---|
| 1199 | The alignment frequency frame (e.g. LSRK) is that set by function |
---|
| 1200 | set_freqframe. |
---|
| 1201 | Parameters: |
---|
| 1202 | reftime: reference time to align at. By default, the time of |
---|
| 1203 | the first row of data is used. |
---|
| 1204 | method: Interpolation method for regridding the spectra. |
---|
| 1205 | Choose from "nearest", "linear", "cubic" (default) |
---|
| 1206 | and "spline" |
---|
| 1207 | insitu: if False a new scantable is returned. |
---|
| 1208 | Otherwise, the scaling is done in-situ |
---|
| 1209 | The default is taken from .asaprc (False) |
---|
| 1210 | """ |
---|
[931] | 1211 | if insitu is None: insitu = rcParams["insitu"] |
---|
[876] | 1212 | self._math._setinsitu(insitu) |
---|
[513] | 1213 | varlist = vars() |
---|
[931] | 1214 | if reftime is None: reftime = "" |
---|
| 1215 | s = scantable(self._math._freq_align(self, reftime, method)) |
---|
[876] | 1216 | s._add_history("freq_align", varlist) |
---|
| 1217 | print_log() |
---|
| 1218 | if insitu: self._assign(s) |
---|
| 1219 | else: return s |
---|
[513] | 1220 | |
---|
[876] | 1221 | def opacity(self, tau, insitu=None): |
---|
[513] | 1222 | """ |
---|
| 1223 | Apply an opacity correction. The data |
---|
| 1224 | and Tsys are multiplied by the correction factor. |
---|
| 1225 | Parameters: |
---|
| 1226 | tau: Opacity from which the correction factor is |
---|
| 1227 | exp(tau*ZD) |
---|
| 1228 | where ZD is the zenith-distance |
---|
| 1229 | insitu: if False a new scantable is returned. |
---|
| 1230 | Otherwise, the scaling is done in-situ |
---|
| 1231 | The default is taken from .asaprc (False) |
---|
| 1232 | """ |
---|
| 1233 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1234 | self._math._setinsitu(insitu) |
---|
[513] | 1235 | varlist = vars() |
---|
[876] | 1236 | s = scantable(self._math._opacity(self, tau)) |
---|
| 1237 | s._add_history("opacity", varlist) |
---|
| 1238 | print_log() |
---|
| 1239 | if insitu: self._assign(s) |
---|
| 1240 | else: return s |
---|
[513] | 1241 | |
---|
| 1242 | def bin(self, width=5, insitu=None): |
---|
| 1243 | """ |
---|
| 1244 | Return a scan where all spectra have been binned up. |
---|
[1348] | 1245 | Parameters: |
---|
[513] | 1246 | width: The bin width (default=5) in pixels |
---|
| 1247 | insitu: if False a new scantable is returned. |
---|
| 1248 | Otherwise, the scaling is done in-situ |
---|
| 1249 | The default is taken from .asaprc (False) |
---|
| 1250 | """ |
---|
| 1251 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1252 | self._math._setinsitu(insitu) |
---|
[513] | 1253 | varlist = vars() |
---|
[876] | 1254 | s = scantable(self._math._bin(self, width)) |
---|
[1118] | 1255 | s._add_history("bin", varlist) |
---|
[876] | 1256 | print_log() |
---|
| 1257 | if insitu: self._assign(s) |
---|
| 1258 | else: return s |
---|
[513] | 1259 | |
---|
[710] | 1260 | |
---|
[513] | 1261 | def resample(self, width=5, method='cubic', insitu=None): |
---|
| 1262 | """ |
---|
[1348] | 1263 | Return a scan where all spectra have been binned up. |
---|
| 1264 | |
---|
| 1265 | Parameters: |
---|
[513] | 1266 | width: The bin width (default=5) in pixels |
---|
| 1267 | method: Interpolation method when correcting from a table. |
---|
| 1268 | Values are "nearest", "linear", "cubic" (default) |
---|
| 1269 | and "spline" |
---|
| 1270 | insitu: if False a new scantable is returned. |
---|
| 1271 | Otherwise, the scaling is done in-situ |
---|
| 1272 | The default is taken from .asaprc (False) |
---|
| 1273 | """ |
---|
| 1274 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1275 | self._math._setinsitu(insitu) |
---|
[513] | 1276 | varlist = vars() |
---|
[876] | 1277 | s = scantable(self._math._resample(self, method, width)) |
---|
[1118] | 1278 | s._add_history("resample", varlist) |
---|
[876] | 1279 | print_log() |
---|
| 1280 | if insitu: self._assign(s) |
---|
| 1281 | else: return s |
---|
[513] | 1282 | |
---|
| 1283 | |
---|
[946] | 1284 | def average_pol(self, mask=None, weight='none'): |
---|
| 1285 | """ |
---|
| 1286 | Average the Polarisations together. |
---|
| 1287 | Parameters: |
---|
| 1288 | mask: An optional mask defining the region, where the |
---|
| 1289 | averaging will be applied. The output will have all |
---|
| 1290 | specified points masked. |
---|
| 1291 | weight: Weighting scheme. 'none' (default), 'var' (1/var(spec) |
---|
| 1292 | weighted), or 'tsys' (1/Tsys**2 weighted) |
---|
| 1293 | """ |
---|
| 1294 | varlist = vars() |
---|
| 1295 | if mask is None: |
---|
| 1296 | mask = () |
---|
[1010] | 1297 | s = scantable(self._math._averagepol(self, mask, weight.upper())) |
---|
[1118] | 1298 | s._add_history("average_pol", varlist) |
---|
[946] | 1299 | print_log() |
---|
[992] | 1300 | return s |
---|
[513] | 1301 | |
---|
[1145] | 1302 | def average_beam(self, mask=None, weight='none'): |
---|
| 1303 | """ |
---|
| 1304 | Average the Beams together. |
---|
| 1305 | Parameters: |
---|
| 1306 | mask: An optional mask defining the region, where the |
---|
| 1307 | averaging will be applied. The output will have all |
---|
| 1308 | specified points masked. |
---|
| 1309 | weight: Weighting scheme. 'none' (default), 'var' (1/var(spec) |
---|
| 1310 | weighted), or 'tsys' (1/Tsys**2 weighted) |
---|
| 1311 | """ |
---|
| 1312 | varlist = vars() |
---|
| 1313 | if mask is None: |
---|
| 1314 | mask = () |
---|
| 1315 | s = scantable(self._math._averagebeams(self, mask, weight.upper())) |
---|
| 1316 | s._add_history("average_beam", varlist) |
---|
| 1317 | print_log() |
---|
| 1318 | return s |
---|
| 1319 | |
---|
[992] | 1320 | def convert_pol(self, poltype=None): |
---|
| 1321 | """ |
---|
| 1322 | Convert the data to a different polarisation type. |
---|
| 1323 | Parameters: |
---|
| 1324 | poltype: The new polarisation type. Valid types are: |
---|
| 1325 | "linear", "stokes" and "circular" |
---|
| 1326 | """ |
---|
| 1327 | varlist = vars() |
---|
| 1328 | try: |
---|
| 1329 | s = scantable(self._math._convertpol(self, poltype)) |
---|
[1118] | 1330 | except RuntimeError, msg: |
---|
[992] | 1331 | if rcParams['verbose']: |
---|
[1118] | 1332 | print msg |
---|
| 1333 | return |
---|
[992] | 1334 | else: |
---|
| 1335 | raise |
---|
[1118] | 1336 | s._add_history("convert_pol", varlist) |
---|
[992] | 1337 | print_log() |
---|
| 1338 | return s |
---|
| 1339 | |
---|
[876] | 1340 | def smooth(self, kernel="hanning", width=5.0, insitu=None): |
---|
[513] | 1341 | """ |
---|
| 1342 | Smooth the spectrum by the specified kernel (conserving flux). |
---|
| 1343 | Parameters: |
---|
| 1344 | kernel: The type of smoothing kernel. Select from |
---|
[1373] | 1345 | 'hanning' (default), 'gaussian', 'boxcar' and |
---|
| 1346 | 'rmedian' |
---|
[513] | 1347 | width: The width of the kernel in pixels. For hanning this is |
---|
| 1348 | ignored otherwise it defauls to 5 pixels. |
---|
| 1349 | For 'gaussian' it is the Full Width Half |
---|
| 1350 | Maximum. For 'boxcar' it is the full width. |
---|
[1373] | 1351 | For 'rmedian' it is the half width. |
---|
[513] | 1352 | insitu: if False a new scantable is returned. |
---|
| 1353 | Otherwise, the scaling is done in-situ |
---|
| 1354 | The default is taken from .asaprc (False) |
---|
| 1355 | Example: |
---|
| 1356 | none |
---|
| 1357 | """ |
---|
| 1358 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1359 | self._math._setinsitu(insitu) |
---|
[513] | 1360 | varlist = vars() |
---|
[1118] | 1361 | s = scantable(self._math._smooth(self, kernel.lower(), width)) |
---|
[876] | 1362 | s._add_history("smooth", varlist) |
---|
| 1363 | print_log() |
---|
| 1364 | if insitu: self._assign(s) |
---|
| 1365 | else: return s |
---|
[513] | 1366 | |
---|
[876] | 1367 | |
---|
[1389] | 1368 | def poly_baseline(self, mask=None, order=0, plot=False, uselin=False, insitu=None): |
---|
[513] | 1369 | """ |
---|
| 1370 | Return a scan which has been baselined (all rows) by a polynomial. |
---|
| 1371 | Parameters: |
---|
[794] | 1372 | mask: an optional mask |
---|
| 1373 | order: the order of the polynomial (default is 0) |
---|
[1061] | 1374 | plot: plot the fit and the residual. In this each |
---|
| 1375 | indivual fit has to be approved, by typing 'y' |
---|
| 1376 | or 'n' |
---|
[1389] | 1377 | uselin: use linear polynomial fit |
---|
[794] | 1378 | insitu: if False a new scantable is returned. |
---|
| 1379 | Otherwise, the scaling is done in-situ |
---|
| 1380 | The default is taken from .asaprc (False) |
---|
[513] | 1381 | Example: |
---|
| 1382 | # return a scan baselined by a third order polynomial, |
---|
| 1383 | # not using a mask |
---|
| 1384 | bscan = scan.poly_baseline(order=3) |
---|
[579] | 1385 | """ |
---|
[513] | 1386 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 1387 | varlist = vars() |
---|
| 1388 | if mask is None: |
---|
[1295] | 1389 | mask = [True for i in xrange(self.nchan(-1))] |
---|
[513] | 1390 | from asap.asapfitter import fitter |
---|
[1217] | 1391 | try: |
---|
| 1392 | f = fitter() |
---|
| 1393 | f.set_scan(self, mask) |
---|
[1389] | 1394 | if uselin: |
---|
| 1395 | f.set_function(lpoly=order) |
---|
| 1396 | else: |
---|
| 1397 | f.set_function(poly=order) |
---|
[1217] | 1398 | s = f.auto_fit(insitu, plot=plot) |
---|
[1446] | 1399 | # Save parameters of baseline fits as a class attribute. |
---|
| 1400 | # NOTICE: It does not reflect changes in scantable! |
---|
| 1401 | self.blpars = f.blpars |
---|
[1217] | 1402 | s._add_history("poly_baseline", varlist) |
---|
| 1403 | print_log() |
---|
| 1404 | if insitu: self._assign(s) |
---|
| 1405 | else: return s |
---|
| 1406 | except RuntimeError: |
---|
| 1407 | msg = "The fit failed, possibly because it didn't converge." |
---|
| 1408 | if rcParams['verbose']: |
---|
| 1409 | print msg |
---|
| 1410 | return |
---|
| 1411 | else: |
---|
| 1412 | raise RuntimeError(msg) |
---|
[513] | 1413 | |
---|
[1217] | 1414 | |
---|
[1118] | 1415 | def auto_poly_baseline(self, mask=[], edge=(0, 0), order=0, |
---|
[1280] | 1416 | threshold=3, chan_avg_limit=1, plot=False, |
---|
| 1417 | insitu=None): |
---|
[880] | 1418 | """ |
---|
| 1419 | Return a scan which has been baselined (all rows) by a polynomial. |
---|
| 1420 | Spectral lines are detected first using linefinder and masked out |
---|
| 1421 | to avoid them affecting the baseline solution. |
---|
| 1422 | |
---|
| 1423 | Parameters: |
---|
| 1424 | mask: an optional mask retreived from scantable |
---|
| 1425 | edge: an optional number of channel to drop at |
---|
| 1426 | the edge of spectrum. If only one value is |
---|
| 1427 | specified, the same number will be dropped from |
---|
| 1428 | both sides of the spectrum. Default is to keep |
---|
[907] | 1429 | all channels. Nested tuples represent individual |
---|
[976] | 1430 | edge selection for different IFs (a number of spectral |
---|
| 1431 | channels can be different) |
---|
[880] | 1432 | order: the order of the polynomial (default is 0) |
---|
| 1433 | threshold: the threshold used by line finder. It is better to |
---|
| 1434 | keep it large as only strong lines affect the |
---|
| 1435 | baseline solution. |
---|
[1280] | 1436 | chan_avg_limit: |
---|
| 1437 | a maximum number of consequtive spectral channels to |
---|
| 1438 | average during the search of weak and broad lines. |
---|
| 1439 | The default is no averaging (and no search for weak |
---|
| 1440 | lines). If such lines can affect the fitted baseline |
---|
| 1441 | (e.g. a high order polynomial is fitted), increase this |
---|
| 1442 | parameter (usually values up to 8 are reasonable). Most |
---|
| 1443 | users of this method should find the default value |
---|
| 1444 | sufficient. |
---|
[1061] | 1445 | plot: plot the fit and the residual. In this each |
---|
| 1446 | indivual fit has to be approved, by typing 'y' |
---|
| 1447 | or 'n' |
---|
[880] | 1448 | insitu: if False a new scantable is returned. |
---|
| 1449 | Otherwise, the scaling is done in-situ |
---|
| 1450 | The default is taken from .asaprc (False) |
---|
| 1451 | |
---|
| 1452 | Example: |
---|
| 1453 | scan2=scan.auto_poly_baseline(order=7) |
---|
| 1454 | """ |
---|
| 1455 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 1456 | varlist = vars() |
---|
| 1457 | from asap.asapfitter import fitter |
---|
| 1458 | from asap.asaplinefind import linefinder |
---|
| 1459 | from asap import _is_sequence_or_number as _is_valid |
---|
| 1460 | |
---|
[976] | 1461 | # check whether edge is set up for each IF individually |
---|
[1118] | 1462 | individualedge = False; |
---|
| 1463 | if len(edge) > 1: |
---|
| 1464 | if isinstance(edge[0], list) or isinstance(edge[0], tuple): |
---|
| 1465 | individualedge = True; |
---|
[907] | 1466 | |
---|
[1118] | 1467 | if not _is_valid(edge, int) and not individualedge: |
---|
[909] | 1468 | raise ValueError, "Parameter 'edge' has to be an integer or a \ |
---|
[907] | 1469 | pair of integers specified as a tuple. Nested tuples are allowed \ |
---|
| 1470 | to make individual selection for different IFs." |
---|
[919] | 1471 | |
---|
[1118] | 1472 | curedge = (0, 0) |
---|
| 1473 | if individualedge: |
---|
| 1474 | for edgepar in edge: |
---|
| 1475 | if not _is_valid(edgepar, int): |
---|
| 1476 | raise ValueError, "Each element of the 'edge' tuple has \ |
---|
| 1477 | to be a pair of integers or an integer." |
---|
[907] | 1478 | else: |
---|
[1118] | 1479 | curedge = edge; |
---|
[880] | 1480 | |
---|
| 1481 | # setup fitter |
---|
| 1482 | f = fitter() |
---|
| 1483 | f.set_function(poly=order) |
---|
| 1484 | |
---|
| 1485 | # setup line finder |
---|
[1118] | 1486 | fl = linefinder() |
---|
[1268] | 1487 | fl.set_options(threshold=threshold,avg_limit=chan_avg_limit) |
---|
[880] | 1488 | |
---|
| 1489 | if not insitu: |
---|
[1118] | 1490 | workscan = self.copy() |
---|
[880] | 1491 | else: |
---|
[1118] | 1492 | workscan = self |
---|
[880] | 1493 | |
---|
[907] | 1494 | fl.set_scan(workscan) |
---|
| 1495 | |
---|
[1118] | 1496 | rows = range(workscan.nrow()) |
---|
[1446] | 1497 | # Save parameters of baseline fits & masklists as a class attribute. |
---|
| 1498 | # NOTICE: It does not reflect changes in scantable! |
---|
| 1499 | if len(rows) > 0: |
---|
| 1500 | self.blpars=[] |
---|
| 1501 | self.masklists=[] |
---|
[880] | 1502 | asaplog.push("Processing:") |
---|
| 1503 | for r in rows: |
---|
[1118] | 1504 | msg = " Scan[%d] Beam[%d] IF[%d] Pol[%d] Cycle[%d]" % \ |
---|
| 1505 | (workscan.getscan(r), workscan.getbeam(r), workscan.getif(r), \ |
---|
| 1506 | workscan.getpol(r), workscan.getcycle(r)) |
---|
[880] | 1507 | asaplog.push(msg, False) |
---|
[907] | 1508 | |
---|
[976] | 1509 | # figure out edge parameter |
---|
[1118] | 1510 | if individualedge: |
---|
| 1511 | if len(edge) >= workscan.getif(r): |
---|
| 1512 | raise RuntimeError, "Number of edge elements appear to " \ |
---|
| 1513 | "be less than the number of IFs" |
---|
| 1514 | curedge = edge[workscan.getif(r)] |
---|
[919] | 1515 | |
---|
[976] | 1516 | # setup line finder |
---|
[1118] | 1517 | fl.find_lines(r, mask, curedge) |
---|
[1446] | 1518 | outmask=fl.get_mask() |
---|
[880] | 1519 | f.set_scan(workscan, fl.get_mask()) |
---|
| 1520 | f.x = workscan._getabcissa(r) |
---|
| 1521 | f.y = workscan._getspectrum(r) |
---|
| 1522 | f.data = None |
---|
| 1523 | f.fit() |
---|
[1446] | 1524 | |
---|
| 1525 | # Show mask list |
---|
| 1526 | masklist=workscan.get_masklist(fl.get_mask(),row=r) |
---|
| 1527 | msg = "mask range: "+str(masklist) |
---|
| 1528 | asaplog.push(msg, False) |
---|
| 1529 | |
---|
| 1530 | fpar = f.get_parameters() |
---|
[1061] | 1531 | if plot: |
---|
| 1532 | f.plot(residual=True) |
---|
| 1533 | x = raw_input("Accept fit ( [y]/n ): ") |
---|
| 1534 | if x.upper() == 'N': |
---|
[1446] | 1535 | self.blpars.append(None) |
---|
| 1536 | self.masklists.append(None) |
---|
[1061] | 1537 | continue |
---|
[880] | 1538 | workscan._setspectrum(f.fitter.getresidual(), r) |
---|
[1446] | 1539 | self.blpars.append(fpar) |
---|
| 1540 | self.masklists.append(masklist) |
---|
[1061] | 1541 | if plot: |
---|
| 1542 | f._p.unmap() |
---|
| 1543 | f._p = None |
---|
| 1544 | workscan._add_history("auto_poly_baseline", varlist) |
---|
[880] | 1545 | if insitu: |
---|
| 1546 | self._assign(workscan) |
---|
| 1547 | else: |
---|
| 1548 | return workscan |
---|
| 1549 | |
---|
[914] | 1550 | def rotate_linpolphase(self, angle): |
---|
| 1551 | """ |
---|
| 1552 | Rotate the phase of the complex polarization O=Q+iU correlation. |
---|
| 1553 | This is always done in situ in the raw data. So if you call this |
---|
| 1554 | function more than once then each call rotates the phase further. |
---|
| 1555 | Parameters: |
---|
| 1556 | angle: The angle (degrees) to rotate (add) by. |
---|
| 1557 | Examples: |
---|
| 1558 | scan.rotate_linpolphase(2.3) |
---|
| 1559 | """ |
---|
| 1560 | varlist = vars() |
---|
[936] | 1561 | self._math._rotate_linpolphase(self, angle) |
---|
[914] | 1562 | self._add_history("rotate_linpolphase", varlist) |
---|
| 1563 | print_log() |
---|
| 1564 | return |
---|
[710] | 1565 | |
---|
[513] | 1566 | |
---|
[914] | 1567 | def rotate_xyphase(self, angle): |
---|
| 1568 | """ |
---|
| 1569 | Rotate the phase of the XY correlation. This is always done in situ |
---|
| 1570 | in the data. So if you call this function more than once |
---|
| 1571 | then each call rotates the phase further. |
---|
| 1572 | Parameters: |
---|
| 1573 | angle: The angle (degrees) to rotate (add) by. |
---|
| 1574 | Examples: |
---|
| 1575 | scan.rotate_xyphase(2.3) |
---|
| 1576 | """ |
---|
| 1577 | varlist = vars() |
---|
[936] | 1578 | self._math._rotate_xyphase(self, angle) |
---|
[914] | 1579 | self._add_history("rotate_xyphase", varlist) |
---|
| 1580 | print_log() |
---|
| 1581 | return |
---|
| 1582 | |
---|
| 1583 | def swap_linears(self): |
---|
| 1584 | """ |
---|
[1348] | 1585 | Swap the linear polarisations XX and YY, or better the first two |
---|
| 1586 | polarisations as this also works for ciculars. |
---|
[914] | 1587 | """ |
---|
| 1588 | varlist = vars() |
---|
[936] | 1589 | self._math._swap_linears(self) |
---|
[914] | 1590 | self._add_history("swap_linears", varlist) |
---|
| 1591 | print_log() |
---|
| 1592 | return |
---|
| 1593 | |
---|
| 1594 | def invert_phase(self): |
---|
| 1595 | """ |
---|
| 1596 | Invert the phase of the complex polarisation |
---|
| 1597 | """ |
---|
| 1598 | varlist = vars() |
---|
[936] | 1599 | self._math._invert_phase(self) |
---|
[914] | 1600 | self._add_history("invert_phase", varlist) |
---|
| 1601 | print_log() |
---|
| 1602 | return |
---|
| 1603 | |
---|
[876] | 1604 | def add(self, offset, insitu=None): |
---|
[513] | 1605 | """ |
---|
| 1606 | Return a scan where all spectra have the offset added |
---|
| 1607 | Parameters: |
---|
| 1608 | offset: the offset |
---|
| 1609 | insitu: if False a new scantable is returned. |
---|
| 1610 | Otherwise, the scaling is done in-situ |
---|
| 1611 | The default is taken from .asaprc (False) |
---|
| 1612 | """ |
---|
| 1613 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1614 | self._math._setinsitu(insitu) |
---|
[513] | 1615 | varlist = vars() |
---|
[876] | 1616 | s = scantable(self._math._unaryop(self, offset, "ADD", False)) |
---|
[1118] | 1617 | s._add_history("add", varlist) |
---|
[876] | 1618 | print_log() |
---|
| 1619 | if insitu: |
---|
| 1620 | self._assign(s) |
---|
| 1621 | else: |
---|
[513] | 1622 | return s |
---|
| 1623 | |
---|
[1308] | 1624 | def scale(self, factor, tsys=True, insitu=None): |
---|
[513] | 1625 | """ |
---|
| 1626 | Return a scan where all spectra are scaled by the give 'factor' |
---|
| 1627 | Parameters: |
---|
| 1628 | factor: the scaling factor |
---|
| 1629 | insitu: if False a new scantable is returned. |
---|
| 1630 | Otherwise, the scaling is done in-situ |
---|
| 1631 | The default is taken from .asaprc (False) |
---|
| 1632 | tsys: if True (default) then apply the operation to Tsys |
---|
| 1633 | as well as the data |
---|
| 1634 | """ |
---|
| 1635 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1636 | self._math._setinsitu(insitu) |
---|
[513] | 1637 | varlist = vars() |
---|
[876] | 1638 | s = scantable(self._math._unaryop(self, factor, "MUL", tsys)) |
---|
[1118] | 1639 | s._add_history("scale", varlist) |
---|
[876] | 1640 | print_log() |
---|
| 1641 | if insitu: |
---|
| 1642 | self._assign(s) |
---|
| 1643 | else: |
---|
[513] | 1644 | return s |
---|
| 1645 | |
---|
[1348] | 1646 | def auto_quotient(self, preserve=True, mode='paired'): |
---|
[670] | 1647 | """ |
---|
| 1648 | This function allows to build quotients automatically. |
---|
| 1649 | It assumes the observation to have the same numer of |
---|
| 1650 | "ons" and "offs" |
---|
| 1651 | Parameters: |
---|
[710] | 1652 | preserve: you can preserve (default) the continuum or |
---|
| 1653 | remove it. The equations used are |
---|
[670] | 1654 | preserve: Output = Toff * (on/off) - Toff |
---|
[1070] | 1655 | remove: Output = Toff * (on/off) - Ton |
---|
[1348] | 1656 | mode: the on/off detection mode |
---|
| 1657 | 'paired' (default) |
---|
| 1658 | identifies 'off' scans by the |
---|
| 1659 | trailing '_R' (Mopra/Parkes) or |
---|
| 1660 | '_e'/'_w' (Tid) and matches |
---|
| 1661 | on/off pairs from the observing pattern |
---|
| 1662 | 'time' |
---|
| 1663 | finds the closest off in time |
---|
| 1664 | |
---|
[670] | 1665 | """ |
---|
[1348] | 1666 | modes = ["time", "paired"] |
---|
[670] | 1667 | if not mode in modes: |
---|
[876] | 1668 | msg = "please provide valid mode. Valid modes are %s" % (modes) |
---|
| 1669 | raise ValueError(msg) |
---|
| 1670 | varlist = vars() |
---|
[1348] | 1671 | s = None |
---|
| 1672 | if mode.lower() == "paired": |
---|
| 1673 | basesel = self.get_selection() |
---|
[1356] | 1674 | sel = selector()+basesel |
---|
| 1675 | sel.set_query("SRCTYPE==1") |
---|
| 1676 | self.set_selection(sel) |
---|
[1348] | 1677 | offs = self.copy() |
---|
| 1678 | sel.set_query("SRCTYPE==0") |
---|
[1356] | 1679 | self.set_selection(sel) |
---|
[1348] | 1680 | ons = self.copy() |
---|
| 1681 | s = scantable(self._math._quotient(ons, offs, preserve)) |
---|
| 1682 | self.set_selection(basesel) |
---|
| 1683 | elif mode.lower() == "time": |
---|
| 1684 | s = scantable(self._math._auto_quotient(self, mode, preserve)) |
---|
[1118] | 1685 | s._add_history("auto_quotient", varlist) |
---|
[876] | 1686 | print_log() |
---|
| 1687 | return s |
---|
[710] | 1688 | |
---|
[1145] | 1689 | def mx_quotient(self, mask = None, weight='median', preserve=True): |
---|
[1141] | 1690 | """ |
---|
[1143] | 1691 | Form a quotient using "off" beams when observing in "MX" mode. |
---|
| 1692 | Parameters: |
---|
[1145] | 1693 | mask: an optional mask to be used when weight == 'stddev' |
---|
[1143] | 1694 | weight: How to average the off beams. Default is 'median'. |
---|
[1145] | 1695 | preserve: you can preserve (default) the continuum or |
---|
| 1696 | remove it. The equations used are |
---|
| 1697 | preserve: Output = Toff * (on/off) - Toff |
---|
| 1698 | remove: Output = Toff * (on/off) - Ton |
---|
[1217] | 1699 | """ |
---|
[1143] | 1700 | if mask is None: mask = () |
---|
[1141] | 1701 | varlist = vars() |
---|
| 1702 | on = scantable(self._math._mx_extract(self, 'on')) |
---|
[1143] | 1703 | preoff = scantable(self._math._mx_extract(self, 'off')) |
---|
| 1704 | off = preoff.average_time(mask=mask, weight=weight, scanav=False) |
---|
[1217] | 1705 | from asapmath import quotient |
---|
[1145] | 1706 | q = quotient(on, off, preserve) |
---|
[1143] | 1707 | q._add_history("mx_quotient", varlist) |
---|
[1145] | 1708 | print_log() |
---|
[1217] | 1709 | return q |
---|
[513] | 1710 | |
---|
[718] | 1711 | def freq_switch(self, insitu=None): |
---|
| 1712 | """ |
---|
| 1713 | Apply frequency switching to the data. |
---|
| 1714 | Parameters: |
---|
| 1715 | insitu: if False a new scantable is returned. |
---|
| 1716 | Otherwise, the swictching is done in-situ |
---|
| 1717 | The default is taken from .asaprc (False) |
---|
| 1718 | Example: |
---|
| 1719 | none |
---|
| 1720 | """ |
---|
| 1721 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1722 | self._math._setinsitu(insitu) |
---|
[718] | 1723 | varlist = vars() |
---|
[876] | 1724 | s = scantable(self._math._freqswitch(self)) |
---|
[1118] | 1725 | s._add_history("freq_switch", varlist) |
---|
[876] | 1726 | print_log() |
---|
| 1727 | if insitu: self._assign(s) |
---|
| 1728 | else: return s |
---|
[718] | 1729 | |
---|
[780] | 1730 | def recalc_azel(self): |
---|
| 1731 | """ |
---|
| 1732 | Recalculate the azimuth and elevation for each position. |
---|
| 1733 | Parameters: |
---|
| 1734 | none |
---|
| 1735 | Example: |
---|
| 1736 | """ |
---|
| 1737 | varlist = vars() |
---|
[876] | 1738 | self._recalcazel() |
---|
[780] | 1739 | self._add_history("recalc_azel", varlist) |
---|
| 1740 | print_log() |
---|
| 1741 | return |
---|
| 1742 | |
---|
[513] | 1743 | def __add__(self, other): |
---|
| 1744 | varlist = vars() |
---|
| 1745 | s = None |
---|
| 1746 | if isinstance(other, scantable): |
---|
[1308] | 1747 | s = scantable(self._math._binaryop(self, other, "ADD")) |
---|
[513] | 1748 | elif isinstance(other, float): |
---|
[876] | 1749 | s = scantable(self._math._unaryop(self, other, "ADD", False)) |
---|
[513] | 1750 | else: |
---|
[718] | 1751 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1752 | s._add_history("operator +", varlist) |
---|
[718] | 1753 | print_log() |
---|
[513] | 1754 | return s |
---|
| 1755 | |
---|
| 1756 | def __sub__(self, other): |
---|
| 1757 | """ |
---|
| 1758 | implicit on all axes and on Tsys |
---|
| 1759 | """ |
---|
| 1760 | varlist = vars() |
---|
| 1761 | s = None |
---|
| 1762 | if isinstance(other, scantable): |
---|
[1308] | 1763 | s = scantable(self._math._binaryop(self, other, "SUB")) |
---|
[513] | 1764 | elif isinstance(other, float): |
---|
[876] | 1765 | s = scantable(self._math._unaryop(self, other, "SUB", False)) |
---|
[513] | 1766 | else: |
---|
[718] | 1767 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1768 | s._add_history("operator -", varlist) |
---|
[718] | 1769 | print_log() |
---|
[513] | 1770 | return s |
---|
[710] | 1771 | |
---|
[513] | 1772 | def __mul__(self, other): |
---|
| 1773 | """ |
---|
| 1774 | implicit on all axes and on Tsys |
---|
| 1775 | """ |
---|
| 1776 | varlist = vars() |
---|
| 1777 | s = None |
---|
| 1778 | if isinstance(other, scantable): |
---|
[1308] | 1779 | s = scantable(self._math._binaryop(self, other, "MUL")) |
---|
[513] | 1780 | elif isinstance(other, float): |
---|
[876] | 1781 | s = scantable(self._math._unaryop(self, other, "MUL", False)) |
---|
[513] | 1782 | else: |
---|
[718] | 1783 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1784 | s._add_history("operator *", varlist) |
---|
[718] | 1785 | print_log() |
---|
[513] | 1786 | return s |
---|
| 1787 | |
---|
[710] | 1788 | |
---|
[513] | 1789 | def __div__(self, other): |
---|
| 1790 | """ |
---|
| 1791 | implicit on all axes and on Tsys |
---|
| 1792 | """ |
---|
| 1793 | varlist = vars() |
---|
| 1794 | s = None |
---|
| 1795 | if isinstance(other, scantable): |
---|
[1308] | 1796 | s = scantable(self._math._binaryop(self, other, "DIV")) |
---|
[513] | 1797 | elif isinstance(other, float): |
---|
| 1798 | if other == 0.0: |
---|
[718] | 1799 | raise ZeroDivisionError("Dividing by zero is not recommended") |
---|
[876] | 1800 | s = scantable(self._math._unaryop(self, other, "DIV", False)) |
---|
[513] | 1801 | else: |
---|
[718] | 1802 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1803 | s._add_history("operator /", varlist) |
---|
[718] | 1804 | print_log() |
---|
[513] | 1805 | return s |
---|
| 1806 | |
---|
[530] | 1807 | def get_fit(self, row=0): |
---|
| 1808 | """ |
---|
| 1809 | Print or return the stored fits for a row in the scantable |
---|
| 1810 | Parameters: |
---|
| 1811 | row: the row which the fit has been applied to. |
---|
| 1812 | """ |
---|
| 1813 | if row > self.nrow(): |
---|
| 1814 | return |
---|
[976] | 1815 | from asap.asapfit import asapfit |
---|
[530] | 1816 | fit = asapfit(self._getfit(row)) |
---|
[718] | 1817 | if rcParams['verbose']: |
---|
[530] | 1818 | print fit |
---|
| 1819 | return |
---|
| 1820 | else: |
---|
| 1821 | return fit.as_dict() |
---|
| 1822 | |
---|
[484] | 1823 | def _add_history(self, funcname, parameters): |
---|
| 1824 | # create date |
---|
| 1825 | sep = "##" |
---|
| 1826 | from datetime import datetime |
---|
| 1827 | dstr = datetime.now().strftime('%Y/%m/%d %H:%M:%S') |
---|
| 1828 | hist = dstr+sep |
---|
| 1829 | hist += funcname+sep#cdate+sep |
---|
| 1830 | if parameters.has_key('self'): del parameters['self'] |
---|
[1118] | 1831 | for k, v in parameters.iteritems(): |
---|
[484] | 1832 | if type(v) is dict: |
---|
[1118] | 1833 | for k2, v2 in v.iteritems(): |
---|
[484] | 1834 | hist += k2 |
---|
| 1835 | hist += "=" |
---|
[1118] | 1836 | if isinstance(v2, scantable): |
---|
[484] | 1837 | hist += 'scantable' |
---|
| 1838 | elif k2 == 'mask': |
---|
[1118] | 1839 | if isinstance(v2, list) or isinstance(v2, tuple): |
---|
[513] | 1840 | hist += str(self._zip_mask(v2)) |
---|
| 1841 | else: |
---|
| 1842 | hist += str(v2) |
---|
[484] | 1843 | else: |
---|
[513] | 1844 | hist += str(v2) |
---|
[484] | 1845 | else: |
---|
| 1846 | hist += k |
---|
| 1847 | hist += "=" |
---|
[1118] | 1848 | if isinstance(v, scantable): |
---|
[484] | 1849 | hist += 'scantable' |
---|
| 1850 | elif k == 'mask': |
---|
[1118] | 1851 | if isinstance(v, list) or isinstance(v, tuple): |
---|
[513] | 1852 | hist += str(self._zip_mask(v)) |
---|
| 1853 | else: |
---|
| 1854 | hist += str(v) |
---|
[484] | 1855 | else: |
---|
| 1856 | hist += str(v) |
---|
| 1857 | hist += sep |
---|
| 1858 | hist = hist[:-2] # remove trailing '##' |
---|
| 1859 | self._addhistory(hist) |
---|
| 1860 | |
---|
[710] | 1861 | |
---|
[484] | 1862 | def _zip_mask(self, mask): |
---|
| 1863 | mask = list(mask) |
---|
| 1864 | i = 0 |
---|
| 1865 | segments = [] |
---|
| 1866 | while mask[i:].count(1): |
---|
| 1867 | i += mask[i:].index(1) |
---|
| 1868 | if mask[i:].count(0): |
---|
| 1869 | j = i + mask[i:].index(0) |
---|
| 1870 | else: |
---|
[710] | 1871 | j = len(mask) |
---|
[1118] | 1872 | segments.append([i, j]) |
---|
[710] | 1873 | i = j |
---|
[484] | 1874 | return segments |
---|
[714] | 1875 | |
---|
[626] | 1876 | def _get_ordinate_label(self): |
---|
| 1877 | fu = "("+self.get_fluxunit()+")" |
---|
| 1878 | import re |
---|
| 1879 | lbl = "Intensity" |
---|
[1118] | 1880 | if re.match(".K.", fu): |
---|
[626] | 1881 | lbl = "Brightness Temperature "+ fu |
---|
[1118] | 1882 | elif re.match(".Jy.", fu): |
---|
[626] | 1883 | lbl = "Flux density "+ fu |
---|
| 1884 | return lbl |
---|
[710] | 1885 | |
---|
[876] | 1886 | def _check_ifs(self): |
---|
| 1887 | nchans = [self.nchan(i) for i in range(self.nif(-1))] |
---|
[889] | 1888 | nchans = filter(lambda t: t > 0, nchans) |
---|
[876] | 1889 | return (sum(nchans)/len(nchans) == nchans[0]) |
---|
[976] | 1890 | |
---|
| 1891 | def _fill(self, names, unit, average): |
---|
| 1892 | import os |
---|
| 1893 | from asap._asap import stfiller |
---|
| 1894 | first = True |
---|
| 1895 | fullnames = [] |
---|
| 1896 | for name in names: |
---|
| 1897 | name = os.path.expandvars(name) |
---|
| 1898 | name = os.path.expanduser(name) |
---|
| 1899 | if not os.path.exists(name): |
---|
| 1900 | msg = "File '%s' does not exists" % (name) |
---|
| 1901 | if rcParams['verbose']: |
---|
| 1902 | asaplog.push(msg) |
---|
| 1903 | print asaplog.pop().strip() |
---|
| 1904 | return |
---|
| 1905 | raise IOError(msg) |
---|
| 1906 | fullnames.append(name) |
---|
| 1907 | if average: |
---|
| 1908 | asaplog.push('Auto averaging integrations') |
---|
[1079] | 1909 | stype = int(rcParams['scantable.storage'].lower() == 'disk') |
---|
[976] | 1910 | for name in fullnames: |
---|
[1073] | 1911 | tbl = Scantable(stype) |
---|
| 1912 | r = stfiller(tbl) |
---|
[976] | 1913 | msg = "Importing %s..." % (name) |
---|
[1118] | 1914 | asaplog.push(msg, False) |
---|
[976] | 1915 | print_log() |
---|
[1118] | 1916 | r._open(name, -1, -1) |
---|
[976] | 1917 | r._read() |
---|
[1073] | 1918 | #tbl = r._getdata() |
---|
[976] | 1919 | if average: |
---|
[1118] | 1920 | tbl = self._math._average((tbl, ), (), 'NONE', 'SCAN') |
---|
[976] | 1921 | #tbl = tbl2 |
---|
| 1922 | if not first: |
---|
| 1923 | tbl = self._math._merge([self, tbl]) |
---|
| 1924 | #tbl = tbl2 |
---|
| 1925 | Scantable.__init__(self, tbl) |
---|
| 1926 | r._close() |
---|
[1118] | 1927 | del r, tbl |
---|
[976] | 1928 | first = False |
---|
| 1929 | if unit is not None: |
---|
| 1930 | self.set_fluxunit(unit) |
---|
[1446] | 1931 | #self.set_freqframe(rcParams['scantable.freqframe']) |
---|
[976] | 1932 | |
---|