[1697] | 1 | import os |
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[1691] | 2 | try: |
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| 3 | from functools import wraps as wraps_dec |
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| 4 | except ImportError: |
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| 5 | from asap.compatibility import wraps as wraps_dec |
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| 6 | |
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[876] | 7 | from asap._asap import Scantable |
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[226] | 8 | from asap import rcParams |
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[1589] | 9 | from asap import print_log, print_log_dec |
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[1118] | 10 | from asap import asaplog |
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[946] | 11 | from asap import selector |
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[1153] | 12 | from asap import linecatalog |
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[1600] | 13 | from asap.coordinate import coordinate |
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[1295] | 14 | from asap import _n_bools, mask_not, mask_and, mask_or |
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[102] | 15 | |
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[1689] | 16 | |
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| 17 | def preserve_selection(func): |
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[1691] | 18 | @wraps_dec(func) |
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[1689] | 19 | def wrap(obj, *args, **kw): |
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| 20 | basesel = obj.get_selection() |
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| 21 | val = func(obj, *args, **kw) |
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| 22 | obj.set_selection(basesel) |
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| 23 | return val |
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| 24 | return wrap |
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| 25 | |
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| 26 | |
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[1697] | 27 | def is_scantable(filename): |
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| 28 | return (os.path.isdir(filename) |
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| 29 | and not os.path.exists(filename+'/table.f1') |
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| 30 | and os.path.exists(filename+'/table.info')) |
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| 31 | |
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| 32 | |
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[876] | 33 | class scantable(Scantable): |
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[102] | 34 | """ |
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| 35 | The ASAP container for scans |
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| 36 | """ |
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[1589] | 37 | @print_log_dec |
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[1586] | 38 | def __init__(self, filename, average=None, unit=None, parallactify=None): |
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[102] | 39 | """ |
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| 40 | Create a scantable from a saved one or make a reference |
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| 41 | Parameters: |
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[181] | 42 | filename: the name of an asap table on disk |
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| 43 | or |
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| 44 | the name of a rpfits/sdfits/ms file |
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| 45 | (integrations within scans are auto averaged |
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| 46 | and the whole file is read) |
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| 47 | or |
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| 48 | [advanced] a reference to an existing |
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[102] | 49 | scantable |
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[484] | 50 | average: average all integrations withinb a scan on read. |
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| 51 | The default (True) is taken from .asaprc. |
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| 52 | unit: brightness unit; must be consistent with K or Jy. |
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[340] | 53 | Over-rides the default selected by the reader |
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| 54 | (input rpfits/sdfits/ms) or replaces the value |
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| 55 | in existing scantables |
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[1586] | 56 | parallactify: Indcicate that the data had been parallatified. |
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| 57 | Default is taken form rc file. |
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[710] | 58 | """ |
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[976] | 59 | if average is None: |
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[710] | 60 | average = rcParams['scantable.autoaverage'] |
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[1593] | 61 | parallactify = parallactify or rcParams['scantable.parallactify'] |
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[1259] | 62 | varlist = vars() |
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[876] | 63 | from asap._asap import stmath |
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| 64 | self._math = stmath() |
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| 65 | if isinstance(filename, Scantable): |
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| 66 | Scantable.__init__(self, filename) |
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[181] | 67 | else: |
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[1697] | 68 | if isinstance(filename, str): |
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[976] | 69 | filename = os.path.expandvars(filename) |
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| 70 | filename = os.path.expanduser(filename) |
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| 71 | if not os.path.exists(filename): |
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| 72 | s = "File '%s' not found." % (filename) |
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[718] | 73 | if rcParams['verbose']: |
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[976] | 74 | asaplog.push(s) |
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[718] | 75 | return |
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[976] | 76 | raise IOError(s) |
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[1697] | 77 | if is_scantable(filename): |
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| 78 | ondisk = rcParams['scantable.storage'] == 'disk' |
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| 79 | Scantable.__init__(self, filename, ondisk) |
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| 80 | if unit is not None: |
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| 81 | self.set_fluxunit(unit) |
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| 82 | self.set_freqframe(rcParams['scantable.freqframe']) |
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[226] | 83 | else: |
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[1118] | 84 | self._fill([filename], unit, average) |
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| 85 | elif (isinstance(filename, list) or isinstance(filename, tuple)) \ |
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[976] | 86 | and isinstance(filename[-1], str): |
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| 87 | self._fill(filename, unit, average) |
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[1586] | 88 | self.parallactify(parallactify) |
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[1259] | 89 | self._add_history("scantable", varlist) |
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[102] | 90 | |
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[1589] | 91 | @print_log_dec |
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[876] | 92 | def save(self, name=None, format=None, overwrite=False): |
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[116] | 93 | """ |
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[1280] | 94 | Store the scantable on disk. This can be an asap (aips++) Table, |
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| 95 | SDFITS or MS2 format. |
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[116] | 96 | Parameters: |
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[1093] | 97 | name: the name of the outputfile. For format "ASCII" |
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| 98 | this is the root file name (data in 'name'.txt |
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[497] | 99 | and header in 'name'_header.txt) |
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[116] | 100 | format: an optional file format. Default is ASAP. |
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[280] | 101 | Allowed are - 'ASAP' (save as ASAP [aips++] Table), |
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[194] | 102 | 'SDFITS' (save as SDFITS file) |
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[200] | 103 | 'ASCII' (saves as ascii text file) |
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[226] | 104 | 'MS2' (saves as an aips++ |
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| 105 | MeasurementSet V2) |
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[1573] | 106 | 'FITS' (save as image FITS - not |
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[1443] | 107 | readable by class) |
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| 108 | 'CLASS' (save as FITS readable by CLASS) |
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[411] | 109 | overwrite: If the file should be overwritten if it exists. |
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[256] | 110 | The default False is to return with warning |
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[411] | 111 | without writing the output. USE WITH CARE. |
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[116] | 112 | Example: |
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| 113 | scan.save('myscan.asap') |
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[1118] | 114 | scan.save('myscan.sdfits', 'SDFITS') |
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[116] | 115 | """ |
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[411] | 116 | from os import path |
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[1593] | 117 | format = format or rcParams['scantable.save'] |
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[256] | 118 | suffix = '.'+format.lower() |
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[1118] | 119 | if name is None or name == "": |
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[256] | 120 | name = 'scantable'+suffix |
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[718] | 121 | msg = "No filename given. Using default name %s..." % name |
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| 122 | asaplog.push(msg) |
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[411] | 123 | name = path.expandvars(name) |
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[256] | 124 | if path.isfile(name) or path.isdir(name): |
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| 125 | if not overwrite: |
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[718] | 126 | msg = "File %s exists." % name |
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| 127 | if rcParams['verbose']: |
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| 128 | print msg |
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| 129 | return |
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| 130 | else: |
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| 131 | raise IOError(msg) |
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[451] | 132 | format2 = format.upper() |
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| 133 | if format2 == 'ASAP': |
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[116] | 134 | self._save(name) |
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| 135 | else: |
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[989] | 136 | from asap._asap import stwriter as stw |
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[1118] | 137 | writer = stw(format2) |
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| 138 | writer.write(self, name) |
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[116] | 139 | return |
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| 140 | |
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[102] | 141 | def copy(self): |
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| 142 | """ |
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| 143 | Return a copy of this scantable. |
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[1348] | 144 | Note: |
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| 145 | This makes a full (deep) copy. scan2 = scan1 makes a reference. |
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[102] | 146 | Parameters: |
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[113] | 147 | none |
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[102] | 148 | Example: |
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| 149 | copiedscan = scan.copy() |
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| 150 | """ |
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[876] | 151 | sd = scantable(Scantable._copy(self)) |
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[113] | 152 | return sd |
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| 153 | |
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[1093] | 154 | def drop_scan(self, scanid=None): |
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| 155 | """ |
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| 156 | Return a new scantable where the specified scan number(s) has(have) |
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| 157 | been dropped. |
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| 158 | Parameters: |
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| 159 | scanid: a (list of) scan number(s) |
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| 160 | """ |
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| 161 | from asap import _is_sequence_or_number as _is_valid |
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| 162 | from asap import _to_list |
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| 163 | from asap import unique |
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| 164 | if not _is_valid(scanid): |
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| 165 | if rcParams['verbose']: |
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| 166 | print "Please specify a scanno to drop from the scantable" |
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| 167 | return |
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| 168 | else: |
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| 169 | raise RuntimeError("No scan given") |
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| 170 | try: |
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| 171 | scanid = _to_list(scanid) |
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| 172 | allscans = unique([ self.getscan(i) for i in range(self.nrow())]) |
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| 173 | for sid in scanid: allscans.remove(sid) |
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[1118] | 174 | if len(allscans) == 0: |
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| 175 | raise ValueError("Can't remove all scans") |
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[1093] | 176 | except ValueError: |
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| 177 | if rcParams['verbose']: |
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| 178 | print "Couldn't find any match." |
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| 179 | return |
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| 180 | else: raise |
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| 181 | try: |
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[1593] | 182 | sel = selector(scans=allscans) |
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[1594] | 183 | return self._select_copy(sel) |
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[1093] | 184 | except RuntimeError: |
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[1118] | 185 | if rcParams['verbose']: |
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| 186 | print "Couldn't find any match." |
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| 187 | else: |
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| 188 | raise |
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[1093] | 189 | |
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[1594] | 190 | def _select_copy(self, selection): |
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| 191 | orig = self.get_selection() |
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| 192 | self.set_selection(orig+selection) |
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| 193 | cp = self.copy() |
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| 194 | self.set_selection(orig) |
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| 195 | return cp |
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| 196 | |
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[102] | 197 | def get_scan(self, scanid=None): |
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| 198 | """ |
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| 199 | Return a specific scan (by scanno) or collection of scans (by |
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| 200 | source name) in a new scantable. |
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[1348] | 201 | Note: |
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| 202 | See scantable.drop_scan() for the inverse operation. |
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[102] | 203 | Parameters: |
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[513] | 204 | scanid: a (list of) scanno or a source name, unix-style |
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| 205 | patterns are accepted for source name matching, e.g. |
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| 206 | '*_R' gets all 'ref scans |
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[102] | 207 | Example: |
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[513] | 208 | # get all scans containing the source '323p459' |
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| 209 | newscan = scan.get_scan('323p459') |
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| 210 | # get all 'off' scans |
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| 211 | refscans = scan.get_scan('*_R') |
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| 212 | # get a susbset of scans by scanno (as listed in scan.summary()) |
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[1118] | 213 | newscan = scan.get_scan([0, 2, 7, 10]) |
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[102] | 214 | """ |
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| 215 | if scanid is None: |
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[718] | 216 | if rcParams['verbose']: |
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[1118] | 217 | print "Please specify a scan no or name to " \ |
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| 218 | "retrieve from the scantable" |
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[718] | 219 | return |
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| 220 | else: |
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| 221 | raise RuntimeError("No scan given") |
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| 222 | |
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[102] | 223 | try: |
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[946] | 224 | bsel = self.get_selection() |
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| 225 | sel = selector() |
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[102] | 226 | if type(scanid) is str: |
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[946] | 227 | sel.set_name(scanid) |
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[1594] | 228 | return self._select_copy(sel) |
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[102] | 229 | elif type(scanid) is int: |
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[946] | 230 | sel.set_scans([scanid]) |
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[1594] | 231 | return self._select_copy(sel) |
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[381] | 232 | elif type(scanid) is list: |
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[946] | 233 | sel.set_scans(scanid) |
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[1594] | 234 | return self._select_copy(sel) |
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[381] | 235 | else: |
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[718] | 236 | msg = "Illegal scanid type, use 'int' or 'list' if ints." |
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| 237 | if rcParams['verbose']: |
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| 238 | print msg |
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| 239 | else: |
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| 240 | raise TypeError(msg) |
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[102] | 241 | except RuntimeError: |
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[718] | 242 | if rcParams['verbose']: print "Couldn't find any match." |
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| 243 | else: raise |
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[102] | 244 | |
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| 245 | def __str__(self): |
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[1118] | 246 | return Scantable._summary(self, True) |
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[102] | 247 | |
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[976] | 248 | def summary(self, filename=None): |
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[102] | 249 | """ |
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| 250 | Print a summary of the contents of this scantable. |
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| 251 | Parameters: |
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| 252 | filename: the name of a file to write the putput to |
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| 253 | Default - no file output |
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| 254 | """ |
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[976] | 255 | info = Scantable._summary(self, True) |
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[102] | 256 | if filename is not None: |
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[256] | 257 | if filename is "": |
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| 258 | filename = 'scantable_summary.txt' |
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[415] | 259 | from os.path import expandvars, isdir |
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[411] | 260 | filename = expandvars(filename) |
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[415] | 261 | if not isdir(filename): |
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[413] | 262 | data = open(filename, 'w') |
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| 263 | data.write(info) |
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| 264 | data.close() |
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| 265 | else: |
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[718] | 266 | msg = "Illegal file name '%s'." % (filename) |
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| 267 | if rcParams['verbose']: |
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| 268 | print msg |
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| 269 | else: |
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| 270 | raise IOError(msg) |
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| 271 | if rcParams['verbose']: |
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[794] | 272 | try: |
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| 273 | from IPython.genutils import page as pager |
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| 274 | except ImportError: |
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| 275 | from pydoc import pager |
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| 276 | pager(info) |
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[718] | 277 | else: |
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| 278 | return info |
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[710] | 279 | |
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[1512] | 280 | def get_spectrum(self, rowno): |
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[1471] | 281 | """Return the spectrum for the current row in the scantable as a list. |
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| 282 | Parameters: |
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[1573] | 283 | rowno: the row number to retrieve the spectrum from |
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[1471] | 284 | """ |
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| 285 | return self._getspectrum(rowno) |
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[946] | 286 | |
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[1471] | 287 | def get_mask(self, rowno): |
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| 288 | """Return the mask for the current row in the scantable as a list. |
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| 289 | Parameters: |
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[1573] | 290 | rowno: the row number to retrieve the mask from |
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[1471] | 291 | """ |
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| 292 | return self._getmask(rowno) |
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| 293 | |
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| 294 | def set_spectrum(self, spec, rowno): |
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| 295 | """Return the spectrum for the current row in the scantable as a list. |
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| 296 | Parameters: |
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| 297 | spec: the spectrum |
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[1573] | 298 | rowno: the row number to set the spectrum for |
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[1471] | 299 | """ |
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| 300 | assert(len(spec) == self.nchan()) |
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| 301 | return self._setspectrum(spec, rowno) |
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| 302 | |
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[1600] | 303 | def get_coordinate(self, rowno): |
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| 304 | """Return the (spectral) coordinate for a a given 'rowno'. |
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| 305 | NOTE: |
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| 306 | * This coordinate is only valid until a scantable method modifies |
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| 307 | the frequency axis. |
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| 308 | * This coordinate does contain the original frequency set-up |
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| 309 | NOT the new frame. The conversions however are done using the user |
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| 310 | specified frame (e.g. LSRK/TOPO). To get the 'real' coordinate, |
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| 311 | use scantable.freq_align first. Without it there is no closure, |
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| 312 | i.e. |
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| 313 | c = myscan.get_coordinate(0) |
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| 314 | c.to_frequency(c.get_reference_pixel()) != c.get_reference_value() |
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| 315 | |
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| 316 | Parameters: |
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| 317 | rowno: the row number for the spectral coordinate |
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| 318 | |
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| 319 | """ |
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| 320 | return coordinate(Scantable.get_coordinate(self, rowno)) |
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| 321 | |
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[946] | 322 | def get_selection(self): |
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| 323 | """ |
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[1005] | 324 | Get the selection object currently set on this scantable. |
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| 325 | Parameters: |
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| 326 | none |
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| 327 | Example: |
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| 328 | sel = scan.get_selection() |
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| 329 | sel.set_ifs(0) # select IF 0 |
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| 330 | scan.set_selection(sel) # apply modified selection |
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[946] | 331 | """ |
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| 332 | return selector(self._getselection()) |
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| 333 | |
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[1576] | 334 | def set_selection(self, selection=None, **kw): |
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[946] | 335 | """ |
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[1005] | 336 | Select a subset of the data. All following operations on this scantable |
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| 337 | are only applied to thi selection. |
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| 338 | Parameters: |
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[1697] | 339 | selection: a selector object (default unset the selection), |
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| 340 | |
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| 341 | or |
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| 342 | |
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| 343 | any combination of |
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| 344 | "pols", "ifs", "beams", "scans", "cycles", "name", "query" |
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| 345 | |
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[1005] | 346 | Examples: |
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| 347 | sel = selector() # create a selection object |
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[1118] | 348 | self.set_scans([0, 3]) # select SCANNO 0 and 3 |
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[1005] | 349 | scan.set_selection(sel) # set the selection |
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| 350 | scan.summary() # will only print summary of scanno 0 an 3 |
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| 351 | scan.set_selection() # unset the selection |
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[1697] | 352 | # or the equivalent |
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| 353 | scan.set_selection(scans=[0,3]) |
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| 354 | scan.summary() # will only print summary of scanno 0 an 3 |
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| 355 | scan.set_selection() # unset the selection |
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[946] | 356 | """ |
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[1576] | 357 | if selection is None: |
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| 358 | # reset |
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| 359 | if len(kw) == 0: |
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| 360 | selection = selector() |
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| 361 | else: |
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| 362 | # try keywords |
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| 363 | for k in kw: |
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| 364 | if k not in selector.fields: |
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| 365 | raise KeyError("Invalid selection key '%s', valid keys are %s" % (k, selector.fields)) |
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| 366 | selection = selector(**kw) |
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[946] | 367 | self._setselection(selection) |
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| 368 | |
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[876] | 369 | def stats(self, stat='stddev', mask=None): |
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[102] | 370 | """ |
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[135] | 371 | Determine the specified statistic of the current beam/if/pol |
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[102] | 372 | Takes a 'mask' as an optional parameter to specify which |
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| 373 | channels should be excluded. |
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| 374 | Parameters: |
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[135] | 375 | stat: 'min', 'max', 'sumsq', 'sum', 'mean' |
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| 376 | 'var', 'stddev', 'avdev', 'rms', 'median' |
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| 377 | mask: an optional mask specifying where the statistic |
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[102] | 378 | should be determined. |
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| 379 | Example: |
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[113] | 380 | scan.set_unit('channel') |
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[1118] | 381 | msk = scan.create_mask([100, 200], [500, 600]) |
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[135] | 382 | scan.stats(stat='mean', mask=m) |
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[102] | 383 | """ |
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[1593] | 384 | mask = mask or [] |
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[876] | 385 | if not self._check_ifs(): |
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[1118] | 386 | raise ValueError("Cannot apply mask as the IFs have different " |
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| 387 | "number of channels. Please use setselection() " |
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| 388 | "to select individual IFs") |
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[256] | 389 | |
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[876] | 390 | statvals = self._math._stats(self, mask, stat) |
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[1590] | 391 | def cb(i): |
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| 392 | return statvals[i] |
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[256] | 393 | |
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[1590] | 394 | return self._row_callback(cb, stat) |
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[102] | 395 | |
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[1118] | 396 | def stddev(self, mask=None): |
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[135] | 397 | """ |
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| 398 | Determine the standard deviation of the current beam/if/pol |
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| 399 | Takes a 'mask' as an optional parameter to specify which |
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| 400 | channels should be excluded. |
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| 401 | Parameters: |
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| 402 | mask: an optional mask specifying where the standard |
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| 403 | deviation should be determined. |
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| 404 | |
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| 405 | Example: |
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| 406 | scan.set_unit('channel') |
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[1118] | 407 | msk = scan.create_mask([100, 200], [500, 600]) |
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[135] | 408 | scan.stddev(mask=m) |
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| 409 | """ |
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[1118] | 410 | return self.stats(stat='stddev', mask=mask); |
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[135] | 411 | |
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[1003] | 412 | |
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[1259] | 413 | def get_column_names(self): |
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[1003] | 414 | """ |
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| 415 | Return a list of column names, which can be used for selection. |
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| 416 | """ |
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[1259] | 417 | return list(Scantable.get_column_names(self)) |
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[1003] | 418 | |
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[876] | 419 | def get_tsys(self): |
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[113] | 420 | """ |
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| 421 | Return the System temperatures. |
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| 422 | Returns: |
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[876] | 423 | a list of Tsys values for the current selection |
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[113] | 424 | """ |
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[256] | 425 | |
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[876] | 426 | return self._row_callback(self._gettsys, "Tsys") |
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[256] | 427 | |
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[876] | 428 | def _row_callback(self, callback, label): |
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| 429 | out = "" |
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[1118] | 430 | outvec = [] |
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[1590] | 431 | sep = '-'*50 |
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[876] | 432 | for i in range(self.nrow()): |
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| 433 | tm = self._gettime(i) |
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| 434 | src = self._getsourcename(i) |
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[1590] | 435 | out += 'Scan[%d] (%s) ' % (self.getscan(i), src) |
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[876] | 436 | out += 'Time[%s]:\n' % (tm) |
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[1590] | 437 | if self.nbeam(-1) > 1: |
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| 438 | out += ' Beam[%d] ' % (self.getbeam(i)) |
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| 439 | if self.nif(-1) > 1: out += ' IF[%d] ' % (self.getif(i)) |
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| 440 | if self.npol(-1) > 1: out += ' Pol[%d] ' % (self.getpol(i)) |
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[876] | 441 | outvec.append(callback(i)) |
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| 442 | out += '= %3.3f\n' % (outvec[i]) |
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[1590] | 443 | out += sep+'\n' |
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[876] | 444 | if rcParams['verbose']: |
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[1590] | 445 | print sep |
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[876] | 446 | print " %s" % (label) |
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[1590] | 447 | print sep |
---|
[876] | 448 | print out |
---|
[1175] | 449 | return outvec |
---|
[256] | 450 | |
---|
[1070] | 451 | def _get_column(self, callback, row=-1): |
---|
| 452 | """ |
---|
| 453 | """ |
---|
| 454 | if row == -1: |
---|
| 455 | return [callback(i) for i in range(self.nrow())] |
---|
| 456 | else: |
---|
| 457 | if 0 <= row < self.nrow(): |
---|
| 458 | return callback(row) |
---|
[256] | 459 | |
---|
[1070] | 460 | |
---|
[1348] | 461 | def get_time(self, row=-1, asdatetime=False): |
---|
[113] | 462 | """ |
---|
| 463 | Get a list of time stamps for the observations. |
---|
[1348] | 464 | Return a datetime object for each integration time stamp in the scantable. |
---|
[113] | 465 | Parameters: |
---|
[1348] | 466 | row: row no of integration. Default -1 return all rows |
---|
| 467 | asdatetime: return values as datetime objects rather than strings |
---|
[113] | 468 | Example: |
---|
| 469 | none |
---|
| 470 | """ |
---|
[1175] | 471 | from time import strptime |
---|
| 472 | from datetime import datetime |
---|
[1392] | 473 | times = self._get_column(self._gettime, row) |
---|
[1348] | 474 | if not asdatetime: |
---|
[1392] | 475 | return times |
---|
[1175] | 476 | format = "%Y/%m/%d/%H:%M:%S" |
---|
| 477 | if isinstance(times, list): |
---|
| 478 | return [datetime(*strptime(i, format)[:6]) for i in times] |
---|
| 479 | else: |
---|
| 480 | return datetime(*strptime(times, format)[:6]) |
---|
[102] | 481 | |
---|
[1348] | 482 | |
---|
| 483 | def get_inttime(self, row=-1): |
---|
| 484 | """ |
---|
| 485 | Get a list of integration times for the observations. |
---|
| 486 | Return a time in seconds for each integration in the scantable. |
---|
| 487 | Parameters: |
---|
| 488 | row: row no of integration. Default -1 return all rows. |
---|
| 489 | Example: |
---|
| 490 | none |
---|
| 491 | """ |
---|
[1573] | 492 | return self._get_column(self._getinttime, row) |
---|
[1348] | 493 | |
---|
[1573] | 494 | |
---|
[714] | 495 | def get_sourcename(self, row=-1): |
---|
| 496 | """ |
---|
[794] | 497 | Get a list source names for the observations. |
---|
[714] | 498 | Return a string for each integration in the scantable. |
---|
| 499 | Parameters: |
---|
[1348] | 500 | row: row no of integration. Default -1 return all rows. |
---|
[714] | 501 | Example: |
---|
| 502 | none |
---|
| 503 | """ |
---|
[1070] | 504 | return self._get_column(self._getsourcename, row) |
---|
[714] | 505 | |
---|
[794] | 506 | def get_elevation(self, row=-1): |
---|
| 507 | """ |
---|
| 508 | Get a list of elevations for the observations. |
---|
| 509 | Return a float for each integration in the scantable. |
---|
| 510 | Parameters: |
---|
[1348] | 511 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 512 | Example: |
---|
| 513 | none |
---|
| 514 | """ |
---|
[1070] | 515 | return self._get_column(self._getelevation, row) |
---|
[794] | 516 | |
---|
| 517 | def get_azimuth(self, row=-1): |
---|
| 518 | """ |
---|
| 519 | Get a list of azimuths for the observations. |
---|
| 520 | Return a float for each integration in the scantable. |
---|
| 521 | Parameters: |
---|
[1348] | 522 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 523 | Example: |
---|
| 524 | none |
---|
| 525 | """ |
---|
[1070] | 526 | return self._get_column(self._getazimuth, row) |
---|
[794] | 527 | |
---|
| 528 | def get_parangle(self, row=-1): |
---|
| 529 | """ |
---|
| 530 | Get a list of parallactic angles for the observations. |
---|
| 531 | Return a float for each integration in the scantable. |
---|
| 532 | Parameters: |
---|
[1348] | 533 | row: row no of integration. Default -1 return all rows. |
---|
[794] | 534 | Example: |
---|
| 535 | none |
---|
| 536 | """ |
---|
[1070] | 537 | return self._get_column(self._getparangle, row) |
---|
[794] | 538 | |
---|
[1070] | 539 | def get_direction(self, row=-1): |
---|
| 540 | """ |
---|
| 541 | Get a list of Positions on the sky (direction) for the observations. |
---|
[1594] | 542 | Return a string for each integration in the scantable. |
---|
[1070] | 543 | Parameters: |
---|
| 544 | row: row no of integration. Default -1 return all rows |
---|
| 545 | Example: |
---|
| 546 | none |
---|
| 547 | """ |
---|
| 548 | return self._get_column(self._getdirection, row) |
---|
| 549 | |
---|
[1391] | 550 | def get_directionval(self, row=-1): |
---|
| 551 | """ |
---|
| 552 | Get a list of Positions on the sky (direction) for the observations. |
---|
| 553 | Return a float for each integration in the scantable. |
---|
| 554 | Parameters: |
---|
| 555 | row: row no of integration. Default -1 return all rows |
---|
| 556 | Example: |
---|
| 557 | none |
---|
| 558 | """ |
---|
| 559 | return self._get_column(self._getdirectionvec, row) |
---|
| 560 | |
---|
| 561 | |
---|
[102] | 562 | def set_unit(self, unit='channel'): |
---|
| 563 | """ |
---|
| 564 | Set the unit for all following operations on this scantable |
---|
| 565 | Parameters: |
---|
| 566 | unit: optional unit, default is 'channel' |
---|
[1118] | 567 | one of '*Hz', 'km/s', 'channel', '' |
---|
[102] | 568 | """ |
---|
[484] | 569 | varlist = vars() |
---|
[1118] | 570 | if unit in ['', 'pixel', 'channel']: |
---|
[113] | 571 | unit = '' |
---|
| 572 | inf = list(self._getcoordinfo()) |
---|
| 573 | inf[0] = unit |
---|
| 574 | self._setcoordinfo(inf) |
---|
[1118] | 575 | self._add_history("set_unit", varlist) |
---|
[113] | 576 | |
---|
[1589] | 577 | @print_log_dec |
---|
[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()) |
---|
[358] | 587 | |
---|
[1589] | 588 | @print_log_dec |
---|
[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 | |
---|
[1589] | 598 | @print_log_dec |
---|
[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()) |
---|
[710] | 610 | |
---|
[1589] | 611 | @print_log_dec |
---|
[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 | """ |
---|
[1593] | 622 | frame = frame or rcParams['scantable.freqframe'] |
---|
[484] | 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) |
---|
[710] | 638 | |
---|
[989] | 639 | def set_dirframe(self, frame=""): |
---|
| 640 | """ |
---|
| 641 | Set the frame type of the Direction on the sky. |
---|
| 642 | Parameters: |
---|
| 643 | frame: an optional frame type, default ''. Valid frames are: |
---|
| 644 | 'J2000', 'B1950', 'GALACTIC' |
---|
| 645 | Examples: |
---|
| 646 | scan.set_dirframe('GALACTIC') |
---|
| 647 | """ |
---|
| 648 | varlist = vars() |
---|
| 649 | try: |
---|
| 650 | Scantable.set_dirframe(self, frame) |
---|
[1118] | 651 | except RuntimeError, msg: |
---|
[989] | 652 | if rcParams['verbose']: |
---|
| 653 | print msg |
---|
| 654 | else: |
---|
| 655 | raise |
---|
[1118] | 656 | self._add_history("set_dirframe", varlist) |
---|
[989] | 657 | |
---|
[113] | 658 | def get_unit(self): |
---|
| 659 | """ |
---|
| 660 | Get the default unit set in this scantable |
---|
| 661 | Returns: |
---|
| 662 | A unit string |
---|
| 663 | """ |
---|
| 664 | inf = self._getcoordinfo() |
---|
| 665 | unit = inf[0] |
---|
| 666 | if unit == '': unit = 'channel' |
---|
| 667 | return unit |
---|
[102] | 668 | |
---|
[158] | 669 | def get_abcissa(self, rowno=0): |
---|
[102] | 670 | """ |
---|
[158] | 671 | Get the abcissa in the current coordinate setup for the currently |
---|
[113] | 672 | selected Beam/IF/Pol |
---|
| 673 | Parameters: |
---|
[226] | 674 | rowno: an optional row number in the scantable. Default is the |
---|
| 675 | first row, i.e. rowno=0 |
---|
[113] | 676 | Returns: |
---|
[1348] | 677 | The abcissa values and the format string (as a dictionary) |
---|
[113] | 678 | """ |
---|
[256] | 679 | abc = self._getabcissa(rowno) |
---|
[710] | 680 | lbl = self._getabcissalabel(rowno) |
---|
[158] | 681 | return abc, lbl |
---|
[113] | 682 | |
---|
[1118] | 683 | def flag(self, mask=None): |
---|
[1001] | 684 | """ |
---|
| 685 | Flag the selected data using an optional channel mask. |
---|
| 686 | Parameters: |
---|
| 687 | mask: an optional channel mask, created with create_mask. Default |
---|
| 688 | (no mask) is all channels. |
---|
| 689 | """ |
---|
| 690 | varlist = vars() |
---|
[1593] | 691 | mask = mask or [] |
---|
[1001] | 692 | try: |
---|
| 693 | self._flag(mask) |
---|
[1118] | 694 | except RuntimeError, msg: |
---|
[1001] | 695 | if rcParams['verbose']: |
---|
| 696 | print msg |
---|
| 697 | return |
---|
| 698 | else: raise |
---|
| 699 | self._add_history("flag", varlist) |
---|
| 700 | |
---|
[1589] | 701 | @print_log_dec |
---|
[1584] | 702 | def lag_flag(self, start, end, unit="MHz", insitu=None): |
---|
[1192] | 703 | """ |
---|
| 704 | Flag the data in 'lag' space by providing a frequency to remove. |
---|
[1584] | 705 | Flagged data in the scantable gets interpolated over the region. |
---|
[1192] | 706 | No taper is applied. |
---|
| 707 | Parameters: |
---|
[1579] | 708 | start: the start frequency (really a period within the |
---|
| 709 | bandwidth) or period to remove |
---|
| 710 | end: the end frequency or period to remove |
---|
[1584] | 711 | unit: the frequency unit (default "MHz") or "" for |
---|
[1579] | 712 | explicit lag channels |
---|
[1203] | 713 | Notes: |
---|
[1579] | 714 | It is recommended to flag edges of the band or strong |
---|
[1348] | 715 | signals beforehand. |
---|
[1192] | 716 | """ |
---|
| 717 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 718 | self._math._setinsitu(insitu) |
---|
| 719 | varlist = vars() |
---|
[1579] | 720 | base = { "GHz": 1000000000., "MHz": 1000000., "kHz": 1000., "Hz": 1.} |
---|
| 721 | if not (unit == "" or base.has_key(unit)): |
---|
[1192] | 722 | raise ValueError("%s is not a valid unit." % unit) |
---|
| 723 | try: |
---|
[1579] | 724 | if unit == "": |
---|
| 725 | s = scantable(self._math._lag_flag(self, start, end, "lags")) |
---|
| 726 | else: |
---|
| 727 | s = scantable(self._math._lag_flag(self, start*base[unit], |
---|
| 728 | end*base[unit], "frequency")) |
---|
[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 | if insitu: |
---|
| 736 | self._assign(s) |
---|
| 737 | else: |
---|
| 738 | return s |
---|
[1001] | 739 | |
---|
[1589] | 740 | @print_log_dec |
---|
[113] | 741 | def create_mask(self, *args, **kwargs): |
---|
| 742 | """ |
---|
[1118] | 743 | Compute and return a mask based on [min, max] windows. |
---|
[189] | 744 | The specified windows are to be INCLUDED, when the mask is |
---|
[113] | 745 | applied. |
---|
[102] | 746 | Parameters: |
---|
[1118] | 747 | [min, max], [min2, max2], ... |
---|
[1024] | 748 | Pairs of start/end points (inclusive)specifying the regions |
---|
[102] | 749 | to be masked |
---|
[189] | 750 | invert: optional argument. If specified as True, |
---|
| 751 | return an inverted mask, i.e. the regions |
---|
| 752 | specified are EXCLUDED |
---|
[513] | 753 | row: create the mask using the specified row for |
---|
| 754 | unit conversions, default is row=0 |
---|
| 755 | only necessary if frequency varies over rows. |
---|
[102] | 756 | Example: |
---|
[113] | 757 | scan.set_unit('channel') |
---|
| 758 | a) |
---|
[1118] | 759 | msk = scan.create_mask([400, 500], [800, 900]) |
---|
[189] | 760 | # masks everything outside 400 and 500 |
---|
[113] | 761 | # and 800 and 900 in the unit 'channel' |
---|
| 762 | |
---|
| 763 | b) |
---|
[1118] | 764 | msk = scan.create_mask([400, 500], [800, 900], invert=True) |
---|
[189] | 765 | # masks the regions between 400 and 500 |
---|
[113] | 766 | # and 800 and 900 in the unit 'channel' |
---|
[1024] | 767 | c) |
---|
| 768 | mask only channel 400 |
---|
[1554] | 769 | msk = scan.create_mask([400]) |
---|
[102] | 770 | """ |
---|
[1554] | 771 | row = kwargs.get("row", 0) |
---|
[513] | 772 | data = self._getabcissa(row) |
---|
[113] | 773 | u = self._getcoordinfo()[0] |
---|
[718] | 774 | if rcParams['verbose']: |
---|
[113] | 775 | if u == "": u = "channel" |
---|
[718] | 776 | msg = "The current mask window unit is %s" % u |
---|
[1118] | 777 | i = self._check_ifs() |
---|
| 778 | if not i: |
---|
[876] | 779 | msg += "\nThis mask is only valid for IF=%d" % (self.getif(i)) |
---|
[718] | 780 | asaplog.push(msg) |
---|
[102] | 781 | n = self.nchan() |
---|
[1295] | 782 | msk = _n_bools(n, False) |
---|
[710] | 783 | # test if args is a 'list' or a 'normal *args - UGLY!!! |
---|
| 784 | |
---|
[1118] | 785 | ws = (isinstance(args[-1][-1], int) or isinstance(args[-1][-1], float)) \ |
---|
| 786 | and args or args[0] |
---|
[710] | 787 | for window in ws: |
---|
[1554] | 788 | if len(window) == 1: |
---|
| 789 | window = [window[0], window[0]] |
---|
| 790 | if len(window) == 0 or len(window) > 2: |
---|
| 791 | raise ValueError("A window needs to be defined as [start(, end)]") |
---|
[1545] | 792 | if window[0] > window[1]: |
---|
| 793 | tmp = window[0] |
---|
| 794 | window[0] = window[1] |
---|
| 795 | window[1] = tmp |
---|
[102] | 796 | for i in range(n): |
---|
[1024] | 797 | if data[i] >= window[0] and data[i] <= window[1]: |
---|
[1295] | 798 | msk[i] = True |
---|
[113] | 799 | if kwargs.has_key('invert'): |
---|
| 800 | if kwargs.get('invert'): |
---|
[1295] | 801 | msk = mask_not(msk) |
---|
[102] | 802 | return msk |
---|
[710] | 803 | |
---|
[256] | 804 | def get_restfreqs(self): |
---|
| 805 | """ |
---|
| 806 | Get the restfrequency(s) stored in this scantable. |
---|
| 807 | The return value(s) are always of unit 'Hz' |
---|
| 808 | Parameters: |
---|
| 809 | none |
---|
| 810 | Returns: |
---|
| 811 | a list of doubles |
---|
| 812 | """ |
---|
| 813 | return list(self._getrestfreqs()) |
---|
[102] | 814 | |
---|
[402] | 815 | |
---|
[931] | 816 | def set_restfreqs(self, freqs=None, unit='Hz'): |
---|
| 817 | """ |
---|
| 818 | Set or replace the restfrequency specified and |
---|
| 819 | If the 'freqs' argument holds a scalar, |
---|
| 820 | then that rest frequency will be applied to all the selected |
---|
| 821 | data. If the 'freqs' argument holds |
---|
| 822 | a vector, then it MUST be of equal or smaller length than |
---|
| 823 | the number of IFs (and the available restfrequencies will be |
---|
| 824 | replaced by this vector). In this case, *all* data have |
---|
| 825 | the restfrequency set per IF according |
---|
| 826 | to the corresponding value you give in the 'freqs' vector. |
---|
[1118] | 827 | E.g. 'freqs=[1e9, 2e9]' would mean IF 0 gets restfreq 1e9 and |
---|
[931] | 828 | IF 1 gets restfreq 2e9. |
---|
[1395] | 829 | You can also specify the frequencies via a linecatalog. |
---|
[1153] | 830 | |
---|
[931] | 831 | Parameters: |
---|
| 832 | freqs: list of rest frequency values or string idenitfiers |
---|
| 833 | unit: unit for rest frequency (default 'Hz') |
---|
[402] | 834 | |
---|
[931] | 835 | Example: |
---|
| 836 | # set the given restfrequency for the whole table |
---|
| 837 | scan.set_restfreqs(freqs=1.4e9) |
---|
[1348] | 838 | # If thee number of IFs in the data is >= 2 IF0 gets the first |
---|
[931] | 839 | # value IF1 the second... |
---|
[1118] | 840 | scan.set_restfreqs(freqs=[1.4e9, 1.67e9]) |
---|
[931] | 841 | #set the given restfrequency for the whole table (by name) |
---|
| 842 | scan.set_restfreqs(freqs="OH1667") |
---|
[391] | 843 | |
---|
[931] | 844 | Note: |
---|
| 845 | To do more sophisticate Restfrequency setting, e.g. on a |
---|
| 846 | source and IF basis, use scantable.set_selection() before using |
---|
| 847 | this function. |
---|
[1593] | 848 | # provide your scantable is called scan |
---|
[931] | 849 | selection = selector() |
---|
| 850 | selection.set_name("ORION*") |
---|
| 851 | selection.set_ifs([1]) |
---|
| 852 | scan.set_selection(selection) |
---|
| 853 | scan.set_restfreqs(freqs=86.6e9) |
---|
| 854 | |
---|
| 855 | """ |
---|
| 856 | varlist = vars() |
---|
[1157] | 857 | from asap import linecatalog |
---|
| 858 | # simple value |
---|
[1118] | 859 | if isinstance(freqs, int) or isinstance(freqs, float): |
---|
[1153] | 860 | self._setrestfreqs(freqs, "",unit) |
---|
[1157] | 861 | # list of values |
---|
[1118] | 862 | elif isinstance(freqs, list) or isinstance(freqs, tuple): |
---|
[1157] | 863 | # list values are scalars |
---|
[1118] | 864 | if isinstance(freqs[-1], int) or isinstance(freqs[-1], float): |
---|
[931] | 865 | sel = selector() |
---|
| 866 | savesel = self._getselection() |
---|
[1322] | 867 | iflist = self.getifnos() |
---|
[931] | 868 | for i in xrange(len(freqs)): |
---|
[1322] | 869 | sel.set_ifs(iflist[i]) |
---|
[931] | 870 | self._setselection(sel) |
---|
[1153] | 871 | self._setrestfreqs(freqs[i], "",unit) |
---|
[931] | 872 | self._setselection(savesel) |
---|
[1157] | 873 | # list values are tuples, (value, name) |
---|
| 874 | elif isinstance(freqs[-1], dict): |
---|
| 875 | sel = selector() |
---|
| 876 | savesel = self._getselection() |
---|
[1322] | 877 | iflist = self.getifnos() |
---|
[1157] | 878 | for i in xrange(len(freqs)): |
---|
[1322] | 879 | sel.set_ifs(iflist[i]) |
---|
[1259] | 880 | self._setselection(sel) |
---|
[1157] | 881 | self._setrestfreqs(freqs[i]["value"], |
---|
| 882 | freqs[i]["name"], "MHz") |
---|
| 883 | self._setselection(savesel) |
---|
| 884 | # freqs are to be taken from a linecatalog |
---|
[1153] | 885 | elif isinstance(freqs, linecatalog): |
---|
| 886 | sel = selector() |
---|
| 887 | savesel = self._getselection() |
---|
[1322] | 888 | iflist = self.getifnos() |
---|
[1153] | 889 | for i in xrange(freqs.nrow()): |
---|
[1322] | 890 | sel.set_ifs(iflist[i]) |
---|
[1153] | 891 | self._setselection(sel) |
---|
| 892 | self._setrestfreqs(freqs.get_frequency(i), |
---|
| 893 | freqs.get_name(i), "MHz") |
---|
| 894 | # ensure that we are not iterating past nIF |
---|
| 895 | if i == self.nif()-1: break |
---|
| 896 | self._setselection(savesel) |
---|
[931] | 897 | else: |
---|
| 898 | return |
---|
| 899 | self._add_history("set_restfreqs", varlist) |
---|
| 900 | |
---|
[1360] | 901 | def shift_refpix(self, delta): |
---|
[1589] | 902 | """ |
---|
| 903 | Shift the reference pixel of the Spectra Coordinate by an |
---|
| 904 | integer amount. |
---|
| 905 | Parameters: |
---|
| 906 | delta: the amount to shift by |
---|
[1360] | 907 | Note: |
---|
[1589] | 908 | Be careful using this with broadband data. |
---|
[1360] | 909 | """ |
---|
[1589] | 910 | Scantable.shift(self, delta) |
---|
[931] | 911 | |
---|
[1259] | 912 | def history(self, filename=None): |
---|
| 913 | """ |
---|
| 914 | Print the history. Optionally to a file. |
---|
[1348] | 915 | Parameters: |
---|
| 916 | filename: The name of the file to save the history to. |
---|
[1259] | 917 | """ |
---|
[484] | 918 | hist = list(self._gethistory()) |
---|
[794] | 919 | out = "-"*80 |
---|
[484] | 920 | for h in hist: |
---|
[489] | 921 | if h.startswith("---"): |
---|
[794] | 922 | out += "\n"+h |
---|
[489] | 923 | else: |
---|
| 924 | items = h.split("##") |
---|
| 925 | date = items[0] |
---|
| 926 | func = items[1] |
---|
| 927 | items = items[2:] |
---|
[794] | 928 | out += "\n"+date+"\n" |
---|
| 929 | out += "Function: %s\n Parameters:" % (func) |
---|
[489] | 930 | for i in items: |
---|
| 931 | s = i.split("=") |
---|
[1118] | 932 | out += "\n %s = %s" % (s[0], s[1]) |
---|
[794] | 933 | out += "\n"+"-"*80 |
---|
[1259] | 934 | if filename is not None: |
---|
| 935 | if filename is "": |
---|
| 936 | filename = 'scantable_history.txt' |
---|
| 937 | import os |
---|
| 938 | filename = os.path.expandvars(os.path.expanduser(filename)) |
---|
| 939 | if not os.path.isdir(filename): |
---|
| 940 | data = open(filename, 'w') |
---|
| 941 | data.write(out) |
---|
| 942 | data.close() |
---|
| 943 | else: |
---|
| 944 | msg = "Illegal file name '%s'." % (filename) |
---|
| 945 | if rcParams['verbose']: |
---|
| 946 | print msg |
---|
| 947 | else: |
---|
| 948 | raise IOError(msg) |
---|
| 949 | if rcParams['verbose']: |
---|
| 950 | try: |
---|
| 951 | from IPython.genutils import page as pager |
---|
| 952 | except ImportError: |
---|
| 953 | from pydoc import pager |
---|
| 954 | pager(out) |
---|
| 955 | else: |
---|
| 956 | return out |
---|
[484] | 957 | return |
---|
[513] | 958 | # |
---|
| 959 | # Maths business |
---|
| 960 | # |
---|
[1589] | 961 | @print_log_dec |
---|
[931] | 962 | def average_time(self, mask=None, scanav=False, weight='tint', align=False): |
---|
[513] | 963 | """ |
---|
[1070] | 964 | Return the (time) weighted average of a scan. |
---|
[513] | 965 | Note: |
---|
[1070] | 966 | in channels only - align if necessary |
---|
[513] | 967 | Parameters: |
---|
| 968 | mask: an optional mask (only used for 'var' and 'tsys' |
---|
| 969 | weighting) |
---|
[558] | 970 | scanav: True averages each scan separately |
---|
| 971 | False (default) averages all scans together, |
---|
[1099] | 972 | weight: Weighting scheme. |
---|
| 973 | 'none' (mean no weight) |
---|
| 974 | 'var' (1/var(spec) weighted) |
---|
| 975 | 'tsys' (1/Tsys**2 weighted) |
---|
| 976 | 'tint' (integration time weighted) |
---|
| 977 | 'tintsys' (Tint/Tsys**2) |
---|
| 978 | 'median' ( median averaging) |
---|
[535] | 979 | The default is 'tint' |
---|
[931] | 980 | align: align the spectra in velocity before averaging. It takes |
---|
| 981 | the time of the first spectrum as reference time. |
---|
[513] | 982 | Example: |
---|
| 983 | # time average the scantable without using a mask |
---|
[710] | 984 | newscan = scan.average_time() |
---|
[513] | 985 | """ |
---|
| 986 | varlist = vars() |
---|
[1593] | 987 | weight = weight or 'TINT' |
---|
| 988 | mask = mask or () |
---|
| 989 | scanav = (scanav and 'SCAN') or 'NONE' |
---|
[1118] | 990 | scan = (self, ) |
---|
[989] | 991 | try: |
---|
[1118] | 992 | if align: |
---|
| 993 | scan = (self.freq_align(insitu=False), ) |
---|
| 994 | s = None |
---|
| 995 | if weight.upper() == 'MEDIAN': |
---|
| 996 | s = scantable(self._math._averagechannel(scan[0], 'MEDIAN', |
---|
| 997 | scanav)) |
---|
| 998 | else: |
---|
| 999 | s = scantable(self._math._average(scan, mask, weight.upper(), |
---|
| 1000 | scanav)) |
---|
| 1001 | except RuntimeError, msg: |
---|
[989] | 1002 | if rcParams['verbose']: |
---|
| 1003 | print msg |
---|
| 1004 | return |
---|
| 1005 | else: raise |
---|
[1099] | 1006 | s._add_history("average_time", varlist) |
---|
[513] | 1007 | return s |
---|
[710] | 1008 | |
---|
[1589] | 1009 | @print_log_dec |
---|
[876] | 1010 | def convert_flux(self, jyperk=None, eta=None, d=None, insitu=None): |
---|
[513] | 1011 | """ |
---|
| 1012 | Return a scan where all spectra are converted to either |
---|
| 1013 | Jansky or Kelvin depending upon the flux units of the scan table. |
---|
| 1014 | By default the function tries to look the values up internally. |
---|
| 1015 | If it can't find them (or if you want to over-ride), you must |
---|
| 1016 | specify EITHER jyperk OR eta (and D which it will try to look up |
---|
| 1017 | also if you don't set it). jyperk takes precedence if you set both. |
---|
| 1018 | Parameters: |
---|
| 1019 | jyperk: the Jy / K conversion factor |
---|
| 1020 | eta: the aperture efficiency |
---|
| 1021 | d: the geomtric diameter (metres) |
---|
| 1022 | insitu: if False a new scantable is returned. |
---|
| 1023 | Otherwise, the scaling is done in-situ |
---|
| 1024 | The default is taken from .asaprc (False) |
---|
| 1025 | """ |
---|
| 1026 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1027 | self._math._setinsitu(insitu) |
---|
[513] | 1028 | varlist = vars() |
---|
[1593] | 1029 | jyperk = jyperk or -1.0 |
---|
| 1030 | d = d or -1.0 |
---|
| 1031 | eta = eta or -1.0 |
---|
[876] | 1032 | s = scantable(self._math._convertflux(self, d, eta, jyperk)) |
---|
| 1033 | s._add_history("convert_flux", varlist) |
---|
| 1034 | if insitu: self._assign(s) |
---|
| 1035 | else: return s |
---|
[513] | 1036 | |
---|
[1589] | 1037 | @print_log_dec |
---|
[876] | 1038 | def gain_el(self, poly=None, filename="", method="linear", insitu=None): |
---|
[513] | 1039 | """ |
---|
| 1040 | Return a scan after applying a gain-elevation correction. |
---|
| 1041 | The correction can be made via either a polynomial or a |
---|
| 1042 | table-based interpolation (and extrapolation if necessary). |
---|
| 1043 | You specify polynomial coefficients, an ascii table or neither. |
---|
| 1044 | If you specify neither, then a polynomial correction will be made |
---|
| 1045 | with built in coefficients known for certain telescopes (an error |
---|
| 1046 | will occur if the instrument is not known). |
---|
| 1047 | The data and Tsys are *divided* by the scaling factors. |
---|
| 1048 | Parameters: |
---|
| 1049 | poly: Polynomial coefficients (default None) to compute a |
---|
| 1050 | gain-elevation correction as a function of |
---|
| 1051 | elevation (in degrees). |
---|
| 1052 | filename: The name of an ascii file holding correction factors. |
---|
| 1053 | The first row of the ascii file must give the column |
---|
| 1054 | names and these MUST include columns |
---|
| 1055 | "ELEVATION" (degrees) and "FACTOR" (multiply data |
---|
| 1056 | by this) somewhere. |
---|
| 1057 | The second row must give the data type of the |
---|
| 1058 | column. Use 'R' for Real and 'I' for Integer. |
---|
| 1059 | An example file would be |
---|
| 1060 | (actual factors are arbitrary) : |
---|
| 1061 | |
---|
| 1062 | TIME ELEVATION FACTOR |
---|
| 1063 | R R R |
---|
| 1064 | 0.1 0 0.8 |
---|
| 1065 | 0.2 20 0.85 |
---|
| 1066 | 0.3 40 0.9 |
---|
| 1067 | 0.4 60 0.85 |
---|
| 1068 | 0.5 80 0.8 |
---|
| 1069 | 0.6 90 0.75 |
---|
| 1070 | method: Interpolation method when correcting from a table. |
---|
| 1071 | Values are "nearest", "linear" (default), "cubic" |
---|
| 1072 | and "spline" |
---|
| 1073 | insitu: if False a new scantable is returned. |
---|
| 1074 | Otherwise, the scaling is done in-situ |
---|
| 1075 | The default is taken from .asaprc (False) |
---|
| 1076 | """ |
---|
| 1077 | |
---|
| 1078 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1079 | self._math._setinsitu(insitu) |
---|
[513] | 1080 | varlist = vars() |
---|
[1593] | 1081 | poly = poly or () |
---|
[513] | 1082 | from os.path import expandvars |
---|
| 1083 | filename = expandvars(filename) |
---|
[876] | 1084 | s = scantable(self._math._gainel(self, poly, filename, method)) |
---|
| 1085 | s._add_history("gain_el", varlist) |
---|
[1593] | 1086 | if insitu: |
---|
| 1087 | self._assign(s) |
---|
| 1088 | else: |
---|
| 1089 | return s |
---|
[710] | 1090 | |
---|
[1589] | 1091 | @print_log_dec |
---|
[931] | 1092 | def freq_align(self, reftime=None, method='cubic', insitu=None): |
---|
[513] | 1093 | """ |
---|
| 1094 | Return a scan where all rows have been aligned in frequency/velocity. |
---|
| 1095 | The alignment frequency frame (e.g. LSRK) is that set by function |
---|
| 1096 | set_freqframe. |
---|
| 1097 | Parameters: |
---|
| 1098 | reftime: reference time to align at. By default, the time of |
---|
| 1099 | the first row of data is used. |
---|
| 1100 | method: Interpolation method for regridding the spectra. |
---|
| 1101 | Choose from "nearest", "linear", "cubic" (default) |
---|
| 1102 | and "spline" |
---|
| 1103 | insitu: if False a new scantable is returned. |
---|
| 1104 | Otherwise, the scaling is done in-situ |
---|
| 1105 | The default is taken from .asaprc (False) |
---|
| 1106 | """ |
---|
[931] | 1107 | if insitu is None: insitu = rcParams["insitu"] |
---|
[876] | 1108 | self._math._setinsitu(insitu) |
---|
[513] | 1109 | varlist = vars() |
---|
[1593] | 1110 | reftime = reftime or "" |
---|
[931] | 1111 | s = scantable(self._math._freq_align(self, reftime, method)) |
---|
[876] | 1112 | s._add_history("freq_align", varlist) |
---|
| 1113 | if insitu: self._assign(s) |
---|
| 1114 | else: return s |
---|
[513] | 1115 | |
---|
[1589] | 1116 | @print_log_dec |
---|
[876] | 1117 | def opacity(self, tau, insitu=None): |
---|
[513] | 1118 | """ |
---|
| 1119 | Apply an opacity correction. The data |
---|
| 1120 | and Tsys are multiplied by the correction factor. |
---|
| 1121 | Parameters: |
---|
[1689] | 1122 | tau: (list of) opacity from which the correction factor is |
---|
[513] | 1123 | exp(tau*ZD) |
---|
[1689] | 1124 | where ZD is the zenith-distance. |
---|
| 1125 | If a list is provided, it has to be of length nIF, |
---|
| 1126 | nIF*nPol or 1 and in order of IF/POL, e.g. |
---|
| 1127 | [opif0pol0, opif0pol1, opif1pol0 ...] |
---|
[513] | 1128 | insitu: if False a new scantable is returned. |
---|
| 1129 | Otherwise, the scaling is done in-situ |
---|
| 1130 | The default is taken from .asaprc (False) |
---|
| 1131 | """ |
---|
| 1132 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1133 | self._math._setinsitu(insitu) |
---|
[513] | 1134 | varlist = vars() |
---|
[1689] | 1135 | if not hasattr(tau, "__len__"): |
---|
| 1136 | tau = [tau] |
---|
[876] | 1137 | s = scantable(self._math._opacity(self, tau)) |
---|
| 1138 | s._add_history("opacity", varlist) |
---|
| 1139 | if insitu: self._assign(s) |
---|
| 1140 | else: return s |
---|
[513] | 1141 | |
---|
[1589] | 1142 | @print_log_dec |
---|
[513] | 1143 | def bin(self, width=5, insitu=None): |
---|
| 1144 | """ |
---|
| 1145 | Return a scan where all spectra have been binned up. |
---|
[1348] | 1146 | Parameters: |
---|
[513] | 1147 | width: The bin width (default=5) in pixels |
---|
| 1148 | insitu: if False a new scantable is returned. |
---|
| 1149 | Otherwise, the scaling is done in-situ |
---|
| 1150 | The default is taken from .asaprc (False) |
---|
| 1151 | """ |
---|
| 1152 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1153 | self._math._setinsitu(insitu) |
---|
[513] | 1154 | varlist = vars() |
---|
[876] | 1155 | s = scantable(self._math._bin(self, width)) |
---|
[1118] | 1156 | s._add_history("bin", varlist) |
---|
[1589] | 1157 | if insitu: |
---|
| 1158 | self._assign(s) |
---|
| 1159 | else: |
---|
| 1160 | return s |
---|
[513] | 1161 | |
---|
[1589] | 1162 | @print_log_dec |
---|
[513] | 1163 | def resample(self, width=5, method='cubic', insitu=None): |
---|
| 1164 | """ |
---|
[1348] | 1165 | Return a scan where all spectra have been binned up. |
---|
[1573] | 1166 | |
---|
[1348] | 1167 | Parameters: |
---|
[513] | 1168 | width: The bin width (default=5) in pixels |
---|
| 1169 | method: Interpolation method when correcting from a table. |
---|
| 1170 | Values are "nearest", "linear", "cubic" (default) |
---|
| 1171 | and "spline" |
---|
| 1172 | insitu: if False a new scantable is returned. |
---|
| 1173 | Otherwise, the scaling is done in-situ |
---|
| 1174 | The default is taken from .asaprc (False) |
---|
| 1175 | """ |
---|
| 1176 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1177 | self._math._setinsitu(insitu) |
---|
[513] | 1178 | varlist = vars() |
---|
[876] | 1179 | s = scantable(self._math._resample(self, method, width)) |
---|
[1118] | 1180 | s._add_history("resample", varlist) |
---|
[876] | 1181 | if insitu: self._assign(s) |
---|
| 1182 | else: return s |
---|
[513] | 1183 | |
---|
[1589] | 1184 | @print_log_dec |
---|
[946] | 1185 | def average_pol(self, mask=None, weight='none'): |
---|
| 1186 | """ |
---|
| 1187 | Average the Polarisations together. |
---|
| 1188 | Parameters: |
---|
| 1189 | mask: An optional mask defining the region, where the |
---|
| 1190 | averaging will be applied. The output will have all |
---|
| 1191 | specified points masked. |
---|
| 1192 | weight: Weighting scheme. 'none' (default), 'var' (1/var(spec) |
---|
| 1193 | weighted), or 'tsys' (1/Tsys**2 weighted) |
---|
| 1194 | """ |
---|
| 1195 | varlist = vars() |
---|
[1593] | 1196 | mask = mask or () |
---|
[1010] | 1197 | s = scantable(self._math._averagepol(self, mask, weight.upper())) |
---|
[1118] | 1198 | s._add_history("average_pol", varlist) |
---|
[992] | 1199 | return s |
---|
[513] | 1200 | |
---|
[1589] | 1201 | @print_log_dec |
---|
[1145] | 1202 | def average_beam(self, mask=None, weight='none'): |
---|
| 1203 | """ |
---|
| 1204 | Average the Beams together. |
---|
| 1205 | Parameters: |
---|
| 1206 | mask: An optional mask defining the region, where the |
---|
| 1207 | averaging will be applied. The output will have all |
---|
| 1208 | specified points masked. |
---|
| 1209 | weight: Weighting scheme. 'none' (default), 'var' (1/var(spec) |
---|
| 1210 | weighted), or 'tsys' (1/Tsys**2 weighted) |
---|
| 1211 | """ |
---|
| 1212 | varlist = vars() |
---|
[1593] | 1213 | mask = mask or () |
---|
[1145] | 1214 | s = scantable(self._math._averagebeams(self, mask, weight.upper())) |
---|
| 1215 | s._add_history("average_beam", varlist) |
---|
| 1216 | return s |
---|
| 1217 | |
---|
[1586] | 1218 | def parallactify(self, pflag): |
---|
[1617] | 1219 | """ |
---|
| 1220 | Set a flag to inidcate whether this data should be treated as having |
---|
| 1221 | been 'parallactified' (total phase == 0.0) |
---|
| 1222 | Parameters: |
---|
| 1223 | pflag: Bool inidcating whether to turn this on (True) or |
---|
| 1224 | off (False) |
---|
| 1225 | """ |
---|
[1586] | 1226 | varlist = vars() |
---|
| 1227 | self._parallactify(pflag) |
---|
| 1228 | self._add_history("parallactify", varlist) |
---|
| 1229 | |
---|
[1589] | 1230 | @print_log_dec |
---|
[992] | 1231 | def convert_pol(self, poltype=None): |
---|
| 1232 | """ |
---|
| 1233 | Convert the data to a different polarisation type. |
---|
[1565] | 1234 | Note that you will need cross-polarisation terms for most conversions. |
---|
[992] | 1235 | Parameters: |
---|
| 1236 | poltype: The new polarisation type. Valid types are: |
---|
[1565] | 1237 | "linear", "circular", "stokes" and "linpol" |
---|
[992] | 1238 | """ |
---|
| 1239 | varlist = vars() |
---|
| 1240 | try: |
---|
| 1241 | s = scantable(self._math._convertpol(self, poltype)) |
---|
[1118] | 1242 | except RuntimeError, msg: |
---|
[992] | 1243 | if rcParams['verbose']: |
---|
[1118] | 1244 | print msg |
---|
| 1245 | return |
---|
[992] | 1246 | else: |
---|
| 1247 | raise |
---|
[1118] | 1248 | s._add_history("convert_pol", varlist) |
---|
[992] | 1249 | return s |
---|
| 1250 | |
---|
[1589] | 1251 | @print_log_dec |
---|
[1574] | 1252 | def smooth(self, kernel="hanning", width=5.0, order=2, insitu=None): |
---|
[513] | 1253 | """ |
---|
| 1254 | Smooth the spectrum by the specified kernel (conserving flux). |
---|
| 1255 | Parameters: |
---|
| 1256 | kernel: The type of smoothing kernel. Select from |
---|
[1574] | 1257 | 'hanning' (default), 'gaussian', 'boxcar', 'rmedian' |
---|
| 1258 | or 'poly' |
---|
[513] | 1259 | width: The width of the kernel in pixels. For hanning this is |
---|
| 1260 | ignored otherwise it defauls to 5 pixels. |
---|
| 1261 | For 'gaussian' it is the Full Width Half |
---|
| 1262 | Maximum. For 'boxcar' it is the full width. |
---|
[1574] | 1263 | For 'rmedian' and 'poly' it is the half width. |
---|
| 1264 | order: Optional parameter for 'poly' kernel (default is 2), to |
---|
| 1265 | specify the order of the polnomial. Ignored by all other |
---|
| 1266 | kernels. |
---|
[513] | 1267 | insitu: if False a new scantable is returned. |
---|
| 1268 | Otherwise, the scaling is done in-situ |
---|
| 1269 | The default is taken from .asaprc (False) |
---|
| 1270 | Example: |
---|
| 1271 | none |
---|
| 1272 | """ |
---|
| 1273 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1274 | self._math._setinsitu(insitu) |
---|
[513] | 1275 | varlist = vars() |
---|
[1574] | 1276 | s = scantable(self._math._smooth(self, kernel.lower(), width, order)) |
---|
[876] | 1277 | s._add_history("smooth", varlist) |
---|
| 1278 | if insitu: self._assign(s) |
---|
| 1279 | else: return s |
---|
[513] | 1280 | |
---|
[1589] | 1281 | @print_log_dec |
---|
[1617] | 1282 | def poly_baseline(self, mask=None, order=0, plot=False, uselin=False, |
---|
| 1283 | insitu=None): |
---|
[513] | 1284 | """ |
---|
| 1285 | Return a scan which has been baselined (all rows) by a polynomial. |
---|
| 1286 | Parameters: |
---|
[794] | 1287 | mask: an optional mask |
---|
| 1288 | order: the order of the polynomial (default is 0) |
---|
[1061] | 1289 | plot: plot the fit and the residual. In this each |
---|
| 1290 | indivual fit has to be approved, by typing 'y' |
---|
| 1291 | or 'n' |
---|
[1391] | 1292 | uselin: use linear polynomial fit |
---|
[794] | 1293 | insitu: if False a new scantable is returned. |
---|
| 1294 | Otherwise, the scaling is done in-situ |
---|
| 1295 | The default is taken from .asaprc (False) |
---|
[513] | 1296 | Example: |
---|
| 1297 | # return a scan baselined by a third order polynomial, |
---|
| 1298 | # not using a mask |
---|
| 1299 | bscan = scan.poly_baseline(order=3) |
---|
[579] | 1300 | """ |
---|
[513] | 1301 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 1302 | varlist = vars() |
---|
| 1303 | if mask is None: |
---|
[1295] | 1304 | mask = [True for i in xrange(self.nchan(-1))] |
---|
[513] | 1305 | from asap.asapfitter import fitter |
---|
[1217] | 1306 | try: |
---|
| 1307 | f = fitter() |
---|
| 1308 | f.set_scan(self, mask) |
---|
[1391] | 1309 | #f.set_function(poly=order) |
---|
| 1310 | if uselin: |
---|
| 1311 | f.set_function(lpoly=order) |
---|
| 1312 | else: |
---|
| 1313 | f.set_function(poly=order) |
---|
[1217] | 1314 | s = f.auto_fit(insitu, plot=plot) |
---|
| 1315 | s._add_history("poly_baseline", varlist) |
---|
| 1316 | if insitu: self._assign(s) |
---|
| 1317 | else: return s |
---|
| 1318 | except RuntimeError: |
---|
| 1319 | msg = "The fit failed, possibly because it didn't converge." |
---|
| 1320 | if rcParams['verbose']: |
---|
| 1321 | print msg |
---|
| 1322 | return |
---|
| 1323 | else: |
---|
| 1324 | raise RuntimeError(msg) |
---|
[513] | 1325 | |
---|
[1118] | 1326 | def auto_poly_baseline(self, mask=[], edge=(0, 0), order=0, |
---|
[1280] | 1327 | threshold=3, chan_avg_limit=1, plot=False, |
---|
| 1328 | insitu=None): |
---|
[880] | 1329 | """ |
---|
| 1330 | Return a scan which has been baselined (all rows) by a polynomial. |
---|
| 1331 | Spectral lines are detected first using linefinder and masked out |
---|
| 1332 | to avoid them affecting the baseline solution. |
---|
| 1333 | |
---|
| 1334 | Parameters: |
---|
| 1335 | mask: an optional mask retreived from scantable |
---|
| 1336 | edge: an optional number of channel to drop at |
---|
| 1337 | the edge of spectrum. If only one value is |
---|
| 1338 | specified, the same number will be dropped from |
---|
| 1339 | both sides of the spectrum. Default is to keep |
---|
[907] | 1340 | all channels. Nested tuples represent individual |
---|
[976] | 1341 | edge selection for different IFs (a number of spectral |
---|
| 1342 | channels can be different) |
---|
[880] | 1343 | order: the order of the polynomial (default is 0) |
---|
| 1344 | threshold: the threshold used by line finder. It is better to |
---|
| 1345 | keep it large as only strong lines affect the |
---|
| 1346 | baseline solution. |
---|
[1280] | 1347 | chan_avg_limit: |
---|
| 1348 | a maximum number of consequtive spectral channels to |
---|
| 1349 | average during the search of weak and broad lines. |
---|
| 1350 | The default is no averaging (and no search for weak |
---|
| 1351 | lines). If such lines can affect the fitted baseline |
---|
| 1352 | (e.g. a high order polynomial is fitted), increase this |
---|
| 1353 | parameter (usually values up to 8 are reasonable). Most |
---|
| 1354 | users of this method should find the default value |
---|
| 1355 | sufficient. |
---|
[1061] | 1356 | plot: plot the fit and the residual. In this each |
---|
| 1357 | indivual fit has to be approved, by typing 'y' |
---|
| 1358 | or 'n' |
---|
[880] | 1359 | insitu: if False a new scantable is returned. |
---|
| 1360 | Otherwise, the scaling is done in-situ |
---|
| 1361 | The default is taken from .asaprc (False) |
---|
| 1362 | |
---|
| 1363 | Example: |
---|
| 1364 | scan2=scan.auto_poly_baseline(order=7) |
---|
| 1365 | """ |
---|
| 1366 | if insitu is None: insitu = rcParams['insitu'] |
---|
| 1367 | varlist = vars() |
---|
| 1368 | from asap.asapfitter import fitter |
---|
| 1369 | from asap.asaplinefind import linefinder |
---|
| 1370 | from asap import _is_sequence_or_number as _is_valid |
---|
| 1371 | |
---|
[976] | 1372 | # check whether edge is set up for each IF individually |
---|
[1118] | 1373 | individualedge = False; |
---|
| 1374 | if len(edge) > 1: |
---|
| 1375 | if isinstance(edge[0], list) or isinstance(edge[0], tuple): |
---|
| 1376 | individualedge = True; |
---|
[907] | 1377 | |
---|
[1118] | 1378 | if not _is_valid(edge, int) and not individualedge: |
---|
[909] | 1379 | raise ValueError, "Parameter 'edge' has to be an integer or a \ |
---|
[907] | 1380 | pair of integers specified as a tuple. Nested tuples are allowed \ |
---|
| 1381 | to make individual selection for different IFs." |
---|
[919] | 1382 | |
---|
[1118] | 1383 | curedge = (0, 0) |
---|
| 1384 | if individualedge: |
---|
| 1385 | for edgepar in edge: |
---|
| 1386 | if not _is_valid(edgepar, int): |
---|
| 1387 | raise ValueError, "Each element of the 'edge' tuple has \ |
---|
| 1388 | to be a pair of integers or an integer." |
---|
[907] | 1389 | else: |
---|
[1118] | 1390 | curedge = edge; |
---|
[880] | 1391 | |
---|
| 1392 | # setup fitter |
---|
| 1393 | f = fitter() |
---|
| 1394 | f.set_function(poly=order) |
---|
| 1395 | |
---|
| 1396 | # setup line finder |
---|
[1118] | 1397 | fl = linefinder() |
---|
[1268] | 1398 | fl.set_options(threshold=threshold,avg_limit=chan_avg_limit) |
---|
[880] | 1399 | |
---|
| 1400 | if not insitu: |
---|
[1118] | 1401 | workscan = self.copy() |
---|
[880] | 1402 | else: |
---|
[1118] | 1403 | workscan = self |
---|
[880] | 1404 | |
---|
[907] | 1405 | fl.set_scan(workscan) |
---|
| 1406 | |
---|
[1118] | 1407 | rows = range(workscan.nrow()) |
---|
[880] | 1408 | asaplog.push("Processing:") |
---|
| 1409 | for r in rows: |
---|
[1118] | 1410 | msg = " Scan[%d] Beam[%d] IF[%d] Pol[%d] Cycle[%d]" % \ |
---|
| 1411 | (workscan.getscan(r), workscan.getbeam(r), workscan.getif(r), \ |
---|
| 1412 | workscan.getpol(r), workscan.getcycle(r)) |
---|
[880] | 1413 | asaplog.push(msg, False) |
---|
[907] | 1414 | |
---|
[976] | 1415 | # figure out edge parameter |
---|
[1118] | 1416 | if individualedge: |
---|
| 1417 | if len(edge) >= workscan.getif(r): |
---|
| 1418 | raise RuntimeError, "Number of edge elements appear to " \ |
---|
| 1419 | "be less than the number of IFs" |
---|
| 1420 | curedge = edge[workscan.getif(r)] |
---|
[919] | 1421 | |
---|
[976] | 1422 | # setup line finder |
---|
[1118] | 1423 | fl.find_lines(r, mask, curedge) |
---|
[1536] | 1424 | f.set_data(workscan._getabcissa(r), workscan._getspectrum(r), |
---|
| 1425 | mask_and(workscan._getmask(r), fl.get_mask())) |
---|
[880] | 1426 | f.fit() |
---|
| 1427 | x = f.get_parameters() |
---|
[1061] | 1428 | if plot: |
---|
| 1429 | f.plot(residual=True) |
---|
| 1430 | x = raw_input("Accept fit ( [y]/n ): ") |
---|
| 1431 | if x.upper() == 'N': |
---|
| 1432 | continue |
---|
[880] | 1433 | workscan._setspectrum(f.fitter.getresidual(), r) |
---|
[1061] | 1434 | if plot: |
---|
| 1435 | f._p.unmap() |
---|
| 1436 | f._p = None |
---|
| 1437 | workscan._add_history("auto_poly_baseline", varlist) |
---|
[880] | 1438 | if insitu: |
---|
| 1439 | self._assign(workscan) |
---|
| 1440 | else: |
---|
| 1441 | return workscan |
---|
| 1442 | |
---|
[1589] | 1443 | @print_log_dec |
---|
[914] | 1444 | def rotate_linpolphase(self, angle): |
---|
| 1445 | """ |
---|
| 1446 | Rotate the phase of the complex polarization O=Q+iU correlation. |
---|
| 1447 | This is always done in situ in the raw data. So if you call this |
---|
| 1448 | function more than once then each call rotates the phase further. |
---|
| 1449 | Parameters: |
---|
| 1450 | angle: The angle (degrees) to rotate (add) by. |
---|
| 1451 | Examples: |
---|
| 1452 | scan.rotate_linpolphase(2.3) |
---|
| 1453 | """ |
---|
| 1454 | varlist = vars() |
---|
[936] | 1455 | self._math._rotate_linpolphase(self, angle) |
---|
[914] | 1456 | self._add_history("rotate_linpolphase", varlist) |
---|
| 1457 | return |
---|
[710] | 1458 | |
---|
[1589] | 1459 | @print_log_dec |
---|
[914] | 1460 | def rotate_xyphase(self, angle): |
---|
| 1461 | """ |
---|
| 1462 | Rotate the phase of the XY correlation. This is always done in situ |
---|
| 1463 | in the data. So if you call this function more than once |
---|
| 1464 | then each call rotates the phase further. |
---|
| 1465 | Parameters: |
---|
| 1466 | angle: The angle (degrees) to rotate (add) by. |
---|
| 1467 | Examples: |
---|
| 1468 | scan.rotate_xyphase(2.3) |
---|
| 1469 | """ |
---|
| 1470 | varlist = vars() |
---|
[936] | 1471 | self._math._rotate_xyphase(self, angle) |
---|
[914] | 1472 | self._add_history("rotate_xyphase", varlist) |
---|
| 1473 | return |
---|
| 1474 | |
---|
[1589] | 1475 | @print_log_dec |
---|
[914] | 1476 | def swap_linears(self): |
---|
| 1477 | """ |
---|
[1573] | 1478 | Swap the linear polarisations XX and YY, or better the first two |
---|
[1348] | 1479 | polarisations as this also works for ciculars. |
---|
[914] | 1480 | """ |
---|
| 1481 | varlist = vars() |
---|
[936] | 1482 | self._math._swap_linears(self) |
---|
[914] | 1483 | self._add_history("swap_linears", varlist) |
---|
| 1484 | return |
---|
| 1485 | |
---|
[1589] | 1486 | @print_log_dec |
---|
[914] | 1487 | def invert_phase(self): |
---|
| 1488 | """ |
---|
| 1489 | Invert the phase of the complex polarisation |
---|
| 1490 | """ |
---|
| 1491 | varlist = vars() |
---|
[936] | 1492 | self._math._invert_phase(self) |
---|
[914] | 1493 | self._add_history("invert_phase", varlist) |
---|
| 1494 | return |
---|
| 1495 | |
---|
[1589] | 1496 | @print_log_dec |
---|
[876] | 1497 | def add(self, offset, insitu=None): |
---|
[513] | 1498 | """ |
---|
| 1499 | Return a scan where all spectra have the offset added |
---|
| 1500 | Parameters: |
---|
| 1501 | offset: the offset |
---|
| 1502 | insitu: if False a new scantable is returned. |
---|
| 1503 | Otherwise, the scaling is done in-situ |
---|
| 1504 | The default is taken from .asaprc (False) |
---|
| 1505 | """ |
---|
| 1506 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1507 | self._math._setinsitu(insitu) |
---|
[513] | 1508 | varlist = vars() |
---|
[876] | 1509 | s = scantable(self._math._unaryop(self, offset, "ADD", False)) |
---|
[1118] | 1510 | s._add_history("add", varlist) |
---|
[876] | 1511 | if insitu: |
---|
| 1512 | self._assign(s) |
---|
| 1513 | else: |
---|
[513] | 1514 | return s |
---|
| 1515 | |
---|
[1589] | 1516 | @print_log_dec |
---|
[1308] | 1517 | def scale(self, factor, tsys=True, insitu=None): |
---|
[513] | 1518 | """ |
---|
| 1519 | Return a scan where all spectra are scaled by the give 'factor' |
---|
| 1520 | Parameters: |
---|
| 1521 | factor: the scaling factor |
---|
| 1522 | insitu: if False a new scantable is returned. |
---|
| 1523 | Otherwise, the scaling is done in-situ |
---|
| 1524 | The default is taken from .asaprc (False) |
---|
| 1525 | tsys: if True (default) then apply the operation to Tsys |
---|
| 1526 | as well as the data |
---|
| 1527 | """ |
---|
| 1528 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1529 | self._math._setinsitu(insitu) |
---|
[513] | 1530 | varlist = vars() |
---|
[876] | 1531 | s = scantable(self._math._unaryop(self, factor, "MUL", tsys)) |
---|
[1118] | 1532 | s._add_history("scale", varlist) |
---|
[876] | 1533 | if insitu: |
---|
| 1534 | self._assign(s) |
---|
| 1535 | else: |
---|
[513] | 1536 | return s |
---|
| 1537 | |
---|
[1504] | 1538 | def set_sourcetype(self, match, matchtype="pattern", |
---|
| 1539 | sourcetype="reference"): |
---|
[1502] | 1540 | """ |
---|
| 1541 | Set the type of the source to be an source or reference scan |
---|
| 1542 | using the provided pattern: |
---|
| 1543 | Parameters: |
---|
[1504] | 1544 | match: a Unix style pattern, regular expression or selector |
---|
| 1545 | matchtype: 'pattern' (default) UNIX style pattern or |
---|
| 1546 | 'regex' regular expression |
---|
[1502] | 1547 | sourcetype: the type of the source to use (source/reference) |
---|
| 1548 | """ |
---|
| 1549 | varlist = vars() |
---|
| 1550 | basesel = self.get_selection() |
---|
| 1551 | stype = -1 |
---|
| 1552 | if sourcetype.lower().startswith("r"): |
---|
| 1553 | stype = 1 |
---|
| 1554 | elif sourcetype.lower().startswith("s"): |
---|
| 1555 | stype = 0 |
---|
[1504] | 1556 | else: |
---|
[1502] | 1557 | raise ValueError("Illegal sourcetype use s(ource) or r(eference)") |
---|
[1504] | 1558 | if matchtype.lower().startswith("p"): |
---|
| 1559 | matchtype = "pattern" |
---|
| 1560 | elif matchtype.lower().startswith("r"): |
---|
| 1561 | matchtype = "regex" |
---|
| 1562 | else: |
---|
| 1563 | raise ValueError("Illegal matchtype, use p(attern) or r(egex)") |
---|
[1502] | 1564 | sel = selector() |
---|
| 1565 | if isinstance(match, selector): |
---|
| 1566 | sel = match |
---|
| 1567 | else: |
---|
[1504] | 1568 | sel.set_query("SRCNAME == %s('%s')" % (matchtype, match)) |
---|
[1502] | 1569 | self.set_selection(basesel+sel) |
---|
| 1570 | self._setsourcetype(stype) |
---|
| 1571 | self.set_selection(basesel) |
---|
[1573] | 1572 | self._add_history("set_sourcetype", varlist) |
---|
[1502] | 1573 | |
---|
[1589] | 1574 | @print_log_dec |
---|
[1348] | 1575 | def auto_quotient(self, preserve=True, mode='paired'): |
---|
[670] | 1576 | """ |
---|
| 1577 | This function allows to build quotients automatically. |
---|
| 1578 | It assumes the observation to have the same numer of |
---|
| 1579 | "ons" and "offs" |
---|
| 1580 | Parameters: |
---|
[710] | 1581 | preserve: you can preserve (default) the continuum or |
---|
| 1582 | remove it. The equations used are |
---|
[670] | 1583 | preserve: Output = Toff * (on/off) - Toff |
---|
[1070] | 1584 | remove: Output = Toff * (on/off) - Ton |
---|
[1573] | 1585 | mode: the on/off detection mode |
---|
[1348] | 1586 | 'paired' (default) |
---|
| 1587 | identifies 'off' scans by the |
---|
| 1588 | trailing '_R' (Mopra/Parkes) or |
---|
| 1589 | '_e'/'_w' (Tid) and matches |
---|
| 1590 | on/off pairs from the observing pattern |
---|
[1502] | 1591 | 'time' |
---|
| 1592 | finds the closest off in time |
---|
[1348] | 1593 | |
---|
[670] | 1594 | """ |
---|
[1348] | 1595 | modes = ["time", "paired"] |
---|
[670] | 1596 | if not mode in modes: |
---|
[876] | 1597 | msg = "please provide valid mode. Valid modes are %s" % (modes) |
---|
| 1598 | raise ValueError(msg) |
---|
| 1599 | varlist = vars() |
---|
[1348] | 1600 | s = None |
---|
| 1601 | if mode.lower() == "paired": |
---|
| 1602 | basesel = self.get_selection() |
---|
[1356] | 1603 | sel = selector()+basesel |
---|
| 1604 | sel.set_query("SRCTYPE==1") |
---|
| 1605 | self.set_selection(sel) |
---|
[1348] | 1606 | offs = self.copy() |
---|
| 1607 | sel.set_query("SRCTYPE==0") |
---|
[1356] | 1608 | self.set_selection(sel) |
---|
[1348] | 1609 | ons = self.copy() |
---|
| 1610 | s = scantable(self._math._quotient(ons, offs, preserve)) |
---|
| 1611 | self.set_selection(basesel) |
---|
| 1612 | elif mode.lower() == "time": |
---|
| 1613 | s = scantable(self._math._auto_quotient(self, mode, preserve)) |
---|
[1118] | 1614 | s._add_history("auto_quotient", varlist) |
---|
[876] | 1615 | return s |
---|
[710] | 1616 | |
---|
[1589] | 1617 | @print_log_dec |
---|
[1145] | 1618 | def mx_quotient(self, mask = None, weight='median', preserve=True): |
---|
[1141] | 1619 | """ |
---|
[1143] | 1620 | Form a quotient using "off" beams when observing in "MX" mode. |
---|
| 1621 | Parameters: |
---|
[1145] | 1622 | mask: an optional mask to be used when weight == 'stddev' |
---|
[1143] | 1623 | weight: How to average the off beams. Default is 'median'. |
---|
[1145] | 1624 | preserve: you can preserve (default) the continuum or |
---|
| 1625 | remove it. The equations used are |
---|
| 1626 | preserve: Output = Toff * (on/off) - Toff |
---|
| 1627 | remove: Output = Toff * (on/off) - Ton |
---|
[1217] | 1628 | """ |
---|
[1593] | 1629 | mask = mask or () |
---|
[1141] | 1630 | varlist = vars() |
---|
| 1631 | on = scantable(self._math._mx_extract(self, 'on')) |
---|
[1143] | 1632 | preoff = scantable(self._math._mx_extract(self, 'off')) |
---|
| 1633 | off = preoff.average_time(mask=mask, weight=weight, scanav=False) |
---|
[1217] | 1634 | from asapmath import quotient |
---|
[1145] | 1635 | q = quotient(on, off, preserve) |
---|
[1143] | 1636 | q._add_history("mx_quotient", varlist) |
---|
[1217] | 1637 | return q |
---|
[513] | 1638 | |
---|
[1589] | 1639 | @print_log_dec |
---|
[718] | 1640 | def freq_switch(self, insitu=None): |
---|
| 1641 | """ |
---|
| 1642 | Apply frequency switching to the data. |
---|
| 1643 | Parameters: |
---|
| 1644 | insitu: if False a new scantable is returned. |
---|
| 1645 | Otherwise, the swictching is done in-situ |
---|
| 1646 | The default is taken from .asaprc (False) |
---|
| 1647 | Example: |
---|
| 1648 | none |
---|
| 1649 | """ |
---|
| 1650 | if insitu is None: insitu = rcParams['insitu'] |
---|
[876] | 1651 | self._math._setinsitu(insitu) |
---|
[718] | 1652 | varlist = vars() |
---|
[876] | 1653 | s = scantable(self._math._freqswitch(self)) |
---|
[1118] | 1654 | s._add_history("freq_switch", varlist) |
---|
[876] | 1655 | if insitu: self._assign(s) |
---|
| 1656 | else: return s |
---|
[718] | 1657 | |
---|
[1589] | 1658 | @print_log_dec |
---|
[780] | 1659 | def recalc_azel(self): |
---|
| 1660 | """ |
---|
| 1661 | Recalculate the azimuth and elevation for each position. |
---|
| 1662 | Parameters: |
---|
| 1663 | none |
---|
| 1664 | Example: |
---|
| 1665 | """ |
---|
| 1666 | varlist = vars() |
---|
[876] | 1667 | self._recalcazel() |
---|
[780] | 1668 | self._add_history("recalc_azel", varlist) |
---|
| 1669 | return |
---|
| 1670 | |
---|
[1589] | 1671 | @print_log_dec |
---|
[513] | 1672 | def __add__(self, other): |
---|
| 1673 | varlist = vars() |
---|
| 1674 | s = None |
---|
| 1675 | if isinstance(other, scantable): |
---|
[1573] | 1676 | s = scantable(self._math._binaryop(self, other, "ADD")) |
---|
[513] | 1677 | elif isinstance(other, float): |
---|
[876] | 1678 | s = scantable(self._math._unaryop(self, other, "ADD", False)) |
---|
[513] | 1679 | else: |
---|
[718] | 1680 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1681 | s._add_history("operator +", varlist) |
---|
| 1682 | return s |
---|
| 1683 | |
---|
[1589] | 1684 | @print_log_dec |
---|
[513] | 1685 | def __sub__(self, other): |
---|
| 1686 | """ |
---|
| 1687 | implicit on all axes and on Tsys |
---|
| 1688 | """ |
---|
| 1689 | varlist = vars() |
---|
| 1690 | s = None |
---|
| 1691 | if isinstance(other, scantable): |
---|
[1588] | 1692 | s = scantable(self._math._binaryop(self, other, "SUB")) |
---|
[513] | 1693 | elif isinstance(other, float): |
---|
[876] | 1694 | s = scantable(self._math._unaryop(self, other, "SUB", False)) |
---|
[513] | 1695 | else: |
---|
[718] | 1696 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1697 | s._add_history("operator -", varlist) |
---|
| 1698 | return s |
---|
[710] | 1699 | |
---|
[1589] | 1700 | @print_log_dec |
---|
[513] | 1701 | def __mul__(self, other): |
---|
| 1702 | """ |
---|
| 1703 | implicit on all axes and on Tsys |
---|
| 1704 | """ |
---|
| 1705 | varlist = vars() |
---|
| 1706 | s = None |
---|
| 1707 | if isinstance(other, scantable): |
---|
[1588] | 1708 | s = scantable(self._math._binaryop(self, other, "MUL")) |
---|
[513] | 1709 | elif isinstance(other, float): |
---|
[876] | 1710 | s = scantable(self._math._unaryop(self, other, "MUL", False)) |
---|
[513] | 1711 | else: |
---|
[718] | 1712 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1713 | s._add_history("operator *", varlist) |
---|
| 1714 | return s |
---|
| 1715 | |
---|
[710] | 1716 | |
---|
[1589] | 1717 | @print_log_dec |
---|
[513] | 1718 | def __div__(self, other): |
---|
| 1719 | """ |
---|
| 1720 | implicit on all axes and on Tsys |
---|
| 1721 | """ |
---|
| 1722 | varlist = vars() |
---|
| 1723 | s = None |
---|
| 1724 | if isinstance(other, scantable): |
---|
[1589] | 1725 | s = scantable(self._math._binaryop(self, other, "DIV")) |
---|
[513] | 1726 | elif isinstance(other, float): |
---|
| 1727 | if other == 0.0: |
---|
[718] | 1728 | raise ZeroDivisionError("Dividing by zero is not recommended") |
---|
[876] | 1729 | s = scantable(self._math._unaryop(self, other, "DIV", False)) |
---|
[513] | 1730 | else: |
---|
[718] | 1731 | raise TypeError("Other input is not a scantable or float value") |
---|
[513] | 1732 | s._add_history("operator /", varlist) |
---|
| 1733 | return s |
---|
| 1734 | |
---|
[530] | 1735 | def get_fit(self, row=0): |
---|
| 1736 | """ |
---|
| 1737 | Print or return the stored fits for a row in the scantable |
---|
| 1738 | Parameters: |
---|
| 1739 | row: the row which the fit has been applied to. |
---|
| 1740 | """ |
---|
| 1741 | if row > self.nrow(): |
---|
| 1742 | return |
---|
[976] | 1743 | from asap.asapfit import asapfit |
---|
[530] | 1744 | fit = asapfit(self._getfit(row)) |
---|
[718] | 1745 | if rcParams['verbose']: |
---|
[530] | 1746 | print fit |
---|
| 1747 | return |
---|
| 1748 | else: |
---|
| 1749 | return fit.as_dict() |
---|
| 1750 | |
---|
[1483] | 1751 | def flag_nans(self): |
---|
| 1752 | """ |
---|
| 1753 | Utility function to flag NaN values in the scantable. |
---|
| 1754 | """ |
---|
| 1755 | import numpy |
---|
| 1756 | basesel = self.get_selection() |
---|
| 1757 | for i in range(self.nrow()): |
---|
[1589] | 1758 | sel = self.get_row_selector(i) |
---|
| 1759 | self.set_selection(basesel+sel) |
---|
[1483] | 1760 | nans = numpy.isnan(self._getspectrum(0)) |
---|
| 1761 | if numpy.any(nans): |
---|
| 1762 | bnans = [ bool(v) for v in nans] |
---|
| 1763 | self.flag(bnans) |
---|
| 1764 | self.set_selection(basesel) |
---|
| 1765 | |
---|
[1588] | 1766 | def get_row_selector(self, rowno): |
---|
| 1767 | return selector(beams=self.getbeam(rowno), |
---|
| 1768 | ifs=self.getif(rowno), |
---|
| 1769 | pols=self.getpol(rowno), |
---|
| 1770 | scans=self.getscan(rowno), |
---|
| 1771 | cycles=self.getcycle(rowno)) |
---|
[1573] | 1772 | |
---|
[484] | 1773 | def _add_history(self, funcname, parameters): |
---|
[1435] | 1774 | if not rcParams['scantable.history']: |
---|
| 1775 | return |
---|
[484] | 1776 | # create date |
---|
| 1777 | sep = "##" |
---|
| 1778 | from datetime import datetime |
---|
| 1779 | dstr = datetime.now().strftime('%Y/%m/%d %H:%M:%S') |
---|
| 1780 | hist = dstr+sep |
---|
| 1781 | hist += funcname+sep#cdate+sep |
---|
| 1782 | if parameters.has_key('self'): del parameters['self'] |
---|
[1118] | 1783 | for k, v in parameters.iteritems(): |
---|
[484] | 1784 | if type(v) is dict: |
---|
[1118] | 1785 | for k2, v2 in v.iteritems(): |
---|
[484] | 1786 | hist += k2 |
---|
| 1787 | hist += "=" |
---|
[1118] | 1788 | if isinstance(v2, scantable): |
---|
[484] | 1789 | hist += 'scantable' |
---|
| 1790 | elif k2 == 'mask': |
---|
[1118] | 1791 | if isinstance(v2, list) or isinstance(v2, tuple): |
---|
[513] | 1792 | hist += str(self._zip_mask(v2)) |
---|
| 1793 | else: |
---|
| 1794 | hist += str(v2) |
---|
[484] | 1795 | else: |
---|
[513] | 1796 | hist += str(v2) |
---|
[484] | 1797 | else: |
---|
| 1798 | hist += k |
---|
| 1799 | hist += "=" |
---|
[1118] | 1800 | if isinstance(v, scantable): |
---|
[484] | 1801 | hist += 'scantable' |
---|
| 1802 | elif k == 'mask': |
---|
[1118] | 1803 | if isinstance(v, list) or isinstance(v, tuple): |
---|
[513] | 1804 | hist += str(self._zip_mask(v)) |
---|
| 1805 | else: |
---|
| 1806 | hist += str(v) |
---|
[484] | 1807 | else: |
---|
| 1808 | hist += str(v) |
---|
| 1809 | hist += sep |
---|
| 1810 | hist = hist[:-2] # remove trailing '##' |
---|
| 1811 | self._addhistory(hist) |
---|
| 1812 | |
---|
[710] | 1813 | |
---|
[484] | 1814 | def _zip_mask(self, mask): |
---|
| 1815 | mask = list(mask) |
---|
| 1816 | i = 0 |
---|
| 1817 | segments = [] |
---|
| 1818 | while mask[i:].count(1): |
---|
| 1819 | i += mask[i:].index(1) |
---|
| 1820 | if mask[i:].count(0): |
---|
| 1821 | j = i + mask[i:].index(0) |
---|
| 1822 | else: |
---|
[710] | 1823 | j = len(mask) |
---|
[1118] | 1824 | segments.append([i, j]) |
---|
[710] | 1825 | i = j |
---|
[484] | 1826 | return segments |
---|
[714] | 1827 | |
---|
[626] | 1828 | def _get_ordinate_label(self): |
---|
| 1829 | fu = "("+self.get_fluxunit()+")" |
---|
| 1830 | import re |
---|
| 1831 | lbl = "Intensity" |
---|
[1118] | 1832 | if re.match(".K.", fu): |
---|
[626] | 1833 | lbl = "Brightness Temperature "+ fu |
---|
[1118] | 1834 | elif re.match(".Jy.", fu): |
---|
[626] | 1835 | lbl = "Flux density "+ fu |
---|
| 1836 | return lbl |
---|
[710] | 1837 | |
---|
[876] | 1838 | def _check_ifs(self): |
---|
| 1839 | nchans = [self.nchan(i) for i in range(self.nif(-1))] |
---|
[889] | 1840 | nchans = filter(lambda t: t > 0, nchans) |
---|
[876] | 1841 | return (sum(nchans)/len(nchans) == nchans[0]) |
---|
[976] | 1842 | |
---|
| 1843 | def _fill(self, names, unit, average): |
---|
| 1844 | import os |
---|
| 1845 | from asap._asap import stfiller |
---|
| 1846 | first = True |
---|
| 1847 | fullnames = [] |
---|
| 1848 | for name in names: |
---|
| 1849 | name = os.path.expandvars(name) |
---|
| 1850 | name = os.path.expanduser(name) |
---|
| 1851 | if not os.path.exists(name): |
---|
| 1852 | msg = "File '%s' does not exists" % (name) |
---|
| 1853 | if rcParams['verbose']: |
---|
| 1854 | asaplog.push(msg) |
---|
| 1855 | print asaplog.pop().strip() |
---|
| 1856 | return |
---|
| 1857 | raise IOError(msg) |
---|
| 1858 | fullnames.append(name) |
---|
| 1859 | if average: |
---|
| 1860 | asaplog.push('Auto averaging integrations') |
---|
[1079] | 1861 | stype = int(rcParams['scantable.storage'].lower() == 'disk') |
---|
[976] | 1862 | for name in fullnames: |
---|
[1073] | 1863 | tbl = Scantable(stype) |
---|
| 1864 | r = stfiller(tbl) |
---|
[1504] | 1865 | rx = rcParams['scantable.reference'] |
---|
| 1866 | r._setreferenceexpr(rx) |
---|
[976] | 1867 | msg = "Importing %s..." % (name) |
---|
[1118] | 1868 | asaplog.push(msg, False) |
---|
[976] | 1869 | print_log() |
---|
[1118] | 1870 | r._open(name, -1, -1) |
---|
[976] | 1871 | r._read() |
---|
| 1872 | if average: |
---|
[1118] | 1873 | tbl = self._math._average((tbl, ), (), 'NONE', 'SCAN') |
---|
[976] | 1874 | if not first: |
---|
| 1875 | tbl = self._math._merge([self, tbl]) |
---|
| 1876 | Scantable.__init__(self, tbl) |
---|
| 1877 | r._close() |
---|
[1118] | 1878 | del r, tbl |
---|
[976] | 1879 | first = False |
---|
| 1880 | if unit is not None: |
---|
| 1881 | self.set_fluxunit(unit) |
---|
| 1882 | self.set_freqframe(rcParams['scantable.freqframe']) |
---|
| 1883 | |
---|
[1402] | 1884 | def __getitem__(self, key): |
---|
| 1885 | if key < 0: |
---|
| 1886 | key += self.nrow() |
---|
| 1887 | if key >= self.nrow(): |
---|
| 1888 | raise IndexError("Row index out of range.") |
---|
| 1889 | return self._getspectrum(key) |
---|
| 1890 | |
---|
| 1891 | def __setitem__(self, key, value): |
---|
| 1892 | if key < 0: |
---|
| 1893 | key += self.nrow() |
---|
| 1894 | if key >= self.nrow(): |
---|
| 1895 | raise IndexError("Row index out of range.") |
---|
| 1896 | if not hasattr(value, "__len__") or \ |
---|
| 1897 | len(value) > self.nchan(self.getif(key)): |
---|
| 1898 | raise ValueError("Spectrum length doesn't match.") |
---|
| 1899 | return self._setspectrum(value, key) |
---|
| 1900 | |
---|
| 1901 | def __len__(self): |
---|
| 1902 | return self.nrow() |
---|
| 1903 | |
---|
| 1904 | def __iter__(self): |
---|
| 1905 | for i in range(len(self)): |
---|
| 1906 | yield self[i] |
---|