| 1 | from asap.asapplotter import asapplotter
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| 2 | from asap.logging import asaplog, asaplog_post_dec
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| 3 |
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| 4 | from asap.parameters import rcParams
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| 5 | from asap.selector import selector
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| 6 | from asap.scantable import scantable
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| 7 | import matplotlib.axes
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| 8 | from matplotlib.font_manager import FontProperties
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| 9 | from matplotlib.text import Text
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| 10 |
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| 11 | class flagplotter(asapplotter):
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| 12 | """
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| 13 | The flag plotter
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| 14 | Only row based panneling is allowed.
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| 15 |
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| 16 | Example:
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| 17 | scan = asa p.scantable(filename='your_filename',average=False)
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| 18 | guiflagger = asap.flagplotter(visible=True)
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| 19 | guiflagger.plot(scan)
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| 20 | ### flag/Unflag data graphically.
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| 21 | guiflagger.save_data(name='flagged_file.asap',format='ASAP')
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| 22 |
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| 23 | NOTICE:
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| 24 | The flagged data is not saved until you explicitly run scantable.save
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| 25 | """
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| 26 | def __init__(self, visible=None, **kwargs):
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| 27 | self._scan = None
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| 28 | asapplotter.__init__(self,visible=visible, **kwargs)
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| 29 | self._assert_plotter(action='reload')
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| 30 | self._plotter._set_window_title('Flag Plotter')
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| 31 | self._panelling = 'r'
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| 32 | self.set_stacking('scan')
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| 33 | self._ismodified = False
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| 34 | self._showflagged = False
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| 35 | self.set_colors("blue gray",False)
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| 36 |
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| 37 | def _new_custombar(self):
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| 38 | backend = matplotlib.get_backend()
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| 39 | # Flag plotter relys on supported GUI backends
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| 40 | if not self._visible:
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| 41 | asaplog.push("GUI backend is not available")
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| 42 | asaplog.post("ERROR")
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| 43 | elif backend == "TkAgg":
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| 44 | from asap.customgui_tkagg import CustomFlagToolbarTkAgg
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| 45 | return CustomFlagToolbarTkAgg(self)
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| 46 | elif backend == "Qt4Agg":
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| 47 | from asap.customgui_qt4agg import CustomFlagToolbarQT4Agg
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| 48 | return CustomFlagToolbarQT4Agg(self)
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| 49 | else:
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| 50 | asaplog.push("Unsupported backend for interactive flagging. Use either TkAgg or PyQt4Agg")
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| 51 | asaplog.post("ERROR")
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| 52 |
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| 53 | def set_showflagged(self, show):
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| 54 | """ Whether or not plotting flagged data"""
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| 55 | if type(show) == bool:
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| 56 | self._showflagged = show
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| 57 | print "self._showflagged =", str(show)
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| 58 | else:
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| 59 | raise TypeError, "Input parameter should be a bool."
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| 60 |
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| 61 | @asaplog_post_dec
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| 62 | def _invalid_func(self, name):
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| 63 | msg = "Invalid function 'flagplotter."+name+"'"
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| 64 | #raise AttributeError(msg)
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| 65 | asaplog.push(msg)
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| 66 | asaplog.post('ERROR')
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| 67 |
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| 68 | def set_panelling(self,which='r'):
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| 69 | """ This function is not available for the class flagplotter """
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| 70 | if which.lower().startswith('r'):
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| 71 | return
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| 72 | msg = "Pannel setting is fixed to row mode in 'flagplotter'"
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| 73 | asaplog.push(msg)
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| 74 | asaplog.post('ERROR')
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| 75 | self._panelling = 'r'
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| 76 |
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| 77 | def set_range(self,xstart=None,xend=None,ystart=None,yend=None,refresh=False, offset=None):
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| 78 | """ This function is not available for the class flagplotter """
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| 79 | msg = "Plot range setting is not allowed in 'flagplotter'"
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| 80 | asaplog.push(msg)
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| 81 | asaplog.post('ERROR')
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| 82 | self._panelling = 'r'
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| 83 |
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| 84 | def plotazel(self,*args,**kwargs):
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| 85 | """ This function is not available for the class flagplotter """
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| 86 | self._invalid_func(name='plotazel')
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| 87 |
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| 88 | def plotpointing(self,*args,**kwargs):
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| 89 | """ This function is not available for the class flagplotter """
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| 90 | self._invalid_func(name='plotpointing')
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| 91 |
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| 92 | def plottp(self,*args,**kwargs):
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| 93 | """ This function is not available for the class flagplotter """
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| 94 | self._invalid_func(name='plottp')
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| 95 |
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| 96 | def save_data(self, name=None, format=None, overwrite=False):
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| 97 | """
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| 98 | Store the plotted scantable on disk.
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| 99 | This function simply redirects call to scantable.save()
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| 100 |
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| 101 | Parameters:
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| 102 |
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| 103 | name: the name of the outputfile. For format "ASCII"
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| 104 | this is the root file name (data in 'name'.txt
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| 105 | and header in 'name'_header.txt)
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| 106 |
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| 107 | format: an optional file format. Default is ASAP.
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| 108 | Allowed are:
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| 109 | * 'ASAP' (save as ASAP [aips++] Table),
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| 110 | * 'SDFITS' (save as SDFITS file)
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| 111 | * 'ASCII' (saves as ascii text file)
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| 112 | * 'MS2' (saves as an casacore MeasurementSet V2)
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| 113 | * 'FITS' (save as image FITS - not readable by class)
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| 114 | * 'CLASS' (save as FITS readable by CLASS)
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| 115 |
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| 116 | overwrite: If the file should be overwritten if it exists.
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| 117 | The default False is to return with warning
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| 118 | without writing the output. USE WITH CARE.
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| 119 | """
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| 120 | if not self._data:
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| 121 | raise RuntimeError("No scantable has been set yet.")
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| 122 | # simply calls scantable.save
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| 123 | self._data.save(name,format,overwrite)
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| 124 |
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| 125 | def set_data(self, scan, refresh=True):
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| 126 | if self._is_new_scan(scan):
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| 127 | self._ismodified = False
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| 128 | asapplotter.set_data(self, scan, refresh)
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| 129 | set_data.__doc__ = asapplotter.set_data.__doc__
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| 130 |
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| 131 | @asaplog_post_dec
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| 132 | def plot(self, scan=None):
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| 133 | if self._is_new_scan(scan):
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| 134 | self._ismodified = False
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| 135 | if not self._showflagged:
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| 136 | self.set_legend(mode=None,refresh=False)
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| 137 | elif not self._legendloc:
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| 138 | self.set_legend(mode=1,refresh=False)
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| 139 | asapplotter.plot(self,scan)
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| 140 | plot.__doc__ = asapplotter.plot.__doc__
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| 141 |
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| 142 | @asaplog_post_dec
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| 143 | def _plot(self, scan):
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| 144 | self._plot_with_flag(scan,self._showflagged)
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| 145 | #asapplotter._plot(self,scan)
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| 146 | # rescale x-range of subplots 5% margins
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| 147 | ganged = (self._plotter.axes._sharex != None)
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| 148 | if ganged:
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| 149 | np = 1
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| 150 | else:
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| 151 | np = len(self._plotter.subplots)
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| 152 | for ip in xrange(np):
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| 153 | ax = self._plotter.subplots[ip]['axes']
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| 154 | lim0 = ax.get_xlim()
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| 155 | offset = (lim0[1]-lim0[0])*0.05
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| 156 | ax.set_xlim(lim0[0]-offset,lim0[1]+offset)
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| 157 | del ax, lim0, offset
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| 158 | _plot.__doc__ = asapplotter._plot.__doc__
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| 159 |
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| 160 |
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| 161 | @asaplog_post_dec
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| 162 | def _plot_with_flag(self, scan, showflag=False):
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| 163 | # total number of panles to plot as a whole
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| 164 | nptot = scan.nrow()
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| 165 | # remaining panels to plot
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| 166 | n = nptot - self._ipanel - 1
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| 167 | ganged = False
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| 168 | maxpanel = 25
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| 169 |
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| 170 | if n > 1:
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| 171 | ganged = rcParams['plotter.ganged']
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| 172 | if self._rows and self._cols:
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| 173 | n = min(n,self._rows*self._cols)
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| 174 | self._plotter.set_panels(rows=self._rows,cols=self._cols,
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| 175 | nplots=n,margin=self._margins,ganged=ganged)
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| 176 | else:
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| 177 | n = min(n,maxpanel)
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| 178 | self._plotter.set_panels(rows=n,cols=0,nplots=n,margin=self._margins,ganged=ganged)
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| 179 | else:
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| 180 | self._plotter.set_panels(margin=self._margins)
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| 181 | #r = 0
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| 182 | r = self._startrow
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| 183 | # total row number of scantable
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| 184 | nr = scan.nrow()
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| 185 | panelcount = 0
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| 186 | allylim = []
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| 187 | allxlim = []
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| 188 |
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| 189 | while r < nr:
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| 190 | # always plot to new panel
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| 191 | self._plotter.subplot(panelcount)
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| 192 | self._plotter.palette(0)
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| 193 | # title and axes labels
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| 194 | xlab = self._abcissa and self._abcissa[panelcount] \
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| 195 | or scan._getabcissalabel()
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| 196 | if self._offset and not self._abcissa:
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| 197 | xlab += " (relative)"
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| 198 | ylab = self._ordinate and self._ordinate[panelcount] \
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| 199 | or scan._get_ordinate_label()
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| 200 | self._plotter.set_axes('xlabel', xlab)
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| 201 | self._plotter.set_axes('ylabel', ylab)
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| 202 | lbl = self._get_label(scan, r, mode='title', userlabel=self._title)
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| 203 | if type(lbl) in (list, tuple):
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| 204 | if 0 <= panelcount < len(lbl):
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| 205 | lbl = lbl[panelcount]
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| 206 | else:
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| 207 | # get default label
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| 208 | lbl = self._get_label(scan, r, 'title')
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| 209 | self._plotter.set_axes('title',lbl)
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| 210 | panelcount += 1
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| 211 | # Now get data to plot
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| 212 | y = scan._getspectrum(r)
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| 213 | # Check for FLAGROW column
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| 214 | mr = scan._getflagrow(r)
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| 215 | from numpy import ma, array
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| 216 | if mr:
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| 217 | ys = ma.masked_array(y,mask=mr)
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| 218 | if showflag:
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| 219 | yf = ma.masked_array(y, mask=(not mr))
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| 220 | else:
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| 221 | m = scan._getmask(r)
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| 222 | from numpy import logical_not, logical_and
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| 223 | if self._maskselection and len(self._usermask) == len(m):
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| 224 | if d[self._stacking](r) in self._maskselection[self._stacking]:
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| 225 | m = logical_and(m, self._usermask)
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| 226 | ys = ma.masked_array(y,mask=logical_not(array(m,copy=False)))
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| 227 | if showflag:
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| 228 | yf = ma.masked_array(y,mask=m)
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| 229 |
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| 230 | x = array(scan._getabcissa(r))
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| 231 | if self._offset:
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| 232 | x += self._offset
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| 233 | #llbl = self._get_label(scan, r, mode='legend', userlabel=self._lmap)
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| 234 | #if type(llbl) in (list, tuple):
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| 235 | # llbl = llbl[0]
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| 236 | #self._plotter.set_line(label=llbl)
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| 237 | self._plotter.set_line(label="data")
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| 238 | #plotit = self._plotter.plot
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| 239 | #if self._hist: plotit = self._plotter.hist
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| 240 | self._plotter.plot(x,ys)
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| 241 | if showflag:
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| 242 | self._plotter.set_line(label="flagged")
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| 243 | self._plotter.plot(x,yf)
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| 244 | ylim = self._minmaxy or [min(y),max(y)]
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| 245 | xlim= self._minmaxx or [min(x),max(x)]
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| 246 | elif mr or ys.mask.all():
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| 247 | ylim = self._minmaxy or []
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| 248 | xlim = self._minmaxx or []
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| 249 | else:
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| 250 | ylim = self._minmaxy or [ma.minimum(ys),ma.maximum(ys)]
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| 251 | xlim= self._minmaxx or [min(x),max(x)]
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| 252 | allylim += ylim
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| 253 | allxlim += xlim
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| 254 | if (panelcount == n) or (r == nr-1):
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| 255 | break
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| 256 | r+=1 # next row
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| 257 |
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| 258 | # Set x- and y- limts of subplots
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| 259 | if ganged:
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| 260 | xlim = None
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| 261 | ylim = None
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| 262 | if len(allylim) > 0:
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| 263 | allylim.sort()
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| 264 | ylim = allylim[0],allylim[-1]
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| 265 | if len(allxlim) > 0:
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| 266 | allxlim.sort()
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| 267 | xlim = allxlim[0],allxlim[-1]
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| 268 | self._plotter.set_limits(xlim=xlim,ylim=ylim)
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| 269 |
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| 270 | # save the current counter for multi-page plotting
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| 271 | self._startrow = r+1
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| 272 | self._ipanel += panelcount
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| 273 | if self.casabar_exists():
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| 274 | if self._ipanel >= nptot-1:
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| 275 | self._plotter.figmgr.casabar.disable_next()
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| 276 | else:
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| 277 | self._plotter.figmgr.casabar.enable_next()
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| 278 | if self._ipanel + 1 - panelcount > 0:
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| 279 | self._plotter.figmgr.casabar.enable_prev()
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| 280 | else:
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| 281 | self._plotter.figmgr.casabar.disable_prev()
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| 282 |
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| 283 |
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| 284 |
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| 285 | def _get_label(self, scan, row, mode='title', userlabel=None):
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| 286 | if isinstance(userlabel, list) and len(userlabel) == 0:
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| 287 | userlabel = " "
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| 288 | elif not mode.upper().startswith('T'):
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| 289 | pms = dict(zip(self._selection.get_pols(), \
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| 290 | self._selection.get_poltypes()))
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| 291 | if len(pms):
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| 292 | poleval = scan._getpollabel(scan.getpol(row), \
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| 293 | pms[scan.getpol(row)])
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| 294 | else:
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| 295 | poleval = scan._getpollabel(scan.getpol(row),scan.poltype())
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| 296 | label = "IF%d, POL %s, Scan%d" % \
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| 297 | (scan.getif(row),poleval,scan.getscan(row))
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| 298 | else:
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| 299 | label = "row %d" % (row)
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| 300 |
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| 301 | return userlabel or label
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| 302 |
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| 303 |
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| 304 | def _is_new_scan(self,scan):
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| 305 | if isinstance(scan, scantable):
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| 306 | if self._data is not None:
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| 307 | if scan != self._data:
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| 308 | return True
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| 309 | else:
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| 310 | return True
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| 311 | return False
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