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orbit31_viewer.py
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orbit31_viewer.py
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# -*- coding: iso-8859-1 -*-
import ConfigParser
import sys
import argparse
import logging
import h5py
import numpy
import wx
from viewers import GUIViewer, DumpingViewer
import envisat
import sciamachy_module
#- functions -------------------------------------------------------------------
"""
orbit viewer for SDMF3.1 products.
class that plots various types of SDMF data per pixel for each detector channel.
plots a single orbit of data. chooses daily/weekly calibration orbit closest to
the user-specified uses Viewer class to do the actual visualisation. uses config
file and handles command-line arguments.
author: Pieter van der Meer, SRON, 2011
"""
class OrbitViewer():
def __init__(self):
# Indicate data isn't loaded yet.
self.loaded = False
self.datatypes = ['ao','dc','suntrans','wlstrans','ppg','mask']
self.datanames = ['Analog offset','Dark current','Sun-over-ESM transmission','WLS transmission','Pixel-to-pixel gain','Dead pixel mask']
self.units = ['(BU)','(BU/s)','[%]','[%]','','']
#
# Get arguments from command line, and set defaults
#
parser = argparse.ArgumentParser(description=
'Displays SDMF3.1 products per channel')
parser.add_argument('-o', '--output', dest='output_fname', type=str)
parser.add_argument('--config', dest='config_file', type=file,
default='default3.1.cfg')
parser.add_argument('-v', '--verbose', dest='verbose',
action='store_true')
parser.add_argument('-V', '--version', action='version',
version='%(prog)s 0.1')
parser.add_argument('--noscreen', action='store_true')
parser.add_argument('--orbit', default='19820',
help='sets orbit number', type=int)
# parameters used especially for the plot
parser.add_argument('--data', action='store', type=str, default='ao',
help='data type to display', choices=self.datatypes)
parser.add_argument('-l', '--legend', action='store_true',
dest='legend', help='displays legend')
parser.add_argument('-c', '--channel', default='1',
help='sets detector channel', choices=sciamachy_module.channels)
self.args = parser.parse_args()
data = self.args.data
#
# Parse config file, exit if unsuccessful
#
try:
self.cfg = self.get_config(self.args.config_file)
except ConfigParser.NoOptionError, ex:
msg = "There was a missing option in the configuration file '"
logging.exception(msg+str(self.args.config_file)+"'!")
raise
#
# set default channel
#
self.chan_idx = (numpy.where(numpy.array(sciamachy_module.channels)
== self.args.channel))[0]
#
# set plot parameters for user-specified data type
#
idx = (numpy.where(numpy.array(self.datatypes) == data))[0]
self.dataname = self.datanames[idx]
self.dataunit = self.units[idx]
#
# load spectra of user-specified type
#
if data == 'ppg':
fname = self.cfg['db_dir']+self.cfg['ppg_fname']
fdat = h5py.File(fname, 'r')
self.orbits = fdat['orbitList'][:]
dset = fdat['pixelGain']
elif data == 'dc':
fname = self.cfg['db_dir']+self.cfg['dark_fname']
fdat = h5py.File(fname, 'r')
n_orbits = len(fdat['DarkFit/metaTable'])
self.orbits = numpy.arange(n_orbits, dtype=int)
dset = fdat['DarkFit/darkCurrent']
elif data == 'ao':
fname = self.cfg['db_dir']+self.cfg['dark_fname']
fdat = h5py.File(fname, 'r')
n_orbits = len(fdat['DarkFit/metaTable'])
self.orbits = numpy.arange(n_orbits, dtype=int)
dset = fdat['DarkFit/analogOffset']
elif data == 'suntrans':
fname = self.cfg['db_dir']+self.cfg['transmission_fname']
fdat = h5py.File(fname, 'r')
self.orbits = fdat['Transmission/orbitList'][:]
dset = fdat['Transmission/transmission']
elif data == 'wlstrans':
fname = self.cfg['db_dir']+self.cfg['transmission_fname']
fdat = h5py.File(fname, 'r')
self.orbits = fdat['WLStransmission/orbitList'][:]
dset = fdat['WLStransmission/transmission']
elif data == 'mask':
fname = self.cfg['db_dir']+self.cfg['pixelmask_fname']
fdat = h5py.File(fname, 'r')
self.orbits = fdat['orbitalMask/orbitList'][:]
criteria = sciamachy_module.mask_criteria
dset0 = fdat['orbitalMask/'+criteria[0]]
dset1 = fdat['orbitalMask/'+criteria[1]]
dset2 = fdat['orbitalMask/'+criteria[2]]
dset3 = fdat['orbitalMask/'+criteria[3]]
dset4 = fdat['orbitalMask/'+criteria[4]]
dset5 = fdat['orbitalMask/'+criteria[5]]
else:
raise ValueError("unknown data type!")
# find closest index
dist = numpy.abs(self.orbits - self.args.orbit)
indices = numpy.argsort(dist)
# idx = numpy.where(self.orbits == self.args.orbit)
idx = indices[0]
self.orbit = self.orbits[idx]
# print "idx=",idx
if data == 'dc' or data == 'ao':
self.dat = dset[idx,:]
elif data == 'mask':
self.dat1 = dset0[:,idx].astype(float)
self.dat2 = dset1[:,idx].astype(float)
self.dat3 = dset2[:,idx].astype(float)
self.dat4 = dset3[:,idx].astype(float)
self.dat5 = dset4[:,idx].astype(float)
self.dat6 = dset5[:,idx].astype(float)
idx_ = numpy.where(self.dat1 == 0)
self.dat1[idx_] = numpy.nan
idx_ = numpy.where(self.dat2 == 0)
self.dat2[idx_] = numpy.nan
idx_ = numpy.where(self.dat3 == 0)
self.dat3[idx_] = numpy.nan
idx_ = numpy.where(self.dat4 == 0)
self.dat4[idx_] = numpy.nan
idx_ = numpy.where(self.dat5 == 0)
self.dat5[idx_] = numpy.nan
idx_ = numpy.where(self.dat6 == 0)
self.dat6[idx_] = numpy.nan
else:
self.dat = dset[:,idx]
fdat.close()
#
# Pass control options on to GUIViewer
#
if self.args.noscreen:
self.view = DumpingViewer(self.args.output_fname, self)
else:
control_params = [{'name':'channel','action_descr':'Choose channel',
'handler':self.OnChannel,'type':'str'},
{'name':'legend','action_descr':'Show legend',
'handler':self.OnToggleLegend,'type':'bool',
'value':self.args.legend}]
self.view = GUIViewer(self, title="PPG spectra",
image_basename=self.args.output_fname,
params=control_params)
# load configuration from file
def get_config(self, config_file):
parser=ConfigParser.SafeConfigParser()
parser.readfp(config_file)
dict = {}
dict['db_dir'] = parser.get('Global','masterdirectory')
dict['ppg_fname'] = parser.get('Global','ppg_file')
dict['dark_fname'] = parser.get('Global','dark_file')
dict['pixelmask_fname'] = parser.get('Global','pixelmask_official')
dict['transmission_fname'] = parser.get('Global','transmission_file')
return dict
# set parameter
def set_param(self, name, value):
if name == 'channel':
#print value
self.chan_idx = (numpy.where(numpy.array(sciamachy_module.channels)==value))[0]
#print numpy.where(self.channels == value)
self.args.channel = value
self.load()
else:
print "unknown parameter "+name
# loads data and store it for use in 'plot' method.
def load(self):
# dummy.. do everything at the initialisation as it's really not much
# data
self.loaded = True
# plot method. this should be about the same as in your stand-alone script.
# use input object 'fig' as a subplot (axis) object to plot with.
def display(self, fig):
#
# load data
#
if not self.loaded:
self.load()
pixrange = sciamachy_module.pixranges[self.chan_idx] # pixels in sel. channel
#
# plot data
#
ylabel = self.args.data.upper()+" "+self.dataunit
fig.cla()
fig.set_title(self.dataname+" in channel "+self.args.channel
+", orbit "+str(self.orbit)+"\n")
fig.set_xlabel("Pixel number")
fig.set_ylabel(ylabel)
if self.args.data == 'mask':
criteria = sciamachy_module.mask_criteria
fig.set_yticks((6,5,4,3,2,1))
labels = fig.set_yticklabels(criteria)
fig.scatter(pixrange,self.dat1[pixrange]+5,color='k',s=1,label=criteria[0])
fig.scatter(pixrange,self.dat2[pixrange]+4,color='r',s=1,label=criteria[1])
fig.scatter(pixrange,self.dat3[pixrange]+3,color='g',s=1,label=criteria[2])
fig.scatter(pixrange,self.dat4[pixrange]+2,color='b',s=1,label=criteria[3])
fig.scatter(pixrange,self.dat5[pixrange]+1,color='m',s=1,label=criteria[4])
fig.scatter(pixrange,self.dat6[pixrange]+0,color='y',s=1,label=criteria[5])
else:
fig.scatter(pixrange,self.dat[pixrange],color='r',s=1,label=ylabel)
#x1, x2 = fig.get_xlim()
# fig.set_xlim((0,1024))
fig.set_xlim((pixrange.min(),pixrange.max()))
fig.grid(True)
#fig.grid(True,which='minor')
if self.args.legend:
fig.legend(loc='upper left', scatterpoints=10)
#fig.legend()
# execute this when Show legend check box is clicked
def OnToggleLegend(self, event):
self.args.legend = not self.args.legend
self.view.refresh_plot()
# execute this when Options->Choose channel is selected
def OnChannel(self, event):
# Create a list of choices
choices = sciamachy_module.channels
# Create the dialog
dialog = wx.SingleChoiceDialog(None, 'Pick Channel...',
'Channel Picker', choices)
# Show the dialog
ret = dialog.ShowModal()
if ret == wx.ID_OK:
chan = dialog.GetStringSelection()
self.set_param('channel', chan)
self.view.refresh_plot()
# Destroy the dialog
dialog.Destroy()
#- main code -------------------------------------------------------------------
if __name__ == '__main__':
# Every wxWidgets application must have a class derived from wx.App
class TestApp(wx.App):
# wxWindows calls this method to initialize the application
def OnInit(self):
return True
view = OrbitViewer()
app = TestApp(0)
app.MainLoop()