116 lines
5.0 KiB
Python
Executable File
116 lines
5.0 KiB
Python
Executable File
#!/usr/bin/env python2.7
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# -*- coding: UTF-8 no BOM -*-
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import os,sys
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import numpy as np
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from optparse import OptionParser
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import damask
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scriptName = os.path.splitext(os.path.basename(__file__))[0]
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scriptID = ' '.join([scriptName,damask.version])
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# --------------------------------------------------------------------
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# MAIN
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# --------------------------------------------------------------------
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parser = OptionParser(option_class=damask.extendableOption, usage='%prog options [file[s]]', description = """
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Add data of selected column(s) from (first) row of linked ASCIItable that shares the linking column value.
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""", version = scriptID)
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parser.add_option('--link',
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dest = 'link', nargs = 2,
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type = 'string', metavar = 'string string',
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help = 'column labels containing linked values')
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parser.add_option('-l','--label',
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dest = 'label',
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action = 'extend', metavar = '<string LIST>',
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help = 'column label(s) to add from linked ASCIItable')
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parser.add_option('-a','--asciitable',
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dest = 'asciitable',
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type = 'string', metavar = 'string',
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help = 'linked ASCIItable')
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parser.set_defaults()
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(options,filenames) = parser.parse_args()
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if options.label is None:
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parser.error('no data columns specified.')
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if options.link is None:
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parser.error('no linking columns given.')
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# -------------------------------------- process linked ASCIItable --------------------------------
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if options.asciitable is not None and os.path.isfile(options.asciitable):
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linkedTable = damask.ASCIItable(name = options.asciitable,
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buffered = False,
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readonly = True)
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linkedTable.head_read() # read ASCII header info of linked table
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linkDim = linkedTable.label_dimension(options.link[1]) # dimension of linking column
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missing_labels = linkedTable.data_readArray([options.link[1]]+options.label) # try reading linked ASCII table
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linkedTable.close() # close linked ASCII table
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if len(missing_labels) > 0:
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damask.util.croak('column{} {} not found...'.format('s' if len(missing_labels) > 1 else '',', '.join(missing_labels)))
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if len(missing_labels) >= len(options.label):
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damask.util.croak('aborting...')
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sys.exit()
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index = linkedTable.data[:,:linkDim]
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data = linkedTable.data[:,linkDim:]
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else:
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parser.error('no linked ASCIItable given.')
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# --- loop over input files -----------------------------------------------------------------------
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if filenames == []: filenames = [None]
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for name in filenames:
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try: table = damask.ASCIItable(name = name,
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buffered = False)
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except: continue
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damask.util.report(scriptName,"{} {} <== {} {}".format(name,damask.util.deemph('@ '+options.link[0]),
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options.asciitable,damask.util.deemph('@ '+options.link[1])))
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# ------------------------------------------ read header ------------------------------------------
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table.head_read()
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# ------------------------------------------ sanity checks ----------------------------------------
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errors = []
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myLink = table.label_index (options.link[0])
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myLinkDim = table.label_dimension(options.link[0])
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if myLink < 0: errors.append('linking column {} not found.'.format(options.link[0]))
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if myLinkDim != linkDim: errors.append('dimension mismatch for column {}.'.format(options.link[0]))
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if errors != []:
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damask.util.croak(errors)
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table.close(dismiss = True)
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continue
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# ------------------------------------------ assemble header --------------------------------------
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table.info_append(scriptID + '\t' + ' '.join(sys.argv[1:]))
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table.labels_append(linkedTable.labels(raw = True)[linkDim:]) # extend with new labels (except for linked column)
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table.head_write()
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# ------------------------------------------ process data ------------------------------------------
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outputAlive = True
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while outputAlive and table.data_read(): # read next data line of ASCII table
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try:
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table.data_append(data[np.argwhere(np.all((map(float,table.data[myLink:myLink+myLinkDim]) - index)==0,axis=1))[0]]) # add data of first matching line
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except IndexError:
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table.data_append(np.nan*np.ones_like(data[0])) # or add NaNs
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outputAlive = table.data_write() # output processed line
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# ------------------------------------------ output finalization -----------------------------------
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table.close() # close ASCII tables
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