| 11 | | import re |
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| 12 | | dataPattern = re.compile('\$') # samples in file are terminated by $ |
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| 13 | | samples = dataPattern.split(data) |
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| 14 | | self.samples = [sample for sample in samples if sample] |
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| | 13 | object.__init__(self) |
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| | 14 | # samples in file are terminated by $ |
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| | 15 | self.samples = [Sample(sample) for sample in [sample.strip() for sample in data.split('$')] if sample] |
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| | 16 | |
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| | 17 | class Sample(object): |
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| | 18 | """A single sample from daily sodar file data (a header and a body)""" |
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| | 19 | def __init__(self,sample): |
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| | 20 | object.__init__(self) |
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| | 21 | # first three groups of lines are the header; rest is body |
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| | 22 | samplePattern = re.compile(r'''(?P<header>.*?\n\n.*?\n\n.*?\n\n) |
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| | 23 | (?P<body>.*$) |
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| | 24 | ''',re.DOTALL | re.VERBOSE) |
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| | 25 | self.__dict__.update(samplePattern.match(sample.strip()).groupdict()) |
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| | 26 | # fix for missing keys |
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| | 27 | self.header = Header(self.header) |
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| | 28 | |
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| | 29 | class Header(object): |
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| | 30 | """A sodar data sample header (a collection of sample-wide parameters)""" |
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| | 31 | def __init__(self,header): |
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| | 32 | object.__init__(self) |
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| | 33 | headerLines = [headerLine.strip() for headerLine in header.split('\n') if headerLine] |
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| | 34 | # every other line contains parameter names; every other line contains parameter values |
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| | 35 | parametersPairs = [(headerLine,headerLines[headerLines.index(headerLine)+1]) for headerLine in headerLines[::2]] |
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| | 36 | for parameterNames,parameterValues in parametersPairs: |
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| | 37 | # parameter names must be valid Python identifiers for named groups matching |
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| | 38 | parameterNames = [parameterName.strip('#') for parameterName in parameterNames.split()] |
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| | 39 | parameterPattern = re.compile(r'(?P<'+'>\S+)\s+(?P<'.join(parameterNames)+'>.*$)') |
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| | 40 | self.__dict__.update(parameterPattern.match(parameterValues).groupdict()) |
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