config¶
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class
integron_finder.config.
Config
(args)[source]¶ Config object hold values issue from command lines
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__weakref__
¶ list of weak references to the object (if defined)
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default_topology
¶ The default topology available values are: ‘circ’ for circular or ‘lin’ for linear.
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func_annot_path
¶ The canonical absolute path to the directory containing file needed for the functional annotation. It does not take in account the argument passed via the command line.
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input_dir
¶ The absolute path to the directory where is located the replicon
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log_level
¶ Returns: the level to apply to loggers. 0 <= level <=50 Return type: int
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model_attc_name
¶ The name of the attc model
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model_attc_path
¶ The absolute path to the attC model file
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model_dir
¶ The absolute path to the directory containing the models
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model_integrase
¶ The absolute path to the integrase model file
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model_len
¶ Returns: The length of the attc model (corresponding to CLEN field). Raises: IOError if model_attc_path does match an existing file RuntimeError if the file doe not content CLEN field.
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outdir
¶ The absolute path where to write the results directory
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replicon_path
¶ The absolute path to the replicon
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result_dir
¶ The absolute path to results directory
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