sys.exit(1)

    in_file = None
    in_dir = None
    filter_ = ""
    corr_measures = None
    columns = None
    log_file = None

    section = "evaluate_similarities"
    
    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        in_file = utils.config_get(section, config, "input", None) 
        in_dir = utils.config_get(section, config, "in_dir", None) 
        filter_ = utils.config_get(section, config, "filter", filter_) 
        corr_measures = utils.config_get(section, config, "correlation_measure", None) 
        if not corr_measures is None:
            corr_measures = corr_measures.split(",")
        columns = utils.config_get(section, config, "columns", None) 
        if not columns is None:
            columns = columns.split(",")
        log_file = utils.config_get(section, config, "log", None)  
        
    for opt, val in opts:
        if opt in ("-i", "--input"):
            in_file = val 
        elif opt in ("-m", "--correlation_measure"):
            corr_measures = val.split(",") 
Example #2
0

    out_dir = None
    in_file = None
    sim_measures = None
    spaces = None
    columns = None
    log_file = None
    in_dir = None
    section = "compute_similarities"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        in_dir = utils.config_get(section, config, "in_dir", None)
        sim_measures = utils.config_get(section, config, "sim_measures", None)
        if not sim_measures is None:
            sim_measures = sim_measures.split(",")
        spaces = utils.config_get(section, config, "space", None)
        if not spaces is None:
            spaces = spaces.split(",")
        columns = utils.config_get(section, config, "columns", None)
        if not columns is None:
            columns = columns.split(",")
        log_file = utils.config_get(section, config, "log", None)

    for opt, val in opts:
        if opt in ("-i", "--input"):
Example #3
0
    crossvalidation = "False"
    intercept = "True"
    param_range = None
    arg_space = None
    phrase_space = None
    export_params = "False"
    log_file = None
    param = None

    section = "train_composition"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        model = utils.config_get(section, config, "model", None)
        regression = utils.config_get(section, config, "regression", None)
        crossvalidation = utils.config_get(section, config, "crossvalidation",
                                           crossvalidation)
        intercept = utils.config_get(section, config, "intercept", intercept)
        param_range = utils.config_get(section, config, "lambda_range", None)
        if not param_range is None:
            param_range = param_range.split(",")
        param = utils.config_get(section, config, "lambda", None)
        arg_space = utils.config_get(section, config, "arg_space", None)
        if not arg_space is None:
            arg_space = arg_space.split(",")
        phrase_space = utils.config_get(section, config, "phrase_space", None)
        export_params = utils.config_get(section, config, "export_params",
Example #4
0
    in_file_prefix = None
    core_space_file = None
    log_file = "./build_core_space.log"
    in_format = None
    out_format = None
    core_in_dir = None
    core_filter = ""
    gz = "False"

    section = "build_peripheral_space"

    if len(argv) == 1:
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file_prefix = utils.config_get(section, config, "input", None)
        core_space_file = utils.config_get(section, config, "core", None)
        core_in_dir = utils.config_get(section, config, "core_in_dir", None)
        core_filter = utils.config_get(section, config, "core_filter", "")
        log_file = utils.config_get(section, config, "log", "./build_core_space.log")
        in_format = utils.config_get(section, config, "input_format", None)
        out_format = utils.config_get(section, config, "output_format", None)
        gz = utils.config_get(section, config, "gz", gz)

    for opt, val in opts:
        if opt in ("-i", "--input"):
            in_file_prefix = val
        elif opt in ("-o", "--output"):
            out_dir = val
        elif opt == "--gz":
 selections = [None]
 reductions = [None]
 normalizations = [None]
 log_file = None
 in_format = None
 out_format = None
 gz = "False"   
 section = "build_core_space"
      
 if len(argv) == 1:
     config_file = argv[0]
     with open(config_file) as f:
         pass
     config = ConfigParser()
     config.read(config_file)
     out_dir = utils.config_get(section, config, "output", None)
     in_file_prefix = utils.config_get(section, config, "input", None)
     weightings = utils.config_get(section, config, "weighting", [None])
     if not weightings == [None]:
         weightings = weightings.split(",") 
         
     selections = utils.config_get(section, config, "selection", [None]) 
     if not selections == [None]:
         selections = selections.split(",") 
     
     reductions = utils.config_get(section, config, "reduction", [None])
     if not reductions == [None]:
         reductions = reductions.split(",") 
     
     normalizations = utils.config_get(section, config, "normalization", [None])
     if not normalizations == [None]:
Example #6
0
        sys.exit(1)

    in_file = None
    in_dir = None
    filter_ = ""
    corr_measures = None
    columns = None
    log_file = None

    section = "evaluate_similarities"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        in_file = utils.config_get(section, config, "input", None)
        in_dir = utils.config_get(section, config, "in_dir", None)
        filter_ = utils.config_get(section, config, "filter", filter_)
        corr_measures = utils.config_get(section, config,
                                         "correlation_measure", None)
        if not corr_measures is None:
            corr_measures = corr_measures.split(",")
        columns = utils.config_get(section, config, "columns", None)
        if not columns is None:
            columns = columns.split(",")
        log_file = utils.config_get(section, config, "log", None)

    for opt, val in opts:
        if opt in ("-i", "--input"):
            in_file = val
        elif opt in ("-m", "--correlation_measure"):
    out_dir = None
    in_file = None
    sim_measure = None
    spaces = None
    log_file = None
    no_neighbours = "20"
    

    if (len(argv) == 1):
        config_file = argv[0]
        with open(config_file) as f:
            pass
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None) 
        in_file = utils.config_get(section, config, "input", None)
        sim_measure = utils.config_get(section, config, "sim_measure", None) 
        spaces = utils.config_get(section, config, "space", None)
        if not spaces is None:
            spaces = spaces.split(",")
        no_neighbours = utils.config_get(section, config, "no_neighbours", no_neighbours) 
        log_file = utils.config_get(section, config, "log", None) 
        
    for opt, val in opts:
        if opt in ("-i", "--input"):
            in_file = val 
        elif opt in ("-o", "--output"):
            out_dir = val 
        elif opt in ("-m", "--sim_measure"):
            sim_measure = val
    model = None
    arg_space = None
    trained_model = None
    alpha = None
    beta = None
    lambda_ = None
    log_file = None
    out_format = None 

    section = "apply_composition"          
    
    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        model = utils.config_get(section, config, "model", None)
        trained_model = utils.config_get(section, config, "load_model", None)
        arg_space = utils.config_get(section, config, "arg_space", None)
        if not arg_space is None:
            arg_space = arg_space.split(",")
        alpha = utils.config_get(section, config, "alpha", None)
        beta = utils.config_get(section, config, "beta", None)
        lambda_ = utils.config_get(section, config, "lambda", None)
        log_file = utils.config_get(section, config, "log", None)
        out_format = utils.config_get(section, config, "output_format", None)
       
    print opts            
    for opt, val in opts:
        if opt in ("-i", "--input"):
Example #9
0
    model = None
    arg_space = None
    trained_model = None
    alpha = None
    beta = None
    lambda_ = None
    log_file = None
    out_format = None

    section = "apply_composition"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        model = utils.config_get(section, config, "model", None)
        trained_model = utils.config_get(section, config, "load_model", None)
        arg_space = utils.config_get(section, config, "arg_space", None)
        if not arg_space is None:
            arg_space = arg_space.split(",")
        alpha = utils.config_get(section, config, "alpha", None)
        beta = utils.config_get(section, config, "beta", None)
        lambda_ = utils.config_get(section, config, "lambda", None)
        log_file = utils.config_get(section, config, "log", None)
        out_format = utils.config_get(section, config, "output_format", None)

    print opts
    for opt, val in opts:
        if opt in ("-i", "--input"):
Example #10
0
    out_dir = None
    in_file = None
    sim_measure = None
    spaces = None
    log_file = None
    no_neighbours = "20"


    if (len(argv) == 1):
        config_file = argv[0]
        with open(config_file) as f:
            pass
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        sim_measure = utils.config_get(section, config, "sim_measure", None)
        spaces = utils.config_get(section, config, "space", None)
        if not spaces is None:
            spaces = spaces.split(",")
        no_neighbours = utils.config_get(section, config, "no_neighbours", no_neighbours)
        log_file = utils.config_get(section, config, "log", None)

    for opt, val in opts:
        if opt in ("-i", "--input"):
            in_file = val
        elif opt in ("-o", "--output"):
            out_dir = val
        elif opt in ("-m", "--sim_measure"):
            sim_measure = val
Example #11
0
    crossvalidation = "False"
    intercept = "True"
    param_range = None
    arg_space = None
    phrase_space = None
    export_params= "False"
    log_file = None
    param = None

    section = "train_composition"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        model = utils.config_get(section, config, "model", None)
        regression = utils.config_get(section, config, "regression", None)
        crossvalidation = utils.config_get(section, config, "crossvalidation", crossvalidation)
        intercept = utils.config_get(section, config, "intercept", intercept)
        param_range = utils.config_get(section, config, "lambda_range", None)
        if not param_range is None:
            param_range = param_range.split(",")
        param = utils.config_get(section, config, "lambda", None)
        arg_space = utils.config_get(section, config, "arg_space", None)
        if not arg_space is None:
            arg_space = arg_space.split(",")
        phrase_space = utils.config_get(section, config, "phrase_space", None)
        export_params = utils.config_get(section, config, "export_params", export_params)
        log_file = utils.config_get(section, config, "log", None)
Example #12
0
        sys.exit(1)

    out_dir = None
    in_file = None
    sim_measures = None
    spaces = None
    columns = None
    log_file = None
    in_dir = None
    section = "compute_similarities"

    if (len(argv) == 1):
        config_file = argv[0]
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file = utils.config_get(section, config, "input", None)
        in_dir = utils.config_get(section, config, "in_dir", None)
        sim_measures = utils.config_get(section, config, "sim_measures", None)
        if not sim_measures is None:
            sim_measures = sim_measures.split(",")
        spaces = utils.config_get(section, config, "space", None)
        if not spaces is None:
            spaces = spaces.split(",")
        columns = utils.config_get(section, config, "columns", None)
        if not columns is None:
            columns = columns.split(",")
        log_file = utils.config_get(section, config, "log", None)

    for opt, val in opts:
        if opt in ("-i", "--input"):
Example #13
0
    selections = [None]
    reductions = [None]
    normalizations = [None]
    log_file = None
    in_format = None
    out_format = None
    gz = "False"
    section = "build_core_space"

    if len(argv) == 1:
        config_file = argv[0]
        with open(config_file) as f:
            pass
        config = ConfigParser()
        config.read(config_file)
        out_dir = utils.config_get(section, config, "output", None)
        in_file_prefix = utils.config_get(section, config, "input", None)
        weightings = utils.config_get(section, config, "weighting", [None])
        if not weightings == [None]:
            weightings = weightings.split(",")

        selections = utils.config_get(section, config, "selection", [None])
        if not selections == [None]:
            selections = selections.split(",")

        reductions = utils.config_get(section, config, "reduction", [None])
        if not reductions == [None]:
            reductions = reductions.split(",")

        normalizations = utils.config_get(section, config, "normalization",
                                          [None])