Mercurial > repos > bgruening > sklearn_feature_selection

comparison feature_selection.xml @ 9:537c6763c018 draft

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planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit f54ff2ba2f8e7542d68966ce5a6b17d7f624ac48
author bgruening
date Fri, 13 Jul 2018 03:55:31 -0400
parents b0d554b38770
children 96f9b73327f2
comparison
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8:38faa5ade609 9:537c6763c018
26 @COLUMNS_FUNCTION@ 26 @COLUMNS_FUNCTION@
27 27
28 @FEATURE_SELECTOR_FUNCTION@ 28 @FEATURE_SELECTOR_FUNCTION@
29 29
30 input_json_path = sys.argv[1] 30 input_json_path = sys.argv[1]
31 params = json.load(open(input_json_path, "r")) 31 with open(input_json_path, "r") as param_handler:
32 params = json.load(param_handler)
32 33
33 ## Read features 34 ## Read features
34 features_has_header = params["input_options"]["header1"] 35 features_has_header = params["input_options"]["header1"]
35 input_type = params["input_options"]["selected_input"] 36 input_type = params["input_options"]["selected_input"]
36 if input_type=="tabular": 37 if input_type=="tabular":
48 sep='\t', 49 sep='\t',
49 header=header, 50 header=header,
50 parse_dates=True 51 parse_dates=True
51 ) 52 )
52 else: 53 else:
53 X = mmread(open("$input_options.infile1", 'r')) 54 X = mmread("$input_options.infile1")
54 55
55 ## Read labels 56 ## Read labels
56 header = 'infer' if params["input_options"]["header2"] else None 57 header = 'infer' if params["input_options"]["header2"] else None
57 column_option = params["input_options"]["column_selector_options_2"]["selected_column_selector_option2"] 58 column_option = params["input_options"]["column_selector_options_2"]["selected_column_selector_option2"]
58 if column_option in ["by_index_number", "all_but_by_index_number", "by_header_name", "all_but_by_header_name"]: 59 if column_option in ["by_index_number", "all_but_by_index_number", "by_header_name", "all_but_by_header_name"]: