Mercurial > repos > bgruening > sklearn_model_validation
changeset 5:510aa2ce035e draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit cd4a8b019168acd5a513c57a1b1f380622f230f6
| author | bgruening |
|---|---|
| date | Sun, 01 Jul 2018 03:21:23 -0400 |
| parents | 60b8a683ba99 |
| children | 8518fdc23c7e |
| files | main_macros.xml model_validation.xml test-data/feature_selection_result11 test-data/test3.tabular |
| diffstat | 4 files changed, 118 insertions(+), 4 deletions(-) [+] |
line wrap: on
line diff
--- a/main_macros.xml Wed Jun 06 17:44:36 2018 -0400 +++ b/main_macros.xml Sun Jul 01 03:21:23 2018 -0400 @@ -10,6 +10,12 @@ if c_option == 'all_but_by_index_number': cols = list(map(lambda x: x - 1, c)) data.drop(data.columns[cols], axis=1, inplace=True) + if c_option == 'by_header_name': + cols = [e.strip() for e in c.split(',')] + data = data[cols] + if c_option == 'all_but_by_header_name': + cols = [e.strip() for e in c.split(',')] + data.drop(cols, axis=1, inplace=True) y = data.values if return_df: return y, data @@ -446,17 +452,23 @@ <xml name="samples_column_selector_options" token_column_option="selected_column_selector_option" token_col_name="col1" token_multiple="False" token_infile="infile1"> <param name="@COLUMN_OPTION@" type="select" label="Choose how to select data by column:"> <option value="by_index_number" selected="true">Select columns by column index number(s)</option> - <!--<option value="by_header_name">Select columns by column header name(s)</option>--> + <option value="by_header_name">Select columns by column header name(s)</option> <option value="all_but_by_index_number">All columns but by column index number(s)</option> - <!--<option value="all_but_by_header_name">All columns but by column header name(s)</option> --> + <option value="all_but_by_header_name">All columns but by column header name(s)</option> <option value="all_columns">All columns</option> </param> <when value="by_index_number"> <param name="@COL_NAME@" multiple="@MULTIPLE@" type="data_column" data_ref="@INFILE@" label="Select target column(s):"/> </when> + <when value="by_header_name"> + <param name="@COL_NAME@" type="text" value="" label="Type header name(s):" help="String seperate by colon. For example: target1,target2"/> + </when> <when value="all_but_by_index_number"> <param name="@COL_NAME@" multiple="@MULTIPLE@" type="data_column" data_ref="@INFILE@" label="Select target column(s):"/> </when> + <when value="all_but_by_header_name"> + <param name="@COL_NAME@" type="text" value="" label="Type header name(s):" help="String seperate by colon. For example: target1,target2"/> + </when> <when value="all_columns"> </when> </xml>
--- a/model_validation.xml Wed Jun 06 17:44:36 2018 -0400 +++ b/model_validation.xml Sun Jul 01 03:21:23 2018 -0400 @@ -36,7 +36,7 @@ if input_type=="tabular": header = 'infer' if params["input_options"]["header1"] else None column_option = params["input_options"]["column_selector_options_1"]["selected_column_selector_option"] - if column_option in ["by_index_number", "all_but_by_index_number"]: + if column_option in ["by_index_number", "all_but_by_index_number", "by_header_name", "all_but_by_header_name"]: c = params["input_options"]["column_selector_options_1"]["col1"] else: c = None @@ -53,7 +53,7 @@ header = 'infer' if params["input_options"]["header2"] else None column_option = params["input_options"]["column_selector_options_2"]["selected_column_selector_option2"] -if column_option in ["by_index_number", "all_but_by_index_number"]: +if column_option in ["by_index_number", "all_but_by_index_number", "by_header_name", "all_but_by_header_name"]: c = params["input_options"]["column_selector_options_2"]["col2"] else: c = None
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result11 Sun Jul 01 03:21:23 2018 -0400 @@ -0,0 +1,51 @@ +Race AIDS Total +4.0 2555.0 14443382.0 +4.0 55300.0 14704293.0 +4.0 82334.0 16641977.0 +4.0 38006.0 13888285.0 +4.0 16068.0 21845911.0 +2.0 2489.0 2367256.0 +2.0 34204.0 2410019.0 +2.0 51776.0 2727604.0 +2.0 23896.0 2276276.0 +2.0 10169.0 3580523.0 +3.0 1363.0 1542563.0 +3.0 20712.0 1570428.0 +3.0 27200.0 1777374.0 +3.0 11251.0 1483278.0 +3.0 4674.0 2333158.0 +1.0 38.0 699627.0 +1.0 731.0 712265.0 +1.0 1162.0 806125.0 +1.0 560.0 672738.0 +1.0 258.0 1058200.0 +0.0 26.0 169115.0 +0.0 390.0 172170.0 +0.0 417.0 194858.0 +0.0 140.0 162616.0 +0.0 48.0 255790.0 +4.0 490.0 14999423.0 +4.0 4788.0 15270378.0 +4.0 5377.0 17282659.0 +4.0 2152.0 14422956.0 +4.0 1790.0 22686934.0 +2.0 1490.0 2458391.0 +2.0 12280.0 2502800.0 +2.0 15713.0 2832611.0 +2.0 5788.0 2363908.0 +2.0 2534.0 3718366.0 +3.0 493.0 1601948.0 +3.0 4660.0 1630887.0 +3.0 5153.0 1845800.0 +3.0 1944.0 1540381.0 +3.0 910.0 2422980.0 +1.0 6.0 726561.0 +1.0 83.0 739686.0 +1.0 106.0 837159.0 +1.0 69.0 698637.0 +1.0 55.0 1098938.0 +0.0 3.0 175626.0 +0.0 78.0 178798.0 +0.0 77.0 202360.0 +0.0 31.0 168876.0 +0.0 14.0 265637.0
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/test3.tabular Sun Jul 01 03:21:23 2018 -0400 @@ -0,0 +1,51 @@ +Age Race AIDS Total target +0 4 2555.0 14443382.0 1 +1 4 55300.0 14704293.0 1 +2 4 82334.0 16641977.0 1 +3 4 38006.0 13888285.0 1 +4 4 16068.0 21845911.0 1 +0 2 2489.0 2367256.0 1 +1 2 34204.0 2410019.0 1 +2 2 51776.0 2727604.0 1 +3 2 23896.0 2276276.0 1 +4 2 10169.0 3580523.0 1 +0 3 1363.0 1542563.0 1 +1 3 20712.0 1570428.0 1 +2 3 27200.0 1777374.0 1 +3 3 11251.0 1483278.0 1 +4 3 4674.0 2333158.0 1 +0 1 38.0 699627.0 1 +1 1 731.0 712265.0 1 +2 1 1162.0 806125.0 1 +3 1 560.0 672738.0 1 +4 1 258.0 1058200.0 1 +0 0 26.0 169115.0 1 +1 0 390.0 172170.0 1 +2 0 417.0 194858.0 1 +3 0 140.0 162616.0 1 +4 0 48.0 255790.0 1 +0 4 490.0 14999423.0 0 +1 4 4788.0 15270378.0 0 +2 4 5377.0 17282659.0 0 +3 4 2152.0 14422956.0 0 +4 4 1790.0 22686934.0 0 +0 2 1490.0 2458391.0 0 +1 2 12280.0 2502800.0 0 +2 2 15713.0 2832611.0 0 +3 2 5788.0 2363908.0 0 +4 2 2534.0 3718366.0 0 +0 3 493.0 1601948.0 0 +1 3 4660.0 1630887.0 0 +2 3 5153.0 1845800.0 0 +3 3 1944.0 1540381.0 0 +4 3 910.0 2422980.0 0 +0 1 6.0 726561.0 0 +1 1 83.0 739686.0 0 +2 1 106.0 837159.0 0 +3 1 69.0 698637.0 0 +4 1 55.0 1098938.0 0 +0 0 3.0 175626.0 0 +1 0 78.0 178798.0 0 +2 0 77.0 202360.0 0 +3 0 31.0 168876.0 0 +4 0 14.0 265637.0 0