| Previous changeset 5:f93e7b870023 (2018-04-10) Next changeset 7:18e0d7099c0b (2018-04-28) |
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Commit message:
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 7a31960686122d7e53054fef4996525f04ebd254 |
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modified:
main_macros.xml |
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added:
test-data/feature_selection_result01 test-data/feature_selection_result02 test-data/feature_selection_result03 test-data/feature_selection_result04 test-data/feature_selection_result05 test-data/feature_selection_result06 test-data/feature_selection_result07 test-data/feature_selection_result08 test-data/feature_selection_result09 test-data/feature_selection_result10 |
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| diff -r f93e7b870023 -r 72cdeb46d398 main_macros.xml --- a/main_macros.xml Tue Apr 10 15:20:19 2018 -0400 +++ b/main_macros.xml Thu Apr 12 08:24:38 2018 -0400 |
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| @@ -787,6 +787,53 @@ </when> <yield/> </xml> + <xml name="feature_selection_score_function"> + <param argument="score_func" type="select" label="Select a score function"> + <option value="chi2">chi2 - Compute chi-squared stats between each non-negative feature and class</option> + <option value="f_classif">f_classif - Compute the ANOVA F-value for the provided sample</option> + <option value="f_regression">f_regression - Univariate linear regression tests</option> + <option value="mutual_info_classif">mutual_info_classif - Estimate mutual information for a discrete target variable</option> + <option value="mutual_info_regression">mutual_info_regression - Estimate mutual information for a continuous target variable</option> + </param> + </xml> + <xml name="feature_selection_estimator"> + <param argument="estimator" type="select" label="Select an estimator" help="The base estimator from which the transformer is built."> + <option value="svm.SVR(kernel="linear")">svm.SVR(kernel="linear")</option> + <option value="svm.SVC(kernel="linear")">svm.SVC(kernel="linear")</option> + <option value="svm.LinearSVC(penalty="l1", dual=False, tol=1e-3)">svm.LinearSVC(penalty="l1", dual=False, tol=1e-3)</option> + <option value="linear_model.LassoCV()">linear_model.LassoCV()</option> + <option value="ensemble.RandomForestRegressor(n_estimators = 1000, random_state = 42)">ensemble.RandomForestRegressor(n_estimators = 1000, random_state = 42)</option> + </param> + </xml> + <xml name="feature_selection_extra_estimator"> + <param name="has_estimator" type="select" label="Does your estimator on the list above?"> + <option value="yes">Yes, my estimator is on the list</option> + <option value="no">No, I need make a new estimator</option> + <yield/> + </param> + </xml> + <xml name="feature_selection_estimator_choices"> + <when value="yes"> + </when> + <when value="no"> + <param name="new_estimator" type="text" value="" label="Make a new estimator" /> + </when> + <yield/> + </xml> + <xml name="feature_selection_methods"> + <conditional name="select_methods"> + <param name="selected_method" type="select" label="Select an operation"> + <option value="fit_transform">fit_transform - Fit to data, then transform it</option> + <option value="get_support">get_support - Get a mask, or integer index, of the features selected</option> + </param> + <when value="fit_transform"> + <!--**fit_params--> + </when> + <when value="get_support"> + <param name="indices" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolfalse" checked="false" label="Indices" help="If True, the return value will be an array of integers, rather than a boolean mask."/> + </when> + </conditional> + </xml> <!-- Outputs --> |
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| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result01 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result01 Thu Apr 12 08:24:38 2018 -0400 |
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| @@ -0,0 +1,262 @@ +0 1 +69.0 69.7 +59.0 58.1 +88.0 77.3 +65.0 64.7 +50.0 47.5 +51.0 48.2 +52.0 48.6 +78.0 76.7 +35.0 45.2 +40.0 46.1 +47.0 45.3 +72.0 76.3 +76.0 74.4 +39.0 45.3 +78.0 72.2 +71.0 67.3 +48.0 47.7 +72.0 77.0 +57.0 54.7 +40.0 45.1 +54.0 47.6 +58.0 53.2 +68.0 58.6 +65.0 55.3 +47.0 48.8 +44.0 45.6 +64.0 67.1 +62.0 57.1 +66.0 65.7 +70.0 71.8 +57.0 54.2 +50.0 50.5 +55.0 51.8 +55.0 49.5 +42.0 45.2 +65.0 60.1 +63.0 65.6 +48.0 47.3 +42.0 46.3 +51.0 46.2 +64.0 68.0 +75.0 74.6 +52.0 46.7 +67.0 68.6 +68.0 68.7 +54.0 55.0 +62.0 56.8 +76.0 76.1 +73.0 73.1 +52.0 50.3 +70.0 73.9 +77.0 77.4 +60.0 56.6 +52.0 53.3 +79.0 75.0 +76.0 57.2 +66.0 66.5 +57.0 61.8 +66.0 57.4 +61.0 58.4 +55.0 53.1 +48.0 48.1 +49.0 49.2 +65.0 66.7 +60.0 62.5 +56.0 53.0 +59.0 57.4 +44.0 45.7 +82.0 63.2 +64.0 67.0 +43.0 45.5 +64.0 55.7 +63.0 52.7 +70.0 70.6 +71.0 52.4 +76.0 73.5 +68.0 62.1 +39.0 45.3 +71.0 70.7 +69.0 71.7 +74.0 71.5 +81.0 64.1 +51.0 49.3 +45.0 46.8 +87.0 76.8 +71.0 73.8 +55.0 60.3 +80.0 76.9 +67.0 69.0 +61.0 61.4 +46.0 46.6 +39.0 45.1 +67.0 68.3 +52.0 47.8 +67.0 69.8 +75.0 71.2 +68.0 73.3 +92.0 68.2 +67.0 72.8 +44.0 45.8 +61.0 61.0 +65.0 53.4 +68.0 73.0 +87.0 62.1 +117.0 54.8 +80.0 76.4 +57.0 51.0 +67.0 63.6 +58.0 54.0 +65.0 56.2 +52.0 48.6 +59.0 55.3 +57.0 53.9 +81.0 59.2 +75.0 77.1 +76.0 77.4 +57.0 64.8 +69.0 74.2 +77.0 66.8 +55.0 49.9 +49.0 46.8 +54.0 52.7 +55.0 51.2 +56.0 55.6 +68.0 74.6 +54.0 53.4 +67.0 69.0 +49.0 46.9 +49.0 49.1 +56.0 48.5 +73.0 71.0 +66.0 66.4 +69.0 66.5 +82.0 64.5 +90.0 76.7 +51.0 50.7 +77.0 57.1 +60.0 61.4 +74.0 72.8 +85.0 77.2 +68.0 62.8 +56.0 49.5 +71.0 56.2 +62.0 59.5 +83.0 77.3 +64.0 65.4 +56.0 48.4 +41.0 45.1 +65.0 66.2 +65.0 53.7 +40.0 46.0 +45.0 45.6 +52.0 48.4 +63.0 51.7 +52.0 47.6 +60.0 57.9 +81.0 75.7 +75.0 75.8 +59.0 51.4 +73.0 77.1 +75.0 77.3 +60.0 58.5 +75.0 71.3 +59.0 57.6 +53.0 49.1 +79.0 77.2 +57.0 52.1 +75.0 67.6 +71.0 69.4 +53.0 50.2 +46.0 48.8 +81.0 76.9 +49.0 48.9 +57.0 48.4 +60.0 58.8 +67.0 73.7 +61.0 64.1 +66.0 69.5 +64.0 51.9 +66.0 65.7 +64.0 52.2 +71.0 65.2 +75.0 63.8 +48.0 46.4 +53.0 52.5 +49.0 47.1 +85.0 68.5 +62.0 49.4 +50.0 47.0 +58.0 55.9 +72.0 77.2 +55.0 50.7 +74.0 72.3 +85.0 77.3 +73.0 77.3 +52.0 47.4 +67.0 67.6 +45.0 45.1 +46.0 47.2 +66.0 60.6 +71.0 77.0 +70.0 69.3 +58.0 49.9 +72.0 77.1 +74.0 75.4 +65.0 64.5 +77.0 58.8 +59.0 50.9 +45.0 45.7 +53.0 50.5 +53.0 54.9 +79.0 77.3 +49.0 49.0 +63.0 62.9 +69.0 56.5 +60.0 50.8 +64.0 62.5 +79.0 71.0 +55.0 47.0 +73.0 56.0 +60.0 59.1 +67.0 70.2 +42.0 45.2 +60.0 65.0 +57.0 49.8 +35.0 45.2 +75.0 70.3 +61.0 51.1 +51.0 50.6 +71.0 71.9 +74.0 75.3 +48.0 45.4 +74.0 74.9 +76.0 70.8 +58.0 51.6 +51.0 50.4 +72.0 72.6 +76.0 67.2 +52.0 47.9 +53.0 48.2 +65.0 69.1 +58.0 58.1 +77.0 75.6 +61.0 52.9 +67.0 65.3 +54.0 49.3 +79.0 67.4 +77.0 64.3 +71.0 67.7 +58.0 57.7 +68.0 55.9 +40.0 45.4 +80.0 77.3 +74.0 62.3 +57.0 45.5 +52.0 47.8 +71.0 75.1 +49.0 53.6 +89.0 59.0 +60.0 60.2 +59.0 58.3 |
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| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result02 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result02 Thu Apr 12 08:24:38 2018 -0400 |
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72.0 68.0 78.0 +67.0 76.0 64.0 74.0 +52.0 52.0 47.0 60.0 +52.0 53.0 48.0 53.0 +67.0 65.0 65.0 83.0 +61.0 58.0 58.0 43.0 +74.0 77.0 74.0 56.0 +58.0 61.0 51.0 35.0 +66.0 67.0 64.0 54.0 +55.0 54.0 46.0 58.0 +71.0 79.0 65.0 58.0 +81.0 77.0 63.0 67.0 +75.0 71.0 64.0 55.0 +59.0 58.0 54.0 61.0 +64.0 68.0 55.0 56.0 +43.0 40.0 45.0 49.0 +75.0 80.0 75.0 71.0 +87.0 74.0 59.0 61.0 +48.0 57.0 42.0 57.0 +48.0 52.0 43.0 57.0 +74.0 71.0 71.0 95.0 +54.0 49.0 49.0 70.0 +77.0 89.0 59.0 61.0 +66.0 60.0 56.0 78.0 +59.0 59.0 58.0 40.0 |
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| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result03 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result03 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result04 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result04 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result05 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result05 Thu Apr 12 08:24:38 2018 -0400 |
| b |
| b'@@ -0,0 +1,262 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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result06 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result06 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result07 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result07 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result08 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result08 Thu Apr 12 08:24:38 2018 -0400 |
| b |
| b'@@ -0,0 +1,262 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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result09 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result09 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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|
| b |
| diff -r f93e7b870023 -r 72cdeb46d398 test-data/feature_selection_result10 --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/feature_selection_result10 Thu Apr 12 08:24:38 2018 -0400 |
| b |
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