Mercurial > repos > bgruening > sklearn_clf_metrics
annotate clf_metrics.xml @ 11:3fb4723f5033 draft
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
| author | bgruening |
|---|---|
| date | Tue, 05 Jun 2018 06:41:54 -0400 |
| parents | f361aac67330 |
| children | cf91db94623c |
| rev | line source |
|---|---|
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
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1 <tool id="sklearn_clf_metrics" name="Calculate metrics" version="@VERSION@"> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
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2 <description>for classification performance</description> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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3 <macros> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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4 <import>main_macros.xml</import> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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5 </macros> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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6 <expand macro="python_requirements"/> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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7 <expand macro="macro_stdio"/> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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8 <version_command>echo "@VERSION@"</version_command> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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9 <command> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
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10 <![CDATA[ |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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11 python "$clf_metrics_script" '$inputs' |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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12 ]]> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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13 </command> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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14 <configfiles> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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15 <inputs name="inputs" /> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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changeset
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16 <configfile name="clf_metrics_script"> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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17 <![CDATA[ |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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18 import sys |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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19 import json |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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20 import pandas |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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21 import numpy as np |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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22 from sklearn import metrics |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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23 |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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24 @COLUMNS_FUNCTION@ |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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25 |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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26 input_json_path = sys.argv[1] |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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27 params = json.load(open(input_json_path, "r")) |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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28 |
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8
f361aac67330
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
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29 header='infer' if params["clf_metrics"].get("header1", None) else None |
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11
3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
8
diff
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30 column_option = params["clf_metrics"]["column_selector_options_1"]["selected_column_selector_option"] |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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31 if column_option == "by_index_number": |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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diff
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32 c = params["clf_metrics"]["column_selector_options_1"]["col1"] |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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33 else: |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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34 c = None |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
parents:
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35 y_t = read_columns( |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
parents:
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36 "$clf_metrics.infile1", |
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11
3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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37 c = c, |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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38 c_option = column_option, |
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3
6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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39 sep='\t', |
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8
f361aac67330
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
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40 header=header, |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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41 parse_dates=True |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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42 ) |
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8
f361aac67330
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
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43 |
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f361aac67330
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
bgruening
parents:
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44 header='infer' if params["clf_metrics"].get("header2", None) else None |
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11
3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
8
diff
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45 column_option = params["clf_metrics"]["column_selector_options_2"]["selected_column_selector_option2"] |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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46 if column_option == "by_index_number": |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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47 c = params["clf_metrics"]["column_selector_options_2"]["col2"] |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
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48 else: |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
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49 c = None |
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3
6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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50 y_p = read_columns( |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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51 "$clf_metrics.infile2", |
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11
3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
parents:
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52 c = c, |
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3fb4723f5033
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 97c4f22cdcfa6cddeeffc7b102c418a7ff12a888
bgruening
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53 c_option = column_option, |
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3
6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
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54 sep='\t', |
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8
f361aac67330
planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools/sklearn commit 2e1e78576b38110cf5b1f2ed83b08b9c3a6cbfee
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55 header=header, |
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3
6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
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56 parse_dates=True |
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6d1b3653d6a6
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 641ac64ded23fbb6fe85d5f13926da12dcce4e76
bgruening
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57 ) |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
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58 |
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1
65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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59 options = params["clf_metrics"].get("options", {}) |
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65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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60 print(options) |
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65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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61 if options and options.get('average', '') == 'None': |
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65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
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62 options['average'] = None |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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63 metric = params["clf_metrics"]["selected_metric"] |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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64 metric_function = getattr(metrics, metric) |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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65 res = metric_function(y_t,y_p,**options) |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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66 with open("$outfile", 'w+') as out_file: |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
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67 out_file.write( metric + ' : ' + '\n' + str(res) + '\n' ) |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
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68 |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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69 ]]> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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70 </configfile> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
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71 </configfiles> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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72 <inputs> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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73 <conditional name="clf_metrics"> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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74 <param name="selected_metric" type="select" label="Metrics"> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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75 <option value="accuracy_score" selected="true">Accuracy classification score</option> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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76 <option value="classification_report">Text report of the main classification metrics</option> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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77 <option value="f1_score">F1 score (aka balanced F-score or F-measure)</option> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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78 <option value="fbeta_score">F-beta score</option> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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79 <option value="hamming_loss">Average Hamming loss</option> |
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8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
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80 <option value="jaccard_similarity_score">Jaccard similarity coefficient score</option> |
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81 <option value="precision_recall_fscore_support">Compute precision, recall, F-measure and support for each class</option> |
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82 <option value="precision_score">Precision</option> |
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83 <option value="recall_score">Recall</option> |
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84 <option value="zero_one_loss">Zero-one classification loss</option> |
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85 <option value="auc">Area under the curve (AUC)</option> |
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86 <option value="brier_score_loss">Brier score</option> |
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87 <option value="matthews_corrcoef">Matthews correlation coefficient (MCC) for binary classes</option> |
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88 <option value="confusion_matrix">Confusion matrix (evaluate the accuracy of a classification)</option> |
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89 <option value="precision_recall_curve">Precision-recall pairs for different probability thresholds</option> |
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90 <option value="roc_curve">Receiver operating characteristic (ROC)</option> |
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91 <option value="hinge_loss">Average hinge loss (non-regularized)</option> |
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92 <option value="log_loss">Log loss (aka logistic loss or cross-entropy loss)</option> |
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93 <option value="average_precision_score">Average precision (AP) from prediction scores</option> |
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94 <option value="roc_auc_score">Area Under the Curve (AUC) from prediction scores</option> |
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95 </param> |
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96 <when value="accuracy_score"> |
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97 <expand macro="clf_inputs"/> |
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98 <section name="options" title="Advanced Options" expanded="False"> |
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99 <!--sample_weight--> |
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100 <param argument="normalize" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="true" |
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101 label="Normalize" help="If false, returns the number of correctly classified samples. Otherwise, returns the fraction of correctly classified samples. "/> |
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102 </section> |
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103 </when> |
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104 <when value="classification_report"> |
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105 <expand macro="clf_inputs"/> |
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106 <section name="options" title="Advanced Options" expanded="False"> |
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107 <!--labels--> |
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108 <!--target_names--> |
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109 <!--sample_weight--> |
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110 <param argument="digits" type="integer" value="2" label="Number of digits for formatting output floating point values" help=""/> |
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111 </section> |
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112 </when> |
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113 <when value="f1_score"> |
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114 <expand macro="clf_inputs"/> |
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115 <section name="options" title="Advanced Options" expanded="False"> |
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116 <!--labels--> |
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117 <!--sample_weight--> |
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118 <expand macro="pos_label" default_value="1"/> |
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119 <expand macro="average"> |
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120 <option value="binary" selected="true">Only report results for the class specified by pos_label. This is applicable only if targets (y_{true,pred}) are binary. (binary)</option> |
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121 </expand> |
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122 </section> |
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123 </when> |
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124 <when value="fbeta_score"> |
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125 <expand macro="clf_inputs"/> |
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126 <section name="options" title="Advanced Options" expanded="False"> |
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127 <expand macro="beta"/> |
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128 <!--labels--> |
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129 <!--sample_weight--> |
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130 <expand macro="pos_label" default_value="1"/> |
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131 <expand macro="average"> |
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132 <option value="binary" selected="true">Only report results for the class specified by pos_label. This is applicable only if targets (y_{true,pred}) are binary. (binary)</option> |
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133 </expand> |
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134 </section> |
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135 </when> |
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136 <when value="hamming_loss"> |
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137 <expand macro="clf_inputs"/> |
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138 <!--section name="options" title="Advanced Options" expanded="False"> |
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139 <!- -classes- -> |
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140 </section--> |
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141 </when> |
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142 <when value="jaccard_similarity_score"> |
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143 <expand macro="clf_inputs"/> |
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144 <section name="options" title="Advanced Options" expanded="False"> |
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145 <param argument="normalize" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="true" label="Normalize" help="If false, returns the sum of the Jaccard similarity coefficient over the sample set. Otherwise, returns the average of Jaccard similarity coefficient. "/> |
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146 </section> |
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147 </when> |
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148 <when value="precision_recall_fscore_support"> |
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149 <expand macro="clf_inputs"/> |
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150 <section name="options" title="Advanced Options" expanded="False"> |
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151 <expand macro="beta"/> |
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152 <!--labels--> |
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153 <!--sample_weight--> |
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154 <!--warn_for--> |
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155 <expand macro="pos_label" default_value="1"/> |
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156 <expand macro="average"> |
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1
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157 <option value="binary" selected="true">Only report results for the class specified by pos_label. Applicable only on binary classification. (binary)</option> |
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0
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158 </expand> |
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159 </section> |
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160 </when> |
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161 <when value="precision_score"> |
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162 <expand macro="clf_inputs"/> |
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163 <section name="options" title="Advanced Options" expanded="False"> |
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164 <!--labels--> |
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165 <!--sample_weight--> |
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166 <expand macro="pos_label" default_value="1"/> |
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167 <expand macro="average"> |
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168 <option value="binary" selected="true">Only report results for the class specified by pos_label. This is applicable only if targets (y_{true,pred}) are binary. (binary)</option> |
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169 </expand> |
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170 </section> |
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171 </when> |
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172 <when value="recall_score"> |
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173 <expand macro="clf_inputs"/> |
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174 <section name="options" title="Advanced Options" expanded="False"> |
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175 <!--labels--> |
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176 <!--sample_weight--> |
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177 <expand macro="pos_label" default_value="1"/> |
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178 <expand macro="average"> |
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179 <option value="binary" selected="true">Only report results for the class specified by pos_label. This is applicable only if targets (y_{true,pred}) are binary. (binary)</option> |
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180 </expand> |
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181 </section> |
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182 </when> |
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183 <when value="zero_one_loss"> |
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184 <expand macro="clf_inputs"/> |
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185 <section name="options" title="Advanced Options" expanded="False"> |
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186 <!--sample_weight--> |
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187 <param argument="normalize" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="true" label="Normalize" help="If false, returns the number of misclassifications. Otherwise, returns the fraction of misclassifications. "/> |
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188 </section> |
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189 </when> |
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190 <when value="auc"> |
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191 <expand macro="clf_inputs"/> |
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192 <section name="options" title="Advanced Options" expanded="False"> |
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193 <param argument="reorder" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="false" label="Assume an ascending curve in the case of ties" help="If the curve is non-ascending, the result will be wrong. "/> |
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194 </section> |
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195 </when> |
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196 <when value="brier_score_loss"> |
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197 <expand macro="clf_inputs"/> |
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198 <section name="options" title="Advanced Options" expanded="False"> |
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199 <!--weights--> |
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200 <expand macro="pos_label"/> |
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201 </section> |
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202 </when> |
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203 <when value="matthews_corrcoef"> |
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204 <expand macro="clf_inputs"/> |
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205 <!--section name="options" title="Advanced Options" expanded="False"> |
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206 </section--> |
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0
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207 </when> |
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208 <when value="confusion_matrix"> |
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209 <expand macro="clf_inputs"/> |
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210 <!--section name="options" title="Advanced Options" expanded="False"> |
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211 <!- -labels- -> |
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212 </section--> |
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0
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213 </when> |
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214 <when value="precision_recall_curve"> |
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215 <expand macro="clf_inputs"/> |
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216 <section name="options" title="Advanced Options" expanded="False"> |
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217 <expand macro="pos_label"/> |
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218 <!--sample_weight--> |
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219 </section> |
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220 </when> |
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221 <when value="roc_curve"> |
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222 <expand macro="clf_inputs"/> |
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223 <section name="options" title="Advanced Options" expanded="False"> |
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224 <!--sample_weight--> |
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225 <expand macro="pos_label"/> |
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226 <param argument="drop_intermediate" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="true" label=" Drop suboptimal thresholds" help="This is useful in order to create lighter ROC curves. "/> |
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227 </section> |
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228 </when> |
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229 <when value="hinge_loss"> |
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230 <expand macro="clf_inputs" multiple="true"/> |
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231 <!--section name="options" title="Advanced Options" expanded="False"> |
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232 <!- -labels- -> |
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233 <!- -sample_weight- -> |
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234 </section--> |
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0
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235 </when> |
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236 <when value="log_loss"> |
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237 <expand macro="clf_inputs" multiple="true"/> |
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238 <section name="options" title="Advanced Options" expanded="False"> |
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239 <!--sample_weight--> |
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1
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240 <param argument="eps" type="float" value="1e-15" label="Clipping factor" |
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241 help="Log loss is undefined for p=0 or p=1, so probabilities are clipped to max(eps, min(1 - eps, p)). "/> |
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242 <param argument="normalize" type="boolean" optional="true" truevalue="booltrue" falsevalue="boolflase" checked="true" |
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243 label="Normalize" help="If true, returns the mean loss per sample. Otherwise, returns the sum of the per-sample losses. "/> |
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244 </section> |
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245 </when> |
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246 <when value="average_precision_score"> |
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247 <expand macro="clf_inputs" multiple1="true" multiple="true"/> |
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248 <!-- section name="options" title="Advanced Options" expanded="False"> |
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249 <!- -average='macro', sample_weight=None- -> |
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250 </section--> |
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251 </when> |
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252 <when value="roc_auc_score"> |
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253 <expand macro="clf_inputs" multiple1="true" multiple="true"/> |
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254 <section name="options" title="Advanced Options" expanded="False"> |
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255 <expand macro="average"> |
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256 <option value="macro" selected="true">Calculate metrics for each label, and find their unweighted mean. (macro)</option> |
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257 </expand> |
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258 </section> |
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259 </when> |
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260 </conditional> |
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261 </inputs> |
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262 <outputs> |
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263 <data format="txt" name="outfile"/> |
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264 </outputs> |
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265 <tests> |
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266 <test> |
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267 <param name="selected_metric" value="accuracy_score"/> |
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268 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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269 <param name="col1" value="1"/> |
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270 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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271 <param name="col2" value="2"/> |
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272 <output name="outfile" file="accuracy_score.txt"/> |
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273 </test> |
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274 <test> |
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275 <param name="selected_metric" value="classification_report"/> |
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276 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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277 <param name="col1" value="1"/> |
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278 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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279 <param name="col2" value="2"/> |
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280 <output name="outfile" file="classification_report.txt"/> |
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281 </test> |
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282 <test> |
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283 <param name="selected_metric" value="f1_score"/> |
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284 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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285 <param name="col1" value="1"/> |
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286 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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287 <param name="col2" value="2"/> |
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288 <param name="average" value="micro"/> |
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289 <output name="outfile" file="f1_score.txt"/> |
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290 </test> |
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291 <test> |
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292 <param name="selected_metric" value="fbeta_score"/> |
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293 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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294 <param name="col1" value="1"/> |
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295 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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296 <param name="col2" value="2"/> |
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297 <param name="average" value="micro"/> |
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298 <output name="outfile" file="fbeta_score.txt"/> |
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299 </test> |
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300 <test> |
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301 <param name="selected_metric" value="hamming_loss"/> |
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302 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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303 <param name="col1" value="1"/> |
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304 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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305 <param name="col2" value="2"/> |
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306 <output name="outfile" file="hamming_loss.txt"/> |
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307 </test> |
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308 <test> |
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309 <param name="selected_metric" value="jaccard_similarity_score"/> |
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310 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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311 <param name="col1" value="1"/> |
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312 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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313 <param name="col2" value="2"/> |
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314 <output name="outfile" file="jaccard_similarity_score.txt"/> |
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315 </test> |
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316 <test> |
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317 <param name="selected_metric" value="precision_recall_fscore_support"/> |
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318 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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319 <param name="col1" value="1"/> |
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320 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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321 <param name="col2" value="2"/> |
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diff
changeset
|
322 <param name="average" value="micro"/> |
|
0
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
323 <output name="outfile" file="precision_recall_fscore_support.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
324 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
325 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
326 <param name="selected_metric" value="precision_score"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
327 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
328 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
329 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
330 <param name="col2" value="2"/> |
|
1
65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
0
diff
changeset
|
331 <param name="average" value="micro"/> |
|
0
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
332 <output name="outfile" file="precision_score.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
333 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
334 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
335 <param name="selected_metric" value="recall_score"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
336 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
337 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
338 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
339 <param name="col2" value="2"/> |
|
1
65bd390f50ae
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
0
diff
changeset
|
340 <param name="average" value="micro"/> |
|
0
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
341 <output name="outfile" file="recall_score.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
342 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
343 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
344 <param name="selected_metric" value="zero_one_loss"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
345 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
346 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
347 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
348 <param name="col2" value="2"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
349 <output name="outfile" file="zero_one_loss.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
350 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
351 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
352 <param name="selected_metric" value="auc"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
353 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
354 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
355 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
356 <param name="col2" value="2"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
357 <param name="reorder" value="true"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
358 <output name="outfile" file="auc.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
359 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
360 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
361 <param name="selected_metric" value="brier_score_loss"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
362 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
363 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
364 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
365 <param name="col2" value="3"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
366 <output name="outfile" file="brier_score_loss.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
367 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
368 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
369 <param name="selected_metric" value="matthews_corrcoef"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
370 <param name="infile1" value="y.tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
371 <param name="col1" value="6"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
372 <param name="infile2" value="y.tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
373 <param name="col2" value="7"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
374 <output name="outfile" file="matthews_corrcoef.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
375 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
376 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
377 <param name="selected_metric" value="confusion_matrix"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
378 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
379 <param name="col1" value="1"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
380 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
381 <param name="col2" value="2"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
382 <output name="outfile" file="confusion_matrix.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
383 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
384 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
385 <param name="selected_metric" value="precision_recall_curve"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
386 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
387 <param name="col1" value="6"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
388 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
389 <param name="col2" value="7"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
390 <output name="outfile" file="precision_recall_curve.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
391 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
392 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
393 <param name="selected_metric" value="roc_curve"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
394 <param name="infile1" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
395 <param name="col1" value="6"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
396 <param name="infile2" value="y.tabular" ftype="tabular"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
397 <param name="col2" value="7"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
398 <output name="outfile" file="roc_curve.txt"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
399 </test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
400 <test> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
401 <param name="selected_metric" value="hinge_loss"/> |
|
8d7f8dc7c347
planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
bgruening
parents:
diff
changeset
|
402 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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8d7f8dc7c347
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403 <param name="col1" value="1"/> |
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404 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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405 <param name="col2" value="8,9,10"/> |
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406 <output name="outfile" file="hinge_loss.txt"/> |
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407 </test> |
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408 <test> |
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409 <param name="selected_metric" value="log_loss"/> |
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410 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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411 <param name="col1" value="2"/> |
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planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit a9f28163f0d2e808e49c43a6df5a040706e79991
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412 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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413 <param name="col2" value="3,4,5"/> |
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414 <output name="outfile" file="log_loss.txt"/> |
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415 </test> |
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416 <test> |
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417 <param name="selected_metric" value="average_precision_score"/> |
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418 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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419 <param name="col1" value="6"/> |
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420 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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421 <param name="col2" value="7"/> |
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422 <output name="outfile" file="average_precision_score.txt"/> |
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423 </test> |
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424 <test> |
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425 <param name="selected_metric" value="roc_auc_score"/> |
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426 <param name="infile1" value="y.tabular" ftype="tabular"/> |
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427 <param name="col1" value="6"/> |
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428 <param name="infile2" value="y.tabular" ftype="tabular"/> |
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429 <param name="col2" value="7"/> |
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430 <output name="outfile" file="roc_auc_score.txt"/> |
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431 </test> |
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432 </tests> |
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433 <help> |
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434 <![CDATA[ |
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435 **What it does** |
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436 This tool provides several loss, score, and utility functions to measure classification performance. Some metrics might require probability estimates of the positive class, confidence values, or binary decisions values. This tool is based on |
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0
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437 sklearn.metrics package. |
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438 For information about classification metric functions and their parameter settings please refer to `Scikit-learn classification metrics`_. |
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439 |
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440 .. _`Scikit-learn classification metrics`: http://scikit-learn.org/stable/modules/model_evaluation.html#classification-metrics |
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441 ]]> |
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442 </help> |
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443 <expand macro="sklearn_citation"/> |
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444 </tool> |