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author bgruening
date Wed, 30 May 2018 08:24:49 -0400
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dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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1 <tool id="sklearn_sample_generator" name="Generate" version="@VERSION@">
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2 <description>random samples with controlled size and complexity</description>
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3 <macros>
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4 <import>main_macros.xml</import>
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5 </macros>
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6 <expand macro="python_requirements"/>
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7 <expand macro="macro_stdio"/>
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8 <version_command>echo "@VERSION@"</version_command>
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9 <command>
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10 <![CDATA[
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11 python "$sample_generator_script" '$inputs'
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12 ]]>
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13 </command>
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14 <configfiles>
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15 <inputs name="inputs" />
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16 <configfile name="sample_generator_script">
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17 <![CDATA[
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18 import sys
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19 import json
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20 import pandas
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21 import numpy as np
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22 from sklearn import datasets
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24 input_json_path = sys.argv[1]
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25 params = json.load(open(input_json_path, "r"))
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26
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27 my_function = getattr(datasets, params["sample_generators"]["selected_generator"])
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28 options = params["sample_generators"]["options"]
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29 my_points, my_targets = my_function(**options)
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30
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31 points_df = pandas.DataFrame(my_points)
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32 targets_df = pandas.DataFrame(my_targets)
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33 res = pandas.concat([points_df, targets_df], axis=1)
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34 res.to_csv(path_or_buf = "$outfile", sep="\t", index=False)
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35
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36 ]]>
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37 </configfile>
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38 </configfiles>
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39 <inputs>
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40 <conditional name="sample_generators">
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41 <param name="selected_generator" type="select" label="Sample type:">
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42 <option value="make_blobs" selected="true">Isotropic Gaussian blobs for clustering</option>
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43 <option value="make_classification">Random n-class classification problem</option>
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44 <option value="make_gaussian_quantiles">Isotropic Gaussian and label samples by quantile</option>
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45 <option value="make_hastie_10_2">Data for binary classification (used in Hastie et al)</option>
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46 <option value="make_circles">Large circle containing a smaller circle in 2d (circles)</option>
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47 <option value="make_moons">Two interleaving half circles (moons)</option>
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48 <option value="make_regression">Random regression problem</option>
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49 <option value="make_sparse_uncorrelated">Random regression problem with sparse uncorrelated design</option>
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50 <option value="make_friedman1">“Friedman #1” regression problem</option>
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51 <option value="make_friedman2">“Friedman #2” regression problem</option>
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52 <option value="make_friedman3">“Friedman #3” regression problem</option>
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53 <!--option value="make_low_rank_matrix">Mostly low rank matrix with bell-shaped singular values</option-->
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54 <!--option value="make_multilabel_classification">Random multilabel classification problem</option-->
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55 <option value="make_s_curve">S curve dataset</option>
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56 <option value="make_swiss_roll">Swiss roll dataset</option>
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57 <!--option value="make_sparse_coded_signal">Sparse combination of dictionary elements</option-->
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58 <!--option value="make_sparse_spd_matrix">Sparse symmetric definite positive matrix</option-->
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59 <!--option value="make_spd_matrix">Random symmetric, positive-definite matrix</option-->
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60 <!--option value="make_biclusters">Array with constant block diagonal structure for biclustering</option>
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61 <option value="make_checkerboard">Array with block checkerboard structure for biclustering</option-->
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62 </param>
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63 <when value="make_blobs">
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64 <section name="options" title="Advanced Options" expanded="False">
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65 <expand macro="n_samples"/>
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66 <expand macro="n_features"/>
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67 <param argument="centers" type="integer" optional="true" value="3" label="Number of centers to generate" help=" "/>
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68 <!--todo: expand centers type : int or array of shape [n_centers, n_features]-->
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69 <param argument="cluster_std" type="float" optional="true" value="1.0" label="Standard deviation of the clusters" help=" "/>
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70 <!--todo: expand cluster_std type : float or sequence of floats-->
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71 <!--param argument=center_box-->
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72 <expand macro="shuffle" label="Shuffle the samples"/>
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73 <expand macro="random_state"/>
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74 </section>
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75 </when>
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76 <when value="make_classification">
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77 <section name="options" title="Advanced Options" expanded="False">
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78 <expand macro="n_samples"/>
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79 <expand macro="n_features" default_value="20"/>
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80 <param argument="n_informative" type="integer" optional="true" value="2" label="Number of informative features" help="Each class is composed of a number of gaussian clusters each located around the vertices of a hypercube in a subspace of dimension n_informative. For each cluster, informative features are drawn independently from N(0, 1) and then randomly linearly combined within each cluster in order to add covariance. The clusters are then placed on the vertices of the hypercube. "/>
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81 <param argument="n_redundant" type="integer" optional="true" value="2" label="Number of redundant features" help="These features are generated as random linear combinations of the informative features. "/>
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82 <param argument="n_repeated" type="integer" optional="true" value="0" label="Number of duplicated features" help="These are drawn randomly from the informative and the redundant features. "/>
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83 <param argument="n_classes" type="integer" optional="true" value="2" label="Number of classes" help="The number of classes (or labels) of the classification problem. "/>
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84 <param argument="n_clusters_per_class" type="integer" optional="true" value="2" label="Number of clusters per class" help=" "/>
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85 <!--param argument = weights-->
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86 <param argument="flip_y" type="float" optional="true" value="0.01" label="Fraction of samples with randomly exchanged class labels" help=" "/>
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87 <!--param argument = class_sep-->
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diff changeset
88 <!--param argument = hypercube-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
89 <!--param argument = shift-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
90 <!--param argument = scale-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
91 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
92 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
93 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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94 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
95 <when value="make_gaussian_quantiles">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
96 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
97 <!--param argument = mean-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
98 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
99 <expand macro="n_features"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
100 <param argument="cov" type="float" optional="true" value="1" label="Unit matrix coefficient" help="The covariance matrix will be this value times the unit matrix. This dataset only produces symmetric normal distributions. "/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
101 <param argument="n_classes" type="integer" optional="true" value="2" label="Number of classes" help="The number of classes (or labels) of the classification problem. "/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
102 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
103 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
104 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
105 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
106 <when value="make_hastie_10_2">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
107 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
108 <expand macro="n_samples" default_value="12000"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
109 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
110 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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111 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
112 <when value="make_circles">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
113 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
114 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
115 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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116 <expand macro="noise" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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117 <param argument="factor" type="float" optional="true" value="0.8" label="Scale factor between inner and outer circle" help=" Floating point number less than 1. "/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
118 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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119 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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120 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
121 <when value="make_moons">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
122 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
123 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
124 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
125 <expand macro="noise" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
126 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
127 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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128 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
129 <when value="make_regression">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
130 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
131 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
132 <expand macro="n_features" default_value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
133 <param argument="n_informative" type="integer" optional="true" value="10" label="Number of informative features" help="the number of features used to build the linear model used to generate the output "/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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134 <param argument="n_targets" type="integer" optional="true" value="1" label="Number of regression targets" help="The dimension of the y output vector associated with a sample. By default, the output is a scalar."/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
135 <param argument="bias" type="float" optional="true" value="0.0" label="Bias of the true function" help="The bias term in the underlying linear model. "/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
136 <!--param argument = effective_rank-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
137 <!--param argument = tail_strength-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
138 <!--param argument = coef-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
139 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
140 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
141 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
142 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
143 <when value="make_sparse_uncorrelated">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
144 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
145 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
146 <expand macro="n_features" default_value="10"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
147 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
148 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
149 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
150 <when value="make_friedman1">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
151 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
152 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
153 <expand macro="n_features" default_value="10"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
154 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
155 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
156 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
157 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
158 <when value="make_friedman2">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
159 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
160 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
161 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
162 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
163 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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164 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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parents:
diff changeset
165 <when value="make_friedman3">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
166 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
167 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
168 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
169 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
170 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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171 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
172 <!--when value="make_low_rank_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
173 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
174 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
175 <expand macro="n_features" default_value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
176 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
177 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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178 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
179 <!--when value="make_multilabel_classification">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
180 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
181 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
182 <expand macro="n_features" default_value="20"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
183 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
184 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
185 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
186 <when value="make_s_curve">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
187 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
188 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
189 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
190 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
191 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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192 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
193 <when value="make_swiss_roll">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
194 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
195 <expand macro="n_samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
196 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
197 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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198 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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199 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
200 <!--when value="make_sparse_coded_signal">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
201 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
202 <expand macro="n_samples" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
203 <expand macro="n_features" default_value=""/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
204 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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205 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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206 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
207 <!--when value="make_spd_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
208 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
209 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
210 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
211 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
212 <!--when value="make_sparse_spd_matrix">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
213 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
214 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
215 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
216 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
217 <!--when value="make_biclusters">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
218 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
219 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
220 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
221 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
222 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
223 </when>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
224 <when value="make_checkerboard">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
225 <section name="options" title="Advanced Options" expanded="False">
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
226 <expand macro="shuffle" label="Shuffle the samples"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
227 <expand macro="noise"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
228 <expand macro="random_state"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
229 </section>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
230 </when-->
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
231 </conditional>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
232 </inputs>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
233 <outputs>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
234 <data format="tabular" name="outfile"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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diff changeset
235 </outputs>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
236 <tests>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
237 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
238 <param name="selected_generator" value="make_blobs"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
239 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
240 <output name="outfile" file="blobs.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
241 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
242 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
243 <param name="selected_generator" value="make_classification"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
244 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
245 <output name="outfile" file="class.txt" compare="sim_size" />
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
246 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
247 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
248 <param name="selected_generator" value="make_circles"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
249 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
250 <output name="outfile" file="circles.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
251 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
252 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
253 <param name="selected_generator" value="make_friedman1"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
254 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
255 <output name="outfile" file="friedman1.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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diff changeset
256 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
257 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
258 <param name="selected_generator" value="make_friedman2"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
259 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
260 <output name="outfile" file="friedman2.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
261 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
262 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
263 <param name="selected_generator" value="make_friedman3"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
264 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
265 <output name="outfile" file="friedman3.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
266 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
267 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
268 <param name="selected_generator" value="make_gaussian_quantiles"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
269 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
270 <output name="outfile" file="gaus.txt"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
271 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
272 <test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
273 <param name="selected_generator" value="make_hastie_10_2"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
274 <param name="random_state" value="100"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
275 <output name="outfile" file="hastie.txt" compare="contains"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
parents:
diff changeset
276 </test>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
bgruening
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277 <test>
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278 <param name="selected_generator" value="make_moons"/>
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279 <param name="random_state" value="100"/>
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280 <output name="outfile" file="moons.txt"/>
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281 </test>
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282 <test>
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283 <param name="selected_generator" value="make_regression"/>
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284 <param name="random_state" value="100"/>
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285 <output name="outfile" file="regression.txt" compare="sim_size" />
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286 </test>
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287 <test>
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288 <param name="selected_generator" value="make_s_curve"/>
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289 <param name="random_state" value="100"/>
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290 <output name="outfile" file="scurve.txt"/>
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291 </test>
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292 <test>
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293 <param name="selected_generator" value="make_sparse_uncorrelated"/>
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294 <param name="random_state" value="100"/>
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295 <output name="outfile" file="sparse_u.txt"/>
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296 </test>
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297 <test>
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298 <param name="selected_generator" value="make_swiss_roll"/>
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299 <param name="random_state" value="100"/>
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300 <output name="outfile" file="swiss_r.txt"/>
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301 </test>
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302 </tests>
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303 <help>
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304 <![CDATA[
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305 **What it does**
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306
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307 This tool generates artificial data samples with specified size and controlled complexity.
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308 It provides sample generators for the following machine learning problems:
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309
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310
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311
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312 **1 - Single_label classification and clustering**
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313
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314 These generators produce a file containing the data samples. It is a tabular representation with samples in rows having features in columns.
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315 (In machine learning, each numerical property of a sample is called a feature.)
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316 The corresponding discrete targets are generated in a separate column. This column is added as the last coulmn of the data.
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317
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318
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319 **Example**
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320 Sample data with 4 features and a single target (n_samples=8 , n_features=4) :
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321
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322
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323 features columns
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324 ::
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325
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326 4.01163365529 -6.10797684314 8.29829894763 -9.10139563721
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327 10.0788438916 1.59539821454 10.0684278289 4.16975127881
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328 -5.17607775503 -0.878286135332 6.92941850665 -5.27083063186
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329 4.00975406235 -7.11847496542 9.3802423585 -9.36732159584
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330 4.61204065139 -5.71217537352 9.12509610964 -9.2260804162
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331 8.26530668997 2.96705005011 8.88881190248 2.75339082289
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332 2.96366327113 -3.76295851562 11.7113372463 -9.79136150321
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333 8.13319631944 -0.223645298585 10.5820605308 4.47715318678
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334
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335 target column
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336 ::
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337
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338 1
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339 0
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340 2
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341 1
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342 1
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343 0
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344 1
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345 0
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346
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347 The following generators are included in this section:
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348
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349
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350 * **Isotropic Gaussian blobs for clustering** creates multiclass datasets by allocating each class one or more normally-distributed clusters of points (isotropic = equally distributed in all directions). It provides control regarding the centers and standard deviations of each cluster, and is used to demonstrate clustering.
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351
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352 * **Random n-class classification problem** does the same specialising in introducing noise by way of: correlated, redundant and uninformative features; multiple Gaussian clusters per class; and linear transformations of the feature space.
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353
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354 * **Isotropic Gaussian and label samples by quantile** divides a single Gaussian cluster into near-equal-size classes separated by concentric hyperspheres.
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355
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356 * **Data for binary classification (Hastie)** generates a binary problem similar to the above with 10 features.
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357
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358 * **Circles** and **moons** generate 2-dimensional binary classification datasets that are challenging to certain algorithms (e.g. centroid-based clustering or linear classification), including optional Gaussian noise. They are useful for visualisation.
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359
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360 **2 - Generators for regression**
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361
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362 These generators produce output with same same format as in section 1, thoguh aimed for regression problems. The following generators are included in this section:
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363
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364 * **Random regression problem** produces regression targets as an optionally-sparse random linear combination of random features, with noise. Its informative features may be uncorrelated, or low rank (few features account for most of the variance). It can produce multiple targets for each point.
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365
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366 * **Random regression problem with sparse uncorrelated design** produces a target as a linear combination of four features with fixed coefficients.
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367
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368 * **Nonlinear generators** encode explicitly non-linear relations: **“Friedman #1”** is related by polynomial and sine transforms; **“Friedman #2”** includes feature multiplication and reciprocation; and **“Friedman #3”** is similar with an arctan transformation on the target.
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369
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370 **3 - Generators for manifold learning**
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371
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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372 Generators belonging to this group produce datasets suitable for non-linear dimensionality reduction problems. The idea behind this type of problem is that the dimensionality of many data sets is only artificially high. **S curve dataset** and **Swiss roll dataset** produce the same points-targets output format, sample points are 3-dimensional and the target column indicates the univariate position of the sample according to the main dimension of the points in the manifold.
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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374 ]]>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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375 </help>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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376 <expand macro="sklearn_citation"/>
dec5e182fd0c planemo upload for repository https://github.com/bgruening/galaxytools/tools/sklearn commit 0e582cf1f3134c777cce3aa57d71b80ed95e6ba9
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377 </tool>