Mercurial > repos > q2d2 > qiime2__diversity__bioenv

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity commit 5f71b597c9495eae67a447744fded834f56ca1f7
author q2d2
date Wed, 30 Oct 2024 19:38:46 +0000
parents 1e4f0944ae33
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1 <?xml version='1.0' encoding='utf-8'?>
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2 <!--
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3 Copyright (c) 2024, QIIME 2 development team.
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5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
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6 -->
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7 <!--
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8 This tool was automatically generated by:
5
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9 q2galaxy (version: 2024.10.0)
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10 for:
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11 qiime2 (version: 2024.10.1)
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12 -->
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13 <tool name="qiime2 diversity bioenv" id="qiime2__diversity__bioenv" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause">
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14 <description>bioenv</description>
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15 <xrefs>
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16 <xref type="bio.tools">qiime2</xref>
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17 </xrefs>
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18 <requirements>
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19 <container type="docker">quay.io/qiime2/amplicon:2024.10</container>
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20 </requirements>
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21 <version_command>q2galaxy version diversity</version_command>
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22 <command detect_errors="exit_code">q2galaxy run diversity bioenv '$inputs'</command>
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23 <configfiles>
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24 <inputs name="inputs" data_style="staging_path_and_source_path"/>
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25 </configfiles>
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26 <inputs>
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27 <param name="distance_matrix" type="data" format="qza" label="distance_matrix: DistanceMatrix" help="[required] Matrix of distances between pairs of samples.">
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28 <options options_filter_attribute="metadata.semantic_type">
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29 <filter type="add_value" value="DistanceMatrix"/>
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30 </options>
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31 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['DistanceMatrix']</validator>
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32 </param>
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33 <repeat name="metadata" min="1" help="[required] The sample metadata." title="metadata: Metadata">
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34 <conditional name="__q2galaxy__GUI__conditional__metadata__">
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35 <param name="type" type="select" label="metadata: Metadata">
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36 <option value="tsv" selected="true">Metadata from TSV</option>
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37 <option value="qza">Metadata from Artifact</option>
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38 </param>
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39 <when value="tsv">
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40 <param name="source" type="data" format="tabular,qiime2.tabular" label="Metadata Source"/>
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41 </when>
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42 <when value="qza">
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43 <param name="source" type="data" format="qza" label="Metadata Source"/>
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44 </when>
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45 </conditional>
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46 </repeat>
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47 </inputs>
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48 <outputs>
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49 <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/>
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50 </outputs>
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51 <tests/>
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52 <help>
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53 QIIME 2: diversity bioenv
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54 =========================
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55 bioenv
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56
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57
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58 Outputs:
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59 --------
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60 :visualization.qzv: &lt;no description&gt;
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61
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62 |
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63
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64 Description:
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65 ------------
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66 Find the subsets of variables in metadata whose Euclidean distances are maximally rank-correlated with distance matrix. All numeric variables in metadata will be considered, and samples which are missing data will be dropped. The output visualization will indicate how many samples were dropped due to missing data, if any were dropped.
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67
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68
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69 |
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70
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71 </help>
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72 <citations>
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73 <citation type="doi">https://doi.org/10.3354/meps092205</citation>
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74 <citation type="doi">10.1038/s41587-019-0209-9</citation>
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75 </citations>
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76 </tool>