# HG changeset patch
# User q2d2
# Date 1661801595 0
# Node ID e015c75346ab1b2cc5b00091f633c67d39e77913

planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__diversity commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1

diff -r 000000000000 -r e015c75346ab qiime2__diversity__procrustes_analysis.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2__diversity__procrustes_analysis.xml	Mon Aug 29 19:33:15 2022 +0000
@@ -0,0 +1,83 @@
+<?xml version='1.0' encoding='utf-8'?>
+<!--
+Copyright (c) 2022, QIIME 2 development team.
+
+Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
+-->
+<!--
+This tool was automatically generated by:
+    q2galaxy (version: 2022.8.1)
+for:
+    qiime2 (version: 2022.8.1)
+-->
+<tool name="qiime2 diversity procrustes-analysis" id="qiime2__diversity__procrustes_analysis" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause">
+    <description>Procrustes Analysis</description>
+    <requirements>
+        <container type="docker">quay.io/qiime2/core:2022.8</container>
+    </requirements>
+    <version_command>q2galaxy version diversity</version_command>
+    <command detect_errors="aggressive">q2galaxy run diversity procrustes_analysis '$inputs'</command>
+    <configfiles>
+        <inputs name="inputs" data_style="paths"/>
+    </configfiles>
+    <inputs>
+        <param name="reference" type="data" format="qza" label="reference: PCoAResults" help="[required]  The ordination matrix to which data is fitted to.">
+            <options options_filter_attribute="metadata.semantic_type">
+                <filter type="add_value" value="PCoAResults"/>
+            </options>
+            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['PCoAResults']</validator>
+        </param>
+        <param name="other" type="data" format="qza" label="other: PCoAResults" help="[required]  The ordination matrix that's fitted to the reference ordination.">
+            <options options_filter_attribute="metadata.semantic_type">
+                <filter type="add_value" value="PCoAResults"/>
+            </options>
+            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['PCoAResults']</validator>
+        </param>
+        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
+            <param name="dimensions" type="integer" min="1" value="5" label="dimensions: Int % Range(1, None)" help="[default: 5]  The number of dimensions to use when fitting the two matrices"/>
+            <conditional name="__q2galaxy__GUI__conditional__permutations__">
+                <param name="__q2galaxy__GUI__select__" type="select" label="permutations: Int % Range(1, None) | Str % Choices('disable')" help="[default: 999]  The number of permutations to be run when computing p-values. Supplying a value of `disable` will disable permutation testing and p-values will not be calculated (this results in *much* quicker execution time if p-values are not desired).">
+                    <option value="disable">disable (Str)</option>
+                    <option value="__q2galaxy__::control::Int X Range(1__comma__ None)" selected="true">Provide a value (Int % Range(1, None))</option>
+                </param>
+                <when value="disable">
+                    <param name="permutations" type="hidden" value="disable"/>
+                </when>
+                <when value="__q2galaxy__::control::Int X Range(1__comma__ None)">
+                    <param name="permutations" type="integer" min="1" value="999" label="permutations: Int % Range(1, None)" help="[default: 999]  The number of permutations to be run when computing p-values. Supplying a value of `disable` will disable permutation testing and p-values will not be calculated (this results in *much* quicker execution time if p-values are not desired)."/>
+                </when>
+            </conditional>
+        </section>
+    </inputs>
+    <outputs>
+        <data name="transformed_reference" format="qza" label="${tool.name} on ${on_string}: transformed_reference.qza" from_work_dir="transformed_reference.qza"/>
+        <data name="transformed_other" format="qza" label="${tool.name} on ${on_string}: transformed_other.qza" from_work_dir="transformed_other.qza"/>
+        <data name="disparity_results" format="qza" label="${tool.name} on ${on_string}: disparity_results.qza" from_work_dir="disparity_results.qza"/>
+    </outputs>
+    <tests/>
+    <help>
+QIIME 2: diversity procrustes-analysis
+======================================
+Procrustes Analysis
+
+
+Outputs:
+--------
+:transformed_reference.qza: A normalized version of the "reference" ordination matrix.
+:transformed_other.qza: A normalized and fitted version of the "other" ordination matrix.
+:disparity_results.qza: The sum of the squares of the pointwise differences between the two input datasets &amp; its p value.
+
+|  
+
+Description:
+------------
+Fit two ordination matrices with Procrustes analysis
+
+
+|  
+
+</help>
+    <citations>
+        <citation type="doi">10.1038/s41587-019-0209-9</citation>
+    </citations>
+</tool>
diff -r 000000000000 -r e015c75346ab test-data/.gitkeep