# HG changeset patch
# User q2d2
# Date 1661803802 0
# Node ID 6f143d604b84bad053de0a225953fc9836c53d81

planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__longitudinal commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1

diff -r 000000000000 -r 6f143d604b84 qiime2__longitudinal__nmit.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2__longitudinal__nmit.xml	Mon Aug 29 20:10:02 2022 +0000
@@ -0,0 +1,91 @@
+<?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 longitudinal nmit" id="qiime2__longitudinal__nmit" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause">
+    <description>Nonparametric microbial interdependence test</description>
+    <requirements>
+        <container type="docker">quay.io/qiime2/core:2022.8</container>
+    </requirements>
+    <version_command>q2galaxy version longitudinal</version_command>
+    <command detect_errors="aggressive">q2galaxy run longitudinal nmit '$inputs'</command>
+    <configfiles>
+        <inputs name="inputs" data_style="paths"/>
+    </configfiles>
+    <inputs>
+        <param name="table" type="data" format="qza" label="table: FeatureTable[RelativeFrequency]" help="[required]  Feature table to use for microbial interdependence test.">
+            <options options_filter_attribute="metadata.semantic_type">
+                <filter type="add_value" value="FeatureTable[RelativeFrequency]"/>
+            </options>
+            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureTable[RelativeFrequency]']</validator>
+        </param>
+        <repeat name="metadata" min="1" help="[required]  Sample metadata file containing individual_id_column." title="metadata: Metadata">
+            <conditional name="__q2galaxy__GUI__conditional__metadata__">
+                <param name="type" type="select" label="metadata: Metadata">
+                    <option value="tsv" selected="true">Metadata from TSV</option>
+                    <option value="qza">Metadata from Artifact</option>
+                </param>
+                <when value="tsv">
+                    <param name="source" type="data" format="tabular,qiime2.tabular" label="Metadata Source"/>
+                </when>
+                <when value="qza">
+                    <param name="source" type="data" format="qza" label="Metadata Source"/>
+                </when>
+            </conditional>
+        </repeat>
+        <param name="individual_id_column" type="text" label="individual_id_column: Str" help="[required]  Metadata column containing IDs for individual subjects.">
+            <sanitizer>
+                <valid initial="string.printable"/>
+            </sanitizer>
+            <validator type="expression" message="Please verify this parameter.">value is not None and len(value) &gt; 0</validator>
+        </param>
+        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
+            <param name="corr_method" type="select" label="corr_method: Str % Choices('kendall', 'pearson', 'spearman')" display="radio">
+                <option value="kendall" selected="true">kendall</option>
+                <option value="pearson">pearson</option>
+                <option value="spearman">spearman</option>
+            </param>
+            <param name="dist_method" type="select" label="dist_method: Str % Choices('fro', 'nuc')" display="radio">
+                <option value="fro" selected="true">fro</option>
+                <option value="nuc">nuc</option>
+            </param>
+        </section>
+    </inputs>
+    <outputs>
+        <data name="distance_matrix" format="qza" label="${tool.name} on ${on_string}: distance_matrix.qza" from_work_dir="distance_matrix.qza"/>
+    </outputs>
+    <tests/>
+    <help>
+QIIME 2: longitudinal nmit
+==========================
+Nonparametric microbial interdependence test
+
+
+Outputs:
+--------
+:distance_matrix.qza: The resulting distance matrix.
+
+|  
+
+Description:
+------------
+Perform nonparametric microbial interdependence test to determine longitudinal sample similarity as a function of temporal microbial composition. For more details and citation, please see doi.org/10.1002/gepi.22065
+
+
+|  
+
+</help>
+    <citations>
+        <citation type="doi">10.1002/gepi.22065</citation>
+        <citation type="doi">10.1128/mSystems.00219-18</citation>
+        <citation type="doi">10.1038/s41587-019-0209-9</citation>
+    </citations>
+</tool>
diff -r 000000000000 -r 6f143d604b84 test-data/.gitkeep