diff qiime2__rescript__get_unite_data.xml @ 0:6ad2084c4d2b draft

planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__rescript commit 389df0134cd0763dcf02aac6e623fc15f8861c1e

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2__rescript__get_unite_data.xml	Thu Apr 25 21:22:35 2024 +0000
@@ -0,0 +1,73 @@
+<?xml version='1.0' encoding='utf-8'?>
+<!--
+Copyright (c) 2024, 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: 2024.2.1)
+for:
+    qiime2 (version: 2024.2.0)
+-->
+<tool name="qiime2 rescript get-unite-data" id="qiime2__rescript__get_unite_data" version="2024.2.2+q2galaxy.2024.2.1" profile="22.05" license="BSD-3-Clause">
+    <description>Download and import UNITE reference data.</description>
+    <requirements>
+        <container type="docker">quay.io/qiime2/amplicon:2024.2</container>
+    </requirements>
+    <version_command>q2galaxy version rescript</version_command>
+    <command detect_errors="exit_code">q2galaxy run rescript get_unite_data '$inputs'</command>
+    <configfiles>
+        <inputs name="inputs" data_style="staging_path_and_source_path"/>
+    </configfiles>
+    <inputs>
+        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
+            <param name="version" type="select" label="version: Str % Choices('9.0', '8.3', '8.2')" display="radio">
+                <option value="9.0" selected="true">9.0</option>
+                <option value="8.3">8.3</option>
+                <option value="8.2">8.2</option>
+            </param>
+            <param name="taxon_group" type="select" label="taxon_group: Str % Choices('fungi', 'eukaryotes')" display="radio">
+                <option value="fungi">fungi</option>
+                <option value="eukaryotes" selected="true">eukaryotes</option>
+            </param>
+            <param name="cluster_id" type="select" label="cluster_id: Str % Choices('99', '97', 'dynamic')" display="radio">
+                <option value="99" selected="true">99</option>
+                <option value="97">97</option>
+                <option value="dynamic">dynamic</option>
+            </param>
+            <param name="singletons" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="singletons: Bool" help="[default: No]  Include singleton clusters in the database."/>
+        </section>
+    </inputs>
+    <outputs>
+        <data name="taxonomy" format="qza" label="${tool.name} on ${on_string}: taxonomy.qza" from_work_dir="taxonomy.qza"/>
+        <data name="sequences" format="qza" label="${tool.name} on ${on_string}: sequences.qza" from_work_dir="sequences.qza"/>
+    </outputs>
+    <tests/>
+    <help>
+QIIME 2: rescript get-unite-data
+================================
+Download and import UNITE reference data.
+
+
+Outputs:
+--------
+:taxonomy.qza: UNITE reference taxonomy.
+:sequences.qza: UNITE reference sequences.
+
+|  
+
+Description:
+------------
+Download and import ITS sequences and taxonomy from the UNITE database, given a version number and taxon_group, with the option to select a cluster_id and include singletons. Downloads data directly from UNITE's PlutoF REST API. NOTE: THIS ACTION ACQUIRES DATA FROM UNITE, which is licensed under CC BY-SA 4.0. To learn more, please visit https://unite.ut.ee/cite.php and https://creativecommons.org/licenses/by-sa/4.0/.
+
+
+|  
+
+</help>
+    <citations>
+        <citation type="doi">10.1093/nar/gky1022</citation>
+        <citation type="doi">10.1371/journal.pcbi.1009581</citation>
+        <citation type="doi">10.1038/s41587-019-0209-9</citation>
+    </citations>
+</tool>