# HG changeset patch
# User q2d2
# Date 1661804470 0
# Node ID 05a80b98a5dde9f0ff42ceda41857a1a8ea518c3

planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__quality_control commit 9023cfd83495a517fbcbb6f91d5b01a6f1afcda1

diff -r 000000000000 -r 05a80b98a5dd qiime2__quality_control__evaluate_seqs.xml
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/qiime2__quality_control__evaluate_seqs.xml	Mon Aug 29 20:21:10 2022 +0000
@@ -0,0 +1,68 @@
+<?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 quality-control evaluate-seqs" id="qiime2__quality_control__evaluate_seqs" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause">
+    <description>Compare query (observed) vs. reference (expected) sequences.</description>
+    <requirements>
+        <container type="docker">quay.io/qiime2/core:2022.8</container>
+    </requirements>
+    <version_command>q2galaxy version quality_control</version_command>
+    <command detect_errors="aggressive">q2galaxy run quality_control evaluate_seqs '$inputs'</command>
+    <configfiles>
+        <inputs name="inputs" data_style="paths"/>
+    </configfiles>
+    <inputs>
+        <param name="query_sequences" type="data" format="qza" label="query_sequences: FeatureData[Sequence]" help="[required]  Sequences to test for exclusion">
+            <options options_filter_attribute="metadata.semantic_type">
+                <filter type="add_value" value="FeatureData[Sequence]"/>
+            </options>
+            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Sequence]']</validator>
+        </param>
+        <param name="reference_sequences" type="data" format="qza" label="reference_sequences: FeatureData[Sequence]" help="[required]  Reference sequences to align against feature sequences">
+            <options options_filter_attribute="metadata.semantic_type">
+                <filter type="add_value" value="FeatureData[Sequence]"/>
+            </options>
+            <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['FeatureData[Sequence]']</validator>
+        </param>
+        <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
+            <param name="show_alignments" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="show_alignments: Bool" help="[default: No]  Option to plot pairwise alignments of query sequences and their top hits."/>
+        </section>
+    </inputs>
+    <outputs>
+        <data name="visualization" format="qzv" label="${tool.name} on ${on_string}: visualization.qzv" from_work_dir="visualization.qzv"/>
+    </outputs>
+    <tests/>
+    <help>
+QIIME 2: quality-control evaluate-seqs
+======================================
+Compare query (observed) vs. reference (expected) sequences.
+
+
+Outputs:
+--------
+:visualization.qzv: &lt;no description&gt;
+
+|  
+
+Description:
+------------
+This action aligns a set of query (e.g., observed) sequences against a set of reference (e.g., expected) sequences to evaluate the quality of alignment. The intended use is to align observed sequences against expected sequences (e.g., from a mock community) to determine the frequency of mismatches between observed sequences and the most similar expected sequences, e.g., as a measure of sequencing/method error. However, any sequences may be provided as input to generate a report on pairwise alignment quality against a set of reference sequences.
+
+
+|  
+
+</help>
+    <citations>
+        <citation type="doi">10.1186/1471-2105-10-421</citation>
+        <citation type="doi">10.1038/s41587-019-0209-9</citation>
+    </citations>
+</tool>
diff -r 000000000000 -r 05a80b98a5dd test-data/.gitkeep