# HG changeset patch
# User q2d2
# Date 1746470514 0
# Node ID aa7ffb41208330eb306ddf4b119f73223169f93d
# Parent  e82bd0e0c7ad234abef2b1a23b90a8fbeb190231
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__cutadapt commit b1fccfb38b4873cd4699743033449014a2978e7d

diff -r e82bd0e0c7ad -r aa7ffb412083 qiime2__cutadapt__trim_paired.xml
--- a/qiime2__cutadapt__trim_paired.xml	Wed Oct 30 19:36:37 2024 +0000
+++ b/qiime2__cutadapt__trim_paired.xml	Mon May 05 18:41:54 2025 +0000
@@ -1,22 +1,22 @@
 <?xml version='1.0' encoding='utf-8'?>
 <!--
-Copyright (c) 2024, QIIME 2 development team.
+Copyright (c) 2025, 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: 2024.10.0)
+    q2galaxy (version: 2025.4.0)
 for:
-    qiime2 (version: 2024.10.1)
+    qiime2 (version: 2025.4.0)
 -->
-<tool name="qiime2 cutadapt trim-paired" id="qiime2__cutadapt__trim_paired" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause">
+<tool name="qiime2 cutadapt trim-paired" id="qiime2__cutadapt__trim_paired" version="2025.4.0+q2galaxy.2025.4.0" profile="22.05" license="BSD-3-Clause">
     <description>Find and remove adapters in demultiplexed paired-end sequences.</description>
     <xrefs>
         <xref type="bio.tools">qiime2</xref>
     </xrefs>
     <requirements>
-        <container type="docker">quay.io/qiime2/amplicon:2024.10</container>
+        <container type="docker">quay.io/qiime2/amplicon:2025.4</container>
     </requirements>
     <version_command>q2galaxy version cutadapt</version_command>
     <command detect_errors="exit_code">q2galaxy run cutadapt trim_paired '$inputs'</command>
@@ -79,6 +79,8 @@
                     <validator type="expression" message="Please verify this parameter.">value is not None and len(value) &gt; 0</validator>
                 </param>
             </repeat>
+            <param name="forward_cut" type="integer" value="0" label="forward_cut: Int" help="[default: 0]  Unconditionally remove bases from the beginning or end of each forward read. Cutting is applied before adapter trimming. Use a positive integer to remove bases from the 5' end and a negative integer to remove bases from the 3' end."/>
+            <param name="reverse_cut" type="integer" value="0" label="reverse_cut: Int" help="[default: 0]  Unconditionally remove bases from the beginning or end of each reverse read. Cutting is applied before adapter trimming. Use a positive integer to remove bases from the 5' end and a negative integer to remove bases from the 3' end."/>
             <param name="error_rate" type="float" min="0" max="1" value="0.1" label="error_rate: Float % Range(0, 1, inclusive_end=True)" help="[default: 0.1]  Maximum allowed error rate."/>
             <param name="indels" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" checked="true" label="indels: Bool" help="[default: Yes]  Allow insertions or deletions of bases when matching adapters."/>
             <param name="times" type="integer" min="1" value="1" label="times: Int % Range(1, None)" help="[default: 1]  Remove multiple occurrences of an adapter if it is repeated, up to `times` times."/>
diff -r e82bd0e0c7ad -r aa7ffb412083 test-data/demux_paired.test0.seqs.qza
Binary file test-data/demux_paired.test0.seqs.qza has changed
diff -r e82bd0e0c7ad -r aa7ffb412083 test-data/demux_single.test0.seqs.qza
Binary file test-data/demux_single.test0.seqs.qza has changed