Mercurial > repos > q2d2 > qiime2__cutadapt__trim_paired
changeset 6:aa7ffb412083 draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__cutadapt commit b1fccfb38b4873cd4699743033449014a2978e7d
| author | q2d2 |
|---|---|
| date | Mon, 05 May 2025 18:41:54 +0000 |
| parents | e82bd0e0c7ad |
| children | |
| files | qiime2__cutadapt__trim_paired.xml test-data/demux_paired.test0.seqs.qza test-data/demux_single.test0.seqs.qza |
| diffstat | 3 files changed, 7 insertions(+), 5 deletions(-) [+] |
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--- 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) > 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."/>