Mercurial > repos > q2d2 > qiime2__cutadapt__trim_paired
changeset 3:d3cdc3eafc41 draft default tip
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__cutadapt commit 389df0134cd0763dcf02aac6e623fc15f8861c1e
| author | q2d2 |
|---|---|
| date | Thu, 25 Apr 2024 20:53:48 +0000 |
| parents | b7fc07bacdb2 |
| 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, 6 insertions(+), 7 deletions(-) [+] |
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--- a/qiime2__cutadapt__trim_paired.xml Thu Jun 08 19:35:06 2023 +0000 +++ b/qiime2__cutadapt__trim_paired.xml Thu Apr 25 20:53:48 2024 +0000 @@ -1,24 +1,24 @@ <?xml version='1.0' encoding='utf-8'?> <!-- -Copyright (c) 2023, QIIME 2 development team. +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: 2023.5.0) + q2galaxy (version: 2024.2.1) for: - qiime2 (version: 2023.5.1) + qiime2 (version: 2024.2.0) --> -<tool name="qiime2 cutadapt trim-paired" id="qiime2__cutadapt__trim_paired" version="2023.5.1+q2galaxy.2023.5.0.2" profile="22.05" license="BSD-3-Clause"> +<tool name="qiime2 cutadapt trim-paired" id="qiime2__cutadapt__trim_paired" version="2024.2.0+q2galaxy.2024.2.1" profile="22.05" license="BSD-3-Clause"> <description>Find and remove adapters in demultiplexed paired-end sequences.</description> <requirements> - <container type="docker">quay.io/qiime2/core:2023.5</container> + <container type="docker">quay.io/qiime2/amplicon:2024.2</container> </requirements> <version_command>q2galaxy version cutadapt</version_command> <command detect_errors="exit_code">q2galaxy run cutadapt trim_paired '$inputs'</command> <configfiles> - <inputs name="inputs" data_style="paths"/> + <inputs name="inputs" data_style="staging_path_and_source_path"/> </configfiles> <inputs> <param name="demultiplexed_sequences" type="data" format="qza" label="demultiplexed_sequences: SampleData[PairedEndSequencesWithQuality]" help="[required] The paired-end sequences to be trimmed."> @@ -28,7 +28,6 @@ <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['SampleData[PairedEndSequencesWithQuality]']</validator> </param> <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> - <param name="cores" type="integer" min="1" value="1" label="cores: Int % Range(1, None)" help="[default: 1] Number of CPU cores to use."/> <repeat name="adapter_f" help="[optional] Sequence of an adapter ligated to the 3' end. The adapter and any subsequent bases are trimmed. If a `$` is appended, the adapter is only found if it is at the end of the read. Search in forward read. If your sequence of interest is "framed" by a 5' and a 3' adapter, use this parameter to define a "linked" primer - see https://cutadapt.readthedocs.io for complete details." title="adapter_f: List[Str]"> <param name="element" type="text" label="element: Str" help="[required]"> <sanitizer>