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comparison qiime2__dada2__denoise_single.xml @ 5:354f63459d37 draft default tip

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planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__dada2 commit 5f71b597c9495eae67a447744fded834f56ca1f7
author q2d2
date Wed, 30 Oct 2024 19:36:55 +0000
parents a2112f424054
children
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4:a2112f424054 5:354f63459d37
4 4
5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause) 5 Distributed under the terms of the Modified BSD License. (SPDX: BSD-3-Clause)
6 --> 6 -->
7 <!-- 7 <!--
8 This tool was automatically generated by: 8 This tool was automatically generated by:
9 q2galaxy (version: 2024.5.0) 9 q2galaxy (version: 2024.10.0)
10 for: 10 for:
11 qiime2 (version: 2024.5.0) 11 qiime2 (version: 2024.10.1)
12 --> 12 -->
13 <tool name="qiime2 dada2 denoise-single" id="qiime2__dada2__denoise_single" version="2024.5.0+q2galaxy.2024.5.0" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 dada2 denoise-single" id="qiime2__dada2__denoise_single" version="2024.10.0+q2galaxy.2024.10.0" profile="22.05" license="BSD-3-Clause">
14 <description>Denoise and dereplicate single-end sequences</description> 14 <description>Denoise and dereplicate single-end sequences</description>
15 <xrefs>
16 <xref type="bio.tools">qiime2</xref>
17 </xrefs>
15 <requirements> 18 <requirements>
16 <container type="docker">quay.io/qiime2/amplicon:2024.5</container> 19 <container type="docker">quay.io/qiime2/amplicon:2024.10</container>
17 </requirements> 20 </requirements>
18 <version_command>q2galaxy version dada2</version_command> 21 <version_command>q2galaxy version dada2</version_command>
19 <command detect_errors="exit_code">q2galaxy run dada2 denoise_single '$inputs'</command> 22 <command detect_errors="exit_code">q2galaxy run dada2 denoise_single '$inputs'</command>
20 <configfiles> 23 <configfiles>
21 <inputs name="inputs" data_style="staging_path_and_source_path"/> 24 <inputs name="inputs" data_style="staging_path_and_source_path"/>
22 </configfiles> 25 </configfiles>
23 <inputs> 26 <inputs>
24 <param name="demultiplexed_seqs" type="data" format="qza" label="demultiplexed_seqs: SampleData[SequencesWithQuality | PairedEndSequencesWithQuality]" help="[required] The single-end demultiplexed sequences to be denoised."> 27 <param name="demultiplexed_seqs" type="data" format="qza" label="demultiplexed_seqs: SampleData[SequencesWithQuality | PairedEndSequencesWithQuality]" help="[required] The single-end demultiplexed sequences to be denoised.">
25 <options options_filter_attribute="metadata.semantic_type"> 28 <options options_filter_attribute="metadata.semantic_type">
29 <filter type="add_value" value="SampleData[SequencesWithQuality]"/>
26 <filter type="add_value" value="SampleData[PairedEndSequencesWithQuality]"/> 30 <filter type="add_value" value="SampleData[PairedEndSequencesWithQuality]"/>
27 <filter type="add_value" value="SampleData[SequencesWithQuality]"/>
28 </options> 31 </options>
29 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['SampleData[PairedEndSequencesWithQuality]', 'SampleData[SequencesWithQuality]']</validator> 32 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['SampleData[PairedEndSequencesWithQuality]', 'SampleData[SequencesWithQuality]']</validator>
30 </param> 33 </param>
31 <param name="trunc_len" type="integer" value="" label="trunc_len: Int" help="[required] Position at which sequences should be truncated due to decrease in quality. This truncates the 3' end of the of the input sequences, which will be the bases that were sequenced in the last cycles. Reads that are shorter than this value will be discarded. If 0 is provided, no truncation or length filtering will be performed"/> 34 <param name="trunc_len" type="integer" value="" label="trunc_len: Int" help="[required] Position at which sequences should be truncated due to decrease in quality. This truncates the 3' end of the of the input sequences, which will be the bases that were sequenced in the last cycles. Reads that are shorter than this value will be discarded. If 0 is provided, no truncation or length filtering will be performed"/>
32 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> 35 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">