Mercurial > repos > q2d2 > qiime2__vsearch__dereplicate_sequences

comparison qiime2__vsearch__dereplicate_sequences.xml @ 1:89cf98a14b38 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/qiime2/galaxy-tools/tree/main/tools/suite_qiime2__vsearch commit 69da7976573cc07a363ac66bdacc9269d7cd3732
author q2d2
date Fri, 13 Jan 2023 23:01:56 +0000
parents 29ceae287ad6
children 4fb2b5e9beba
comparison
equal deleted inserted replaced
0:29ceae287ad6 1:89cf98a14b38
1 <?xml version='1.0' encoding='utf-8'?> 1 <?xml version='1.0' encoding='utf-8'?>
2 <!-- 2 <!--
3 Copyright (c) 2022, QIIME 2 development team. 3 Copyright (c) 2023, QIIME 2 development team.
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: 2022.8.1) 9 q2galaxy (version: 2022.11.1)
10 for: 10 for:
11 qiime2 (version: 2022.8.1) 11 qiime2 (version: 2022.11.1)
12 --> 12 -->
13 <tool name="qiime2 vsearch dereplicate-sequences" id="qiime2__vsearch__dereplicate_sequences" version="2022.8.0+q2galaxy.2022.8.1.2" profile="22.05" license="BSD-3-Clause"> 13 <tool name="qiime2 vsearch dereplicate-sequences" id="qiime2__vsearch__dereplicate_sequences" version="2022.11.1+q2galaxy.2022.11.1.2" profile="22.05" license="BSD-3-Clause">
14 <description>Dereplicate sequences.</description> 14 <description>Dereplicate sequences.</description>
15 <requirements> 15 <requirements>
16 <container type="docker">quay.io/qiime2/core:2022.8</container> 16 <container type="docker">quay.io/qiime2/core:2022.11</container>
17 </requirements> 17 </requirements>
18 <version_command>q2galaxy version vsearch</version_command> 18 <version_command>q2galaxy version vsearch</version_command>
19 <command detect_errors="aggressive">q2galaxy run vsearch dereplicate_sequences '$inputs'</command> 19 <command detect_errors="exit_code">q2galaxy run vsearch dereplicate_sequences '$inputs'</command>
20 <configfiles> 20 <configfiles>
21 <inputs name="inputs" data_style="paths"/> 21 <inputs name="inputs" data_style="paths"/>
22 </configfiles> 22 </configfiles>
23 <inputs> 23 <inputs>
24 <param name="sequences" type="data" format="qza" label="sequences: SampleData[Sequences] | SampleData[SequencesWithQuality] | SampleData[JoinedSequencesWithQuality]" help="[required] The sequences to be dereplicated."> 24 <param name="sequences" type="data" format="qza" label="sequences: SampleData[Sequences] | SampleData[SequencesWithQuality] | SampleData[JoinedSequencesWithQuality]" help="[required] The sequences to be dereplicated.">
29 </options> 29 </options>
30 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['SampleData[JoinedSequencesWithQuality]', 'SampleData[SequencesWithQuality]', 'SampleData[Sequences]']</validator> 30 <validator type="expression" message="Incompatible type">hasattr(value.metadata, "semantic_type") and value.metadata.semantic_type in ['SampleData[JoinedSequencesWithQuality]', 'SampleData[SequencesWithQuality]', 'SampleData[Sequences]']</validator>
31 </param> 31 </param>
32 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options"> 32 <section name="__q2galaxy__GUI__section__extra_opts__" title="Click here for additional options">
33 <param name="derep_prefix" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="derep_prefix: Bool" help="[default: No] Merge sequences with identical prefixes. If a sequence is identical to the prefix of two or more longer sequences, it is clustered with the shortest of them. If they are equally long, it is clustered with the most abundant."/> 33 <param name="derep_prefix" type="boolean" truevalue="__q2galaxy__::literal::True" falsevalue="__q2galaxy__::literal::False" label="derep_prefix: Bool" help="[default: No] Merge sequences with identical prefixes. If a sequence is identical to the prefix of two or more longer sequences, it is clustered with the shortest of them. If they are equally long, it is clustered with the most abundant."/>
34 <param name="min_seq_length" type="integer" min="1" value="1" label="min_seq_length: Int % Range(1, None)" help="[default: 1] Discard sequences shorter than this integer."/>
35 <param name="min_unique_size" type="integer" min="1" value="1" label="min_unique_size: Int % Range(1, None)" help="[default: 1] Discard sequences with a post-dereplication abundance value smaller than integer."/>
34 </section> 36 </section>
35 </inputs> 37 </inputs>
36 <outputs> 38 <outputs>
37 <data name="dereplicated_table" format="qza" label="${tool.name} on ${on_string}: dereplicated_table.qza" from_work_dir="dereplicated_table.qza"/> 39 <data name="dereplicated_table" format="qza" label="${tool.name} on ${on_string}: dereplicated_table.qza" from_work_dir="dereplicated_table.qza"/>
38 <data name="dereplicated_sequences" format="qza" label="${tool.name} on ${on_string}: dereplicated_sequences.qza" from_work_dir="dereplicated_sequences.qza"/> 40 <data name="dereplicated_sequences" format="qza" label="${tool.name} on ${on_string}: dereplicated_sequences.qza" from_work_dir="dereplicated_sequences.qza"/>