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comparison aws_sra.xml @ 28:8e6c35583761 draft

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planemo upload for repository https://github.com/CFSAN-Biostatistics/galaxytrakr-tools commit 133ce5adcf21338376fb8a1fa0003d97ffc8cbbb
author galaxytrakr
date Tue, 24 Mar 2026 01:35:38 +0000
parents 4f6a7017cbbb
children 569a598c7e68
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27:4f6a7017cbbb 28:8e6c35583761
1 <tool id="aws_sra" name="NCBI SRA AWS Fetch" version="0.4.0+gt_0.6" profile="23.0"> 1 <tool id="aws_sra" name="NCBI SRA AWS Fetch" version="0.4.0+gt_0.7" profile="23.0">
2 <description>Fetches one or more SRA runs from AWS S3 and converts them to FASTQ</description> 2 <description>Fetches one or more SRA runs from AWS S3 and converts them to FASTQ</description>
3 3
4 <requirements> 4 <requirements>
5 <requirement type="package" version="2.34.8">awscli</requirement> 5 <requirement type="package" version="2.34.8">awscli</requirement>
6 <requirement type="package" version="3.2.1">sra-tools</requirement> 6 <requirement type="package" version="3.2.1">sra-tools</requirement>
42 rm -rf sra_cache_${acc} fastq_out_${acc} 42 rm -rf sra_cache_${acc} fastq_out_${acc}
43 done 43 done
44 ]]></command> 44 ]]></command>
45 45
46 <inputs> 46 <inputs>
47 <param name="accession" type="data" format="txt" multiple="true" label="SRA Accession(s)" help="Provide one or more accession numbers (separated by commas, spaces, or newlines). This field accepts a dataset list of accessions in a workflow."/> 47 <param name="accession" type="text" label="SRA Accession(s)" value="" optional="false" help="Provide one or more accession numbers (separated by commas, spaces, or newlines)."/>
48 <param name="layout" type="select" label="Read layout" help="This setting is applied to all accessions."> 48 <param name="layout" type="select" label="Read layout" optional="false" help="This setting is applied to all accessions.">
49 <option value="paired" selected="true">Paired-end (R1 + R2)</option> 49 <option value="paired" selected="true">Paired-end (R1 + R2)</option>
50 <option value="single">Single-end</option> 50 <option value="single">Single-end</option>
51 </param> 51 </param>
52 </inputs> 52 </inputs>
53 53