Mercurial > repos > earlhaminst > gstf_preparation

comparison gstf_preparation.xml @ 12:99bae410128c draft

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"planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/tools/gstf_preparation commit 4579d0c461c30183a3092d84013e30f53f072ca1-dirty"
author earlhaminst
date Mon, 05 Oct 2020 13:33:59 +0000
parents dbe37a658cd2
children 51a7a2a82902
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11:dbe37a658cd2 12:99bae410128c
1 <tool id="gstf_preparation" name="GeneSeqToFamily preparation" version="0.4.2"> 1 <tool id="gstf_preparation" name="GeneSeqToFamily preparation" version="0.4.3">
2 <description>converts data for the workflow</description> 2 <description>converts data for the workflow</description>
3 <requirements> 3 <requirements>
4 <requirement type="package" version="3.7">python</requirement> 4 <requirement type="package" version="3.7">python</requirement>
5 </requirements> 5 </requirements>
6 <command detect_errors="exit_code"><![CDATA[ 6 <command detect_errors="exit_code"><![CDATA[
45 <option value="">All transcripts</option> 45 <option value="">All transcripts</option>
46 </param> 46 </param>
47 47
48 <param name="headers" type="select" display="radio" label="Change the header line of the FASTA sequences to the following format" help="As required by TreeBest, part of the GeneSeqToFamily workflow, only TranscriptId_species is acceptable format by Aequatus visualisation"> 48 <param name="headers" type="select" display="radio" label="Change the header line of the FASTA sequences to the following format" help="As required by TreeBest, part of the GeneSeqToFamily workflow, only TranscriptId_species is acceptable format by Aequatus visualisation">
49 <option value="TranscriptId_species" selected="true">TranscriptId_species</option> 49 <option value="TranscriptId_species" selected="true">TranscriptId_species</option>
50 <option value="GeneSymbol-TranscriptID_species">GeneSymbol-TranscriptID_species</option> 50 <option value="TranscriptID-GeneSymbol_species">GeneSymbol-TranscriptID_species</option>
51 <option value="TranscriptSymbol-TranscriptID_species">TranscriptSymbol-TranscriptID_species</option> 51 <option value="TranscriptID-TranscriptSymbol_species">TranscriptSymbol-TranscriptID_species</option>
52 <option value="">Don't change</option> 52 <option value="">Don't change</option>
53 </param> 53 </param>
54 <param name="regions" type="text" optional="true" label="Comma-separated list of region IDs (e.g. chromosomes or scaffolds) for which FASTA sequences should be filtered out" help="Region IDs are in the `seqid` column for GFF3 and in the `seq_region_name` field in JSON. This is typically used to filter out chromosomes with a non-standard genetic code, like mitochondria, to be analysed separately" /> 54 <param name="regions" type="text" optional="true" label="Comma-separated list of region IDs (e.g. chromosomes or scaffolds) for which FASTA sequences should be filtered out" help="Region IDs are in the `seqid` column for GFF3 and in the `seq_region_name` field in JSON. This is typically used to filter out chromosomes with a non-standard genetic code, like mitochondria, to be analysed separately" />
55 </inputs> 55 </inputs>
56 56