Mercurial > repos > drosofff > fetch_fasta_from_ncbi

comparison retrieve_fasta_from_NCBI.xml @ 6:fe9549854fa2 draft

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planemo upload for repository https://bitbucket.org/drosofff/gedtools/
author drosofff
date Sat, 30 May 2015 18:05:25 -0400
parents aa61d63b7e31
children f57ebdc7ad56
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5:4ff395248db4 6:fe9549854fa2
1 <tool id="retrieve_fasta_from_NCBI" name="Retrieve FASTA from NCBI" version="0.9.2"> 1 <tool id="retrieve_fasta_from_NCBI" name="Retrieve FASTA from NCBI" version="0.9.2">
2 <description></description> 2 <description></description>
3 <command interpreter="python">retrieve_fasta_from_NCBI.py -i "$queryString" -d $dbname -o $outfilename -l $logfile </command> 3 <command interpreter="python">retrieve_fasta_from_NCBI.py -i "$queryString" -d $dbname -o $outfilename -l $logfile </command>
4 4
5 <inputs> 5 <inputs>
6 <param name="queryString" type="text" size="5x80" area="True" value="txid10239[orgn] NOT txid131567[orgn] AND complete NOT partial[title] NOT phage[title]" label="Query to NCBI in entrez format" help="exemple:'Drosophila melanogaster[Organism] AND Gcn5[Title]"> 6 <param name="queryString" type="text" size="5x80" area="True" value="txid10239[orgn] NOT txid131567[orgn] AND complete[all] NOT partial[title] NOT phage[title]" label="Query to NCBI in entrez format" help="exemple:'Drosophila melanogaster[Organism] AND Gcn5[Title]">
7 <sanitizer> 7 <sanitizer>
8 <valid initial="string.printable"> 8 <valid initial="string.printable">
9 <remove value="&quot;"/> 9 <remove value="&quot;"/>
10 <remove value="\"/> 10 <remove value="\"/>
11 </valid> 11 </valid>