Mercurial > repos > matt-shirley > sra_tools
comparison sra_fetch.xml @ 37:4da2d7f0128e draft
Exposed more options for fastq_dump and sam_dump
| author | Matt Shirley <mdshw5@gmail.com> |
|---|---|
| date | Thu, 01 Aug 2013 13:57:27 -0400 |
| parents | 423f3eb06428 |
| children |
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| 36:b5274b0e61bc | 37:4da2d7f0128e |
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| 1 <tool id="sra_fetch" name="Fetch sra run" version="1.0.3"> | 1 <tool id="sra_fetch" name="Fetch SRA archive" version="1.0.3"> |
| 2 <description> by accession from NCBI sra.</description> | 2 <description> by accession from NCBI SRA.</description> |
| 3 <command interpreter="python">sra_fetch.py --accession '$accession' --out '$output'</command> | 3 <command interpreter="python">sra_fetch.py --accession '$accession' --out '$output'</command> |
| 4 <inputs> | 4 <inputs> |
| 5 <param name="accession" size="13" type="text" value="SRR000001" label="sra run accession"/> | 5 <param name="accession" size="13" type="text" value="SRR000001" label="sra run accession"/> |
| 6 </inputs> | 6 </inputs> |
| 7 <outputs> | 7 <outputs> |
| 8 <data format="sra" name="output" label="Fetch sra ${accession.value}"/> | 8 <data format="sra" name="output" label="${accession.value}"/> |
| 9 </outputs> | 9 </outputs> |
| 10 <help> | 10 <help> |
| 11 This tool fetches sra archives by accession from NCBI over ftp. | 11 This tool fetches sra archives by accession from NCBI over FTP. |
| 12 </help> | 12 </help> |
| 13 </tool> | 13 </tool> |