Mercurial > repos > iuc > sra_tools
comparison fastq_dump.xml @ 8:5acb0fcd82b0 draft
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/sra-tools commit 39ca11da7daeb3fa030fcb28e8987f8d7f24aec3
| author | iuc |
|---|---|
| date | Mon, 03 Jul 2017 06:29:59 -0400 |
| parents | 52a8ae1be0d5 |
| children | 4190f26dd5e6 |
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| 7:52a8ae1be0d5 | 8:5acb0fcd82b0 |
|---|---|
| 1 <tool id="fastq_dump" name="Extract reads in Fastq/a" version="@VERSION@.2"> | 1 <tool id="fastq_dump" name="Extract reads in Fastq/a" version="@VERSION@.3"> |
| 2 <description>format from NCBI SRA</description> | 2 <description>format from NCBI SRA</description> |
| 3 <macros> | 3 <macros> |
| 4 <import>sra_macros.xml</import> | 4 <import>sra_macros.xml</import> |
| 5 </macros> | 5 </macros> |
| 6 <expand macro="requirements"/> | 6 <expand macro="requirements"/> |
| 47 #end if | 47 #end if |
| 48 fastq-dump --accession "\$acc" | 48 fastq-dump --accession "\$acc" |
| 49 --split-files | 49 --split-files |
| 50 #end if | 50 #end if |
| 51 --defline-seq '@\$sn[_\$rn]/\$ri' | 51 --defline-seq '@\$sn[_\$rn]/\$ri' |
| 52 --defline-qual '+' | |
| 52 | 53 |
| 53 $adv.split | 54 $adv.split |
| 54 #if str( $adv.alignments ) == "aligned": | 55 #if str( $adv.alignments ) == "aligned": |
| 55 --aligned | 56 --aligned |
| 56 #end if | 57 #end if |