Mercurial > repos > drosofff > sam_to_fastq
comparison sam_to_fastq.xml @ 0:4c60ceadc414 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/tools/sam_to_fastq commit 8a467239b4e3aa42c448f5a088c399e53d50c3fd-dirty
| author | drosofff |
|---|---|
| date | Mon, 21 Mar 2016 14:40:06 -0400 |
| parents | |
| children | c1ab6747fb66 |
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| -1:000000000000 | 0:4c60ceadc414 |
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| 1 <tool id="sam_to_fastq" name="SAM to FASTQ" version="0.1"> | |
| 2 <description></description> | |
| 3 <command interpreter="python">sam_to_fastq.py --input $input --output $output</command> | |
| 4 <inputs> | |
| 5 <param name="input" type="data" format="sam" label="SAM file for extraction of aligned reads in FASTQ format"/> | |
| 6 </inputs> | |
| 7 | |
| 8 <outputs> | |
| 9 <data format="fastqsanger" name="output" label="FASTQ extraction" /> | |
| 10 </outputs> | |
| 11 | |
| 12 <tests> | |
| 13 <test> | |
| 14 <param ftype="fasta" name="input" value="input.sam" /> | |
| 15 <output file="output.fastq" name="output" /> | |
| 16 </test> | |
| 17 </tests> | |
| 18 | |
| 19 | |
| 20 <help> | |
| 21 | |
| 22 **What it does** | |
| 23 | |
| 24 Extract sequence and sequence quality of aligned reads in a SAM alignment file and return a FASTQ file containing those reads | |
| 25 | |
| 26 </help> | |
| 27 | |
| 28 </tool> |