Mercurial > repos > jjohnson > mothur_toolsuite
comparison mothur/tools/mothur/fastq.info.xml @ 0:3202a38e44d9
Migrated tool version 1.15.1 from old tool shed archive to new tool shed repository
author | jjohnson |
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date | Tue, 07 Jun 2011 17:32:23 -0400 |
parents | |
children | fcc0778f6987 |
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1 <tool id="mothur_fastq_info" name="Fastq.info" version="1.15.0"> | |
2 <description>Convert fastq to fasta and quality</description> | |
3 <command interpreter="python"> | |
4 mothur_wrapper.py | |
5 --cmd='fastq.info' | |
6 --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.fasta$:'$out_fasta,'^\S+\.qual$:'$out_qfile | |
7 --outputdir='$logfile.extra_files_path' | |
8 --fastq=$fastq | |
9 </command> | |
10 <inputs> | |
11 <param name="fastq" type="data" format="fastq" label="fastq - Fastq Sequence file"/> | |
12 </inputs> | |
13 <outputs> | |
14 <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" /> | |
15 <data format="fasta" name="out_fasta" label="${tool.name} on ${on_string}: fasta"/> | |
16 <data format="qual" name="out_qfile" label="${tool.name} on ${on_string}: qual"/> | |
17 </outputs> | |
18 <requirements> | |
19 <requirement type="binary">mothur</requirement> | |
20 </requirements> | |
21 <tests> | |
22 </tests> | |
23 <help> | |
24 **Mothur Overview** | |
25 | |
26 Mothur_, initiated by Dr. Patrick Schloss and his software development team | |
27 in the Department of Microbiology and Immunology at The University of Michigan, | |
28 provides bioinformatics for the microbial ecology community. | |
29 | |
30 .. _Mothur: http://www.mothur.org/wiki/Main_Page | |
31 | |
32 **Command Documenation** | |
33 | |
34 The fastq.info_ command reads a fastq file and creates a fasta and quality file. | |
35 | |
36 | |
37 .. _fastq.info: http://www.mothur.org/wiki/Fastq.info | |
38 | |
39 </help> | |
40 </tool> |