Mercurial > repos > jjohnson > mothur_toolsuite
view mothur/tools/mothur/fastq.info.xml @ 24:09740be2bc9c
Mothur - updates for Mothur version 1.24
author | Jim Johnson <jj@umn.edu> |
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date | Wed, 28 Mar 2012 15:45:03 -0500 |
parents | 4f797d3eee3a |
children | 49058b1f8d3f |
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<tool id="mothur_fastq_info" name="Fastq.info" version="1.24.0"> <description>Convert fastq to fasta and quality</description> <command interpreter="python"> mothur_wrapper.py --cmd='fastq.info' --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.fasta$:'$out_fasta,'^\S+\.qual$:'$out_qfile --outputdir='$logfile.extra_files_path' --fastq=$fastq </command> <inputs> <param name="fastq" type="data" format="fastq" label="fastq - Fastq Sequence file"/> <param name="fasta" type="boolean" truevalue="" falsevalue="--fasta=false" checked="true" label="fasta - Add fasta to your history" /> <param name="qfile" type="boolean" truevalue="" falsevalue="--qfile=false" checked="true" label="qfile - Add qfile to your history" /> </inputs> <outputs> <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" /> <data format="fasta" name="out_fasta" label="${tool.name} on ${on_string}: fasta"> <filter>fasta == True</filter> </data> <data format="qual454" name="out_qfile" label="${tool.name} on ${on_string}: qual"> <filter>qfile == True</filter> </data> </outputs> <requirements> <requirement type="binary">mothur</requirement> </requirements> <tests> </tests> <help> **Mothur Overview** Mothur_, initiated by Dr. Patrick Schloss and his software development team in the Department of Microbiology and Immunology at The University of Michigan, provides bioinformatics for the microbial ecology community. .. _Mothur: http://www.mothur.org/wiki/Main_Page **Command Documenation** The fastq.info_ command reads a fastq file and creates a fasta and quality file. .. _fastq.info: http://www.mothur.org/wiki/Fastq.info </help> </tool>