Mercurial > repos > jjohnson > mothur_toolsuite
annotate mothur/tools/mothur/fastq.info.xml @ 2:e990ac8a0f58
Migrated tool version 1.19.0 from old tool shed archive to new tool shed repository
author | jjohnson |
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date | Tue, 07 Jun 2011 17:39:06 -0400 |
parents | fcc0778f6987 |
children | 4f797d3eee3a |
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Migrated tool version 1.19.0 from old tool shed archive to new tool shed repository
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1 <tool id="mothur_fastq_info" name="Fastq.info" version="1.19.0"> |
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2 <description>Convert fastq to fasta and quality</description> |
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3 <command interpreter="python"> |
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4 mothur_wrapper.py |
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5 --cmd='fastq.info' |
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6 --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.fasta$:'$out_fasta,'^\S+\.qual$:'$out_qfile |
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7 --outputdir='$logfile.extra_files_path' |
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8 --fastq=$fastq |
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9 </command> |
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10 <inputs> |
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11 <param name="fastq" type="data" format="fastq" label="fastq - Fastq Sequence file"/> |
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12 </inputs> |
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13 <outputs> |
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14 <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" /> |
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15 <data format="fasta" name="out_fasta" label="${tool.name} on ${on_string}: fasta"/> |
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16 <data format="qual" name="out_qfile" label="${tool.name} on ${on_string}: qual"/> |
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17 </outputs> |
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18 <requirements> |
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19 <requirement type="binary">mothur</requirement> |
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20 </requirements> |
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21 <tests> |
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22 </tests> |
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23 <help> |
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24 **Mothur Overview** |
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25 |
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26 Mothur_, initiated by Dr. Patrick Schloss and his software development team |
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27 in the Department of Microbiology and Immunology at The University of Michigan, |
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28 provides bioinformatics for the microbial ecology community. |
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29 |
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30 .. _Mothur: http://www.mothur.org/wiki/Main_Page |
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31 |
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32 **Command Documenation** |
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33 |
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34 The fastq.info_ command reads a fastq file and creates a fasta and quality file. |
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35 |
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36 |
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37 .. _fastq.info: http://www.mothur.org/wiki/Fastq.info |
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38 |
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39 </help> |
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40 </tool> |