Mercurial > repos > jjohnson > mothur_toolsuite
annotate mothur/tools/mothur/make.fastq.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 |
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children | ee59e5cff3ba |
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2
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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_make_fastq" name="Make.fastq" version="1.19.0"> |
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2 <description>Convert fasta and quality to fastq</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+\.fastq$:'$fastq |
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7 --outputdir='$logfile.extra_files_path' |
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8 --fasta=$fasta |
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9 --qfile=$qfile |
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10 </command> |
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11 <inputs> |
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12 <param name="fasta" type="data" format="fasta" label="fasta - Fasta Sequence file"/> |
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13 <param name="qfile" type="data" format="qual" label="qfile - Sequence Quality file"/> |
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14 </inputs> |
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15 <outputs> |
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16 <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" /> |
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17 <data format="fastq" name="fastq" label="${tool.name} on ${on_string}: fastq"/> |
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18 </outputs> |
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19 <requirements> |
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20 <requirement type="binary">mothur</requirement> |
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21 </requirements> |
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22 <tests> |
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23 </tests> |
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24 <help> |
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25 **Mothur Overview** |
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26 |
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27 Mothur_, initiated by Dr. Patrick Schloss and his software development team |
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28 in the Department of Microbiology and Immunology at The University of Michigan, |
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29 provides bioinformatics for the microbial ecology community. |
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30 |
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31 .. _Mothur: http://www.mothur.org/wiki/Main_Page |
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32 |
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33 **Command Documenation** |
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34 |
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35 The fastq.info_ command reads a fasta file and quality file and creates a fastq. |
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36 |
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37 |
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38 .. _fastq.info: http://www.mothur.org/wiki/Make.fastq |
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39 |
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40 </help> |
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41 </tool> |