Mercurial > repos > jjohnson > mothur_toolsuite
view mothur/tools/mothur/make.group.xml @ 33:d53b9eb16c2d
mothur_wrapper.py - convert_value needs to return a String
author | Jim Johnson <jj@umn.edu> |
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date | Wed, 11 Sep 2013 16:56:31 -0500 |
parents | 49058b1f8d3f |
children | 95d75b35e4d2 |
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<tool id="mothur_make_files" name="Make.group" version="1.19.0"> <description>Make a group file</description> <command interpreter="python"> mothur_wrapper.py --cmd='make.group' --result='^mothur.\S+\.logfile$:'$logfile,'^\S+\.group:'$output --outputdir='$logfile.extra_files_path' --fasta=${fasta}#for i in $inputs#,${i.fasta}#end for# --groups=${group}#for i in $inputs#,${i.group}#end for# </command> <inputs> <param name="fasta" type="data" format="fasta" label="fasta - Fasta to group"/> <param name="group" type="text" label="group - Group name"/> <repeat name="inputs" title="Additional"> <param name="fasta" type="data" format="fasta" label="fasta - Fasta to group"/> <param name="group" type="text" label="group - Group name"/> </repeat> </inputs> <outputs> <data format="html" name="logfile" label="${tool.name} on ${on_string}: logfile" /> <data format="groups" name="output" label="${tool.name} on ${on_string}: group" /> </outputs> <requirements> <requirement type="package" version="1.27">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 make.group_ command reads a fasta file or series of fasta files and creates a group_ file. .. _group: http://www.mothur.org/wiki/Group_file .. _make.group: http://www.mothur.org/wiki/Make.group </help> </tool>