view teste_out/teste_out.xml @ 0:a3d3dc004a88 draft default tip

Uploaded

<tool id="teste_out" name="teste_out" version="0.01">
<description>teste_tools_lucas</description>

<command interpreter="python">

            teste_out.py --script_path "$runMe" --interpreter "python" 
                --tool_name "teste_out"
                

--input_formats None
#for intab in $input1:
--input_tab "${intab},${intab.name}"
#end for

                 --output_dir "./" --output_tab "$output1"
            
</command>
<inputs>
<param name="input_tab" multiple="true"  type="data" format="None" label="Select one or more None input files from your history"
                    help="Multiple inputs may be selected assuming the script can deal with them..."/> 
<param name="job_name" type="text" size="60" label="Supply a name for the outputs to remind you what they contain" value="teste_out"/> 


</inputs>
<outputs>
 <data format="txt" name="output1" label="${job_name}"/>

</outputs>
<configfiles>
<configfile name="runMe">
 import sys
 import os
 import argparse
 
 argp=argparse.ArgumentParser()
 argp.add_argument('--innames',default=None)
 argp.add_argument('--inpaths',default=None)
 argp.add_argument('--outpath',default=None)
 argp.add_argument('--case_sensitive',default=0)
 argp.add_argument('--additional_parameters',default=[],action="append")
 argp.add_argument('otherargs', nargs=argparse.REMAINDER)
 args = argp.parse_args()
 
 
 f= open(args.outpath,'w')
 if args.case_sensitive == 0:
 	f.write('teste:\t'.join(args.innames.split(",")).upper())
 else:
 	f.write('teste:\t'.join(args.innames.split(",")))
 f.close()
</configfile>
</configfiles>
<tests>

            <test>
            <param name="input_tab" value="dataset_20.dat,dataset_22.dat" />
            <param name="job_name" value="test1"/>
            <param name="runMe" value="$runMe"/>
            <output name="output1="teste_out_test1_output.xls" ftype="tabular"/>
            
            </test>
            
</tests>
<help>


**What it Does**
teste

**Script**
Pressing execute will run the following code over your input file and generate some outputs in your history::


   import sys
 import os
 import argparse
 
 argp=argparse.ArgumentParser()
 argp.add_argument('--innames',default=None)
 argp.add_argument('--inpaths',default=None)
 argp.add_argument('--outpath',default=None)
 argp.add_argument('--case_sensitive',default=0)
 argp.add_argument('--additional_parameters',default=[],action="append")
 argp.add_argument('otherargs', nargs=argparse.REMAINDER)
 args = argp.parse_args()
 
 
 f= open(args.outpath,'w')
 if args.case_sensitive == 0:
 	f.write('teste:\t'.join(args.innames.split(",")).upper())
 else:
 	f.write('teste:\t'.join(args.innames.split(",")))
 f.close()

**Attribution**
This Galaxy tool was created by [e-mail] at 12/03/2015 17:34:22
using the Galaxy Tool Factory.

See https://bitbucket.org/fubar/galaxytoolfactory for details of that project
Please cite: Creating re-usable tools from scripts: The Galaxy Tool Factory. Ross Lazarus; Antony Kaspi; Mark Ziemann; The Galaxy Team. 
Bioinformatics 2012; doi: 10.1093/bioinformatics/bts573


This tool was autogenerated from a user provided script using the Galaxy Tool Factory 2
https://toolshed.g2.bx.psu.edu/view/fubar/tool_factory_2
</help>
<citations>
    
    <citation type="doi">10.1093/bioinformatics/bts573</citation>
</citations>
</tool>