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comparison bmsb.xml @ 12:7b0c47f9436a draft

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Uploaded
author greg
date Tue, 16 Aug 2016 09:52:25 -0400
parents 303a662c7881
children f6977dcfbec3
comparison
equal deleted inserted replaced
11:99a386ac1f5b 12:7b0c47f9436a
1 <?xml version="."?> 1 <?xml version="."?>
2 <tool id="bmsb" name="BMSB" version="1.0.0"> 2 <tool id="bmsb_model" name="Brown Marmorated Stink Bug" version="1.0.0">
3 <description></description> 3 <description>model</description>
4 <requirements> 4 <requirements>
5 <requirement type="package" version="3.3.1">r-base</requirement> 5 <requirement type="package" version="3.3.1">r-base</requirement>
6 <requirement type="package" version="1.3.0">r-optparse</requirement>
6 </requirements> 7 </requirements>
7 <command> 8 <command>
8 <![CDATA[ 9 <![CDATA[
9 #import json
10 Rscript $__tool_directory__/bmsb.R 10 Rscript $__tool_directory__/bmsb.R
11 -o "$output"
12 #if str($output_r_logging_cond.output_r_logging) == "yes": 11 #if str($output_r_logging_cond.output_r_logging) == "yes":
13 -s "true" 12 -s "true"
14 -m "$output_r_log" 13 -m "$output_r_log"
15 #end if 14 #end if
16 #if str($output_r_logging_cond.output_r_logging) == "yes": 15 -o "$output"
17 -e "true"
18 -x "$output_ex_report"
19 #end if
20 ]]> 16 ]]>
21 </command> 17 </command>
22 <inputs> 18 <inputs>
19 <param name="input" type="data" format="csv" label="Select temperature data" />
23 <conditional name="output_r_logging_cond"> 20 <conditional name="output_r_logging_cond">
24 <param name="output_r_logging" type="select" label="Output R logging?" help="Generate an additional dataset consisting of R messages."> 21 <param name="output_r_logging" type="select" label="Output R logging?" help="Generate an additional dataset consisting of R messages.">
25 <option value="yes" selected="True">Yes</option> 22 <option value="yes" selected="True">Yes</option>
26 <option value="no">No</option> 23 <option value="no">No</option>
27 </param> 24 </param>
31 </inputs> 28 </inputs>
32 <outputs> 29 <outputs>
33 <data name="output_r_log" format="txt" label="${tool.name} on ${on_string}: R log"> 30 <data name="output_r_log" format="txt" label="${tool.name} on ${on_string}: R log">
34 <filter>output_r_logging_cond['output_r_logging'] == "yes"</filter> 31 <filter>output_r_logging_cond['output_r_logging'] == "yes"</filter>
35 </data> 32 </data>
36 <data name="output_ex_report" format="json" label="${tool.name} on ${on_string}: Experiment report">
37 <filter>output_experiment_report_cond['output_experiment_report'] == "yes"</filter>
38 </data>
39 <data name="output" format="RData"/> 33 <data name="output" format="RData"/>
40 </outputs> 34 </outputs>
41 <help> 35 <help>
42 **What it does** 36 **What it does**
43 37