comparison rgToolFactory2.py @ 3:d75fd880fce2 draft

Uploaded

2:6a3c292412fa

        <tool id="reverse" name="reverse" version="0.01">
            <description>a tabular file</description>
            <command interpreter="python">
            reverse.py --script_path "$runMe" --interpreter "python" 
            --tool_name "reverse" --input_tab "$input1" --output_tab "$tab_file" 
            </command>
            <inputs>
            <param name="input1"  type="data" format="tabular" label="Select one or more input files from your history"/>
            <param name="job_name" type="text" label="Supply a name for the outputs to remind you what they contain" value="reverse"/>
            </inputs>
            <outputs>
            <data format="tabular" name="tab_file" label="${job_name}"/>

            </outputs>
            <help>
            
**What it Does**

            xdict['command_outputs'] += ' --output_dir "$html_file.files_path" --output_html "$html_file" --make_HTML "yes"'
            xdict['outputs'] +=  ' <data format="html" name="html_file" label="${job_name}.html"/>\n'
        else:
            xdict['command_outputs'] += ' --output_dir "./"' 
        if self.opts.output_tab:
            xdict['command_outputs'] += ' --output_tab "$tab_file"'
            xdict['outputs'] += ' <data format="%s" name="output1" label="${job_name}"/>\n' % self.outFormats
        xdict['command'] = newCommand % xdict
        if self.opts.citations:
            citationstext = open(self.opts.citations,'r').read()
            citation_tuples = parse_citations(citationstext)

3:d75fd880fce2

        <tool id="reverse" name="reverse" version="0.01">
            <description>a tabular file</description>
            <command interpreter="python">
            reverse.py --script_path "$runMe" --interpreter "python" 
            --tool_name "reverse" --input_tab "$input1" --output_tab "$output1" 
            </command>
            <inputs>
            <param name="input1"  type="data" format="tabular" label="Select one or more input files from your history"/>
            <param name="job_name" type="text" label="Supply a name for the outputs to remind you what they contain" value="reverse"/>
            </inputs>
            <outputs>
            <data format="tabular" name="output1q" label="${job_name}"/>

            </outputs>
            <help>
            
**What it Does**

            xdict['command_outputs'] += ' --output_dir "$html_file.files_path" --output_html "$html_file" --make_HTML "yes"'
            xdict['outputs'] +=  ' <data format="html" name="html_file" label="${job_name}.html"/>\n'
        else:
            xdict['command_outputs'] += ' --output_dir "./"' 
        if self.opts.output_tab:
            xdict['command_outputs'] += ' --output_tab "$output1"'
            xdict['outputs'] += ' <data format="%s" name="output1" label="${job_name}"/>\n' % self.outFormats
        xdict['command'] = newCommand % xdict
        if self.opts.citations:
            citationstext = open(self.opts.citations,'r').read()
            citation_tuples = parse_citations(citationstext)