annotate display_applications/proteomics/mzML.xml @ 3:255b5b6ec617 draft default tip

Better defaults for omssa

<display id="proteomics_mzml" version="1.0.2" name="view mzML data">
	<dynamic_links from_file="tool-data/protk_display_site.txt" skip_startswith="#" id="0" name="0">
        <!-- Define parameters by column from file -->
        <dynamic_param name="site_id" value="0"/>
        <dynamic_param name="site_url" value="1"/>
        <!-- We define url and params as normal, but values defined in dynamic_param are available by specified name -->
        <url target_frame="galaxy_main">${site_url}/init_local?file=${encoded_filename.qp}&amp;type=mzml</url>
        <param type="data" name="raw_file" viewable="False" format="mzML"/>
        <param type="data" dataset="raw_file" name="mzml_file" format="mzML" viewable="False" />
        <param type="template" name="encoded_filename" strip="True" >
            #import binascii
            ${binascii.hexlify( $mzml_file.file_name )}
        </param>
        <param type="template" name="galaxy_url" strip="True" >
                ${BASE_URL.split(":")[1][2:]}
        </param>
    </dynamic_links>
</display>