Mercurial > repos > galaxyp > idconvert
diff idconvert.xml @ 0:4f7d6bec667f draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/msconvert commit 4fa5bf9c62e4bba06c4d6e7de962c85959b61579-dirty
author | galaxyp |
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date | Fri, 08 Apr 2016 16:07:32 -0400 |
parents | |
children | 9e6e840d6b52 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/idconvert.xml Fri Apr 08 16:07:32 2016 -0400 @@ -0,0 +1,49 @@ +<tool id="idconvert" name="idconvert" version="@VERSION@.0"> + <description>Convert mass spectrometry identification files</description> + + <macros> + <import>msconvert_macros.xml</import> + </macros> + + <expand macro="generic_requirements" /> + + <command> +<![CDATA[ +#set input_name +ln -s $input input.${input.extension} +idconvert input + +]]> + </command> + + <inputs> + <conditional name="from"> + <param name="from_format" type="select" label="Convert from"> + <option value="mzid">mzIdentML (mzid)</option> + <option value="protxml">protXML (protxml)</option> + <option value="pepxml">pepXML (pepxml)</option> + </param> + <when value="mzid"> + <param name="input" type="data" format="pepxml,protxml,mzid" label="MS mzIdentML (mzid)" /> + </when> + <when value="protxml"> + <param name="input" type="data" format="protxml" label="MS pepXML (pepxml)" /> + <param name="pepxml" type="data" format="pepxml" label="MS Identification" /> + </when> + <when value="pepxml"> + <param name="input" type="data" format="pepxml" label="MS Identification" /> + </when> + </conditional> + <param name="to_format" type="select" label="Convert to"> + <option value="mzid">mzIdentML (mzid)</option> + <option value="pepxml">pepXML (pepxml)</option> + <option value="text">text</option> + </param> + </inputs> + + <tests> + </tests> + <help> + </help> + <expand macro="citations" /> +</tool>