comparison readme.md @ 4:cdf5f9b5fcb6 draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 8a95bc868914fb41c7452907f73a9273b03286ab

3:68ad99cb7461

    #end if
    
    [...]
    ]]>
    ```
    
 * In `MetaProSIP.xml` add `R` as a requirement:
 
   ```
   <expand macro="requirements">
       <requirement type="package" version="3.3.1">r-base</requirement>

        </test>
    </tests>
    ```
    

 * These tools have multiple outputs (number of inputs = number of outputs) which is not yet supported in Galaxy-stable and are therefore in `SKIP_TOOLS_FILES.txt`:
    * SeedListGenerator
    * SpecLibSearcher
    * MapAlignerIdentification
    * MapAlignerPoseClustering
    * MapAlignerSpectrum

4:cdf5f9b5fcb6

    #end if
    
    [...]
    ]]>
    ```
 
 * In Xtandem Converter and probably in others:
 
    ```
    #if str($param_missed_cleavages) != '':
    ```
    This is because integers needs to be compared as string otherwise `0` becomes `false`.
 
 * In `MetaProSIP.xml` add `R` as a requirement:
 
   ```
   <expand macro="requirements">
       <requirement type="package" version="3.3.1">r-base</requirement>

        </test>
    </tests>
    ```
    

 * These tools have multiple outputs (number of inputs = number of outputs) which is not yet supported in
   by the automatic conversion step and are therefore in `SKIP_TOOLS_FILES.txt`:
    * SeedListGenerator
    * SpecLibSearcher
    * MapAlignerIdentification
    * MapAlignerPoseClustering
    * MapAlignerSpectrum