comparison readme.md @ 7:08c962b0176c draft

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/openms commit 8d70dbb6c61659d5ced433b168a2a4e32c9af677

6:114d82e501e3

     in_type executable myrimatch_executable \
     fido_executable fidocp_executable \
     omssa_executable pepnovo_executable \
     xtandem_executable param_model_directory \
     java_executable java_memory java_permgen \
    -f /PATH/TO/filetypes.txt -m /PATH/TO/macros.xml \
    -s PATH/TO/SKIP_TOOLS_FILES.txt
    ```

    
    [...]
    ]]>
    ```
    
 * In `IDFileConverter.xml` the following is needed in the command section at the beginning (check your file to know what to copy where):
 
   ```
    <command><![CDATA[
   

7:08c962b0176c

     in_type executable myrimatch_executable \
     fido_executable fidocp_executable \
     omssa_executable pepnovo_executable \
     xtandem_executable param_model_directory \
     java_executable java_memory java_permgen \
     r_executable rt_concat_trafo_out \
    -f /PATH/TO/filetypes.txt -m /PATH/TO/macros.xml \
    -s PATH/TO/SKIP_TOOLS_FILES.txt
    ```

    
    [...]
    ]]>
    ```
    
 * In `MetaProSIP.xml` add `R` as a requirement:
 
   ```
   <expand macro="requirements">
       <requirement type="package" version="3.3.1">r-base</requirement>
   </expand>
   ```
   
 * In `IDFileConverter.xml` the following is needed in the command section at the beginning (check your file to know what to copy where):
 
   ```
    <command><![CDATA[