<tool id="client_1" name="genesbytextsearch">
  <description> Client for method: genesbytextsearch , Web service: /home/ganjoo/parser/SAWADLParser/euPathWADL/GenesByTextSearch.sawadl </description>
  <command interpreter="python">
  client_1.py 
  $output 
  http://eupathdb.org/webservices/GeneQuestions/GenesByTextSearch.xml
  text_search_organism
  $source0.user_param0
  text_expression
  $param1
  text_fields
  $param2
  whole_words
  $param3
  max_pvalue
  $param4
</command>
  <inputs>
<conditional name="source0">
        <param name="source0_source" type="select" label="text_search_organism Source">
            <option value="cached" selected="true">Param value will be taken from previous step</option>
            <option value="user">User will enter the param value</option>
        </param>
        <when value="user">
<param name="user_param0" type="select" label="text_search_organism" help="see tip below">
 <option value="Entamoeba**dispar" selected="true">Entamoeba dispar</option>
  <option value="Entamoeba**histolytica" >Entamoeba histolytica</option>
  <option value="Entamoeba**invadens" >Entamoeba invadens</option>
  <option value="Cryptosporidium**parvum" >Cryptosporidium parvum</option>
  <option value="Cryptosporidium**hominis" >Cryptosporidium hominis</option>
  <option value="Cryptosporidium**muris" >Cryptosporidium muris</option>
  <option value="Giardia**Assemblage**A**isolate**WB" >Giardia Assemblage A isolate WB</option>
  <option value="Giardia**Assemblage**B**isolate**GS" >Giardia Assemblage B isolate GS</option>
  <option value="Giardia**Assemblage**E**isolate**P15" >Giardia Assemblage E isolate P15</option>
  <option value="Encephalitozoon**cuniculi" >Encephalitozoon cuniculi</option>
  <option value="Encephalitozoon**intestinalis" >Encephalitozoon intestinalis</option>
  <option value="Plasmodium**falciparum" >Plasmodium falciparum</option>
  <option value="Plasmodium**vivax" >Plasmodium vivax</option>
  <option value="Plasmodium**yoelii" >Plasmodium yoelii</option>
  <option value="Plasmodium**berghei" >Plasmodium berghei</option>
  <option value="Plasmodium**chabaudi" >Plasmodium chabaudi</option>
  <option value="Plasmodium**knowlesi" >Plasmodium knowlesi</option>
  <option value="Toxoplasma**gondii" >Toxoplasma gondii</option>
  <option value="Neospora**caninum" >Neospora caninum</option>
  <option value="Trichomonas**vaginalis" >Trichomonas vaginalis</option>
  <option value="Trypanosoma**cruzi" >Trypanosoma cruzi</option>
  <option value="Leishmania**braziliensis" >Leishmania braziliensis</option>
  <option value="Leishmania**infantum" >Leishmania infantum</option>
  <option value="Leishmania**major" >Leishmania major</option>
  <option value="Leishmania**mexicana" >Leishmania mexicana</option>
  <option value="Trypanosoma**brucei" >Trypanosoma brucei</option>
  <option value="Trypanosoma**congolense" >Trypanosoma congolense</option>
  <option value="Trypanosoma**vivax" >Trypanosoma vivax</option>
     </param> 
 </when>
 <when value="cached">
 <param name = "cached_param0" type="data" label="Choose the step from which to get the SAWADL location"/>
        </when>
    </conditional>
<param format="text" size = "150" name = "param1"  value="membrane"  type="text" label="text_expression" help="see tip below" />
<param name="param2" type="select" label="text_fields" help="see tip below">
 <option value="Gene**ID" >Gene ID</option>
  <option value="Alias" >Alias</option>
  <option value="Gene**product" selected="true">Gene product</option>
  <option value="Phenotype" >Phenotype</option>
  <option value="GO**terms**and**definitions" >GO terms and definitions</option>
  <option value="Gene**notes" >Gene notes</option>
  <option value="User**comments" >User comments</option>
  <option value="Protein**domain**names**and**descriptions" >Protein domain names and descriptions</option>
  <option value="Similar**proteins**(BLAST**hits**v.**NRDB/PDB)" >Similar proteins (BLAST hits v. NRDB/PDB)</option>
  <option value="EC**descriptions" >EC descriptions</option>
  <option value="Metabolic**pathway**names**and**descriptions" >Metabolic pathway names and descriptions</option>
     </param> 
<param name="param3" type="select" label="whole_words" help="see tip below">
 <option value="yes" >yes</option>
  <option value="no" selected="true">no</option>
     </param> 
<param format="text" size = "150" name = "param4"  value="-30"  type="text" label="max_pvalue" help="see tip below" />
</inputs>
  <outputs>
    <data format="tabular" name="output" />
  </outputs>
  <help>

.. class:: infomark

**TIP:** About text_search_organism: type is xsd:string, description from ontology is "Organism identifier"

.. class:: infomark

**TIP:** About text_expression: type is xsd:string, description from ontology is "This term can be used for any free-form comments and annotations."

.. class:: infomark

**TIP:** About text_fields: type is xsd:string, description from ontology is "Undefined concept"

.. class:: infomark

**TIP:** About whole_words: type is xsd:string, description from ontology is "
        A simple parameter that is a toggle (boolean value), typically a control for a modal tool
        "

.. class:: infomark

**TIP:** About max_pvalue: type is xsd:string
  </help>
</tool>