Mercurial > repos > ganjoo > webservice_toolsuite
diff WebServiceToolWorkflow/clients/client_1.xml~ @ 0:d5cd409b8a18 default tip
Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author | ganjoo |
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date | Tue, 07 Jun 2011 18:00:50 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/WebServiceToolWorkflow/clients/client_1.xml~ Tue Jun 07 18:00:50 2011 -0400 @@ -0,0 +1,107 @@ +<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>