Mercurial > repos > ganjoo > webservice_toolsuite

comparison WebServiceToolWorkflow/clients/client_1.xml~ @ 0:d5cd409b8a18 default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Migrated tool version 1.0.0 from old tool shed archive to new tool shed repository
author ganjoo
date Tue, 07 Jun 2011 18:00:50 -0400
parents
children
comparison
equal deleted inserted replaced
-1:000000000000 0:d5cd409b8a18
1 <tool id="client_1" name="genesbytextsearch">
2 <description> Client for method: genesbytextsearch , Web service: /home/ganjoo/parser/SAWADLParser/euPathWADL/GenesByTextSearch.sawadl </description>
3 <command interpreter="python">
4 client_1.py
5 $output
6 http://eupathdb.org/webservices/GeneQuestions/GenesByTextSearch.xml
7 text_search_organism
8 $source0.user_param0
9 text_expression
10 $param1
11 text_fields
12 $param2
13 whole_words
14 $param3
15 max_pvalue
16 $param4
17 </command>
18 <inputs>
19 <conditional name="source0">
20 <param name="source0_source" type="select" label="text_search_organism Source">
21 <option value="cached" selected="true">Param value will be taken from previous step</option>
22 <option value="user">User will enter the param value</option>
23 </param>
24 <when value="user">
25 <param name="user_param0" type="select" label="text_search_organism" help="see tip below">
26 <option value="Entamoeba**dispar" selected="true">Entamoeba dispar</option>
27 <option value="Entamoeba**histolytica" >Entamoeba histolytica</option>
28 <option value="Entamoeba**invadens" >Entamoeba invadens</option>
29 <option value="Cryptosporidium**parvum" >Cryptosporidium parvum</option>
30 <option value="Cryptosporidium**hominis" >Cryptosporidium hominis</option>
31 <option value="Cryptosporidium**muris" >Cryptosporidium muris</option>
32 <option value="Giardia**Assemblage**A**isolate**WB" >Giardia Assemblage A isolate WB</option>
33 <option value="Giardia**Assemblage**B**isolate**GS" >Giardia Assemblage B isolate GS</option>
34 <option value="Giardia**Assemblage**E**isolate**P15" >Giardia Assemblage E isolate P15</option>
35 <option value="Encephalitozoon**cuniculi" >Encephalitozoon cuniculi</option>
36 <option value="Encephalitozoon**intestinalis" >Encephalitozoon intestinalis</option>
37 <option value="Plasmodium**falciparum" >Plasmodium falciparum</option>
38 <option value="Plasmodium**vivax" >Plasmodium vivax</option>
39 <option value="Plasmodium**yoelii" >Plasmodium yoelii</option>
40 <option value="Plasmodium**berghei" >Plasmodium berghei</option>
41 <option value="Plasmodium**chabaudi" >Plasmodium chabaudi</option>
42 <option value="Plasmodium**knowlesi" >Plasmodium knowlesi</option>
43 <option value="Toxoplasma**gondii" >Toxoplasma gondii</option>
44 <option value="Neospora**caninum" >Neospora caninum</option>
45 <option value="Trichomonas**vaginalis" >Trichomonas vaginalis</option>
46 <option value="Trypanosoma**cruzi" >Trypanosoma cruzi</option>
47 <option value="Leishmania**braziliensis" >Leishmania braziliensis</option>
48 <option value="Leishmania**infantum" >Leishmania infantum</option>
49 <option value="Leishmania**major" >Leishmania major</option>
50 <option value="Leishmania**mexicana" >Leishmania mexicana</option>
51 <option value="Trypanosoma**brucei" >Trypanosoma brucei</option>
52 <option value="Trypanosoma**congolense" >Trypanosoma congolense</option>
53 <option value="Trypanosoma**vivax" >Trypanosoma vivax</option>
54 </param>
55 </when>
56 <when value="cached">
57 <param name = "cached_param0" type="data" label="Choose the step from which to get the SAWADL location"/>
58 </when>
59 </conditional>
60 <param format="text" size = "150" name = "param1" value="membrane" type="text" label="text_expression" help="see tip below" />
61 <param name="param2" type="select" label="text_fields" help="see tip below">
62 <option value="Gene**ID" >Gene ID</option>
63 <option value="Alias" >Alias</option>
64 <option value="Gene**product" selected="true">Gene product</option>
65 <option value="Phenotype" >Phenotype</option>
66 <option value="GO**terms**and**definitions" >GO terms and definitions</option>
67 <option value="Gene**notes" >Gene notes</option>
68 <option value="User**comments" >User comments</option>
69 <option value="Protein**domain**names**and**descriptions" >Protein domain names and descriptions</option>
70 <option value="Similar**proteins**(BLAST**hits**v.**NRDB/PDB)" >Similar proteins (BLAST hits v. NRDB/PDB)</option>
71 <option value="EC**descriptions" >EC descriptions</option>
72 <option value="Metabolic**pathway**names**and**descriptions" >Metabolic pathway names and descriptions</option>
73 </param>
74 <param name="param3" type="select" label="whole_words" help="see tip below">
75 <option value="yes" >yes</option>
76 <option value="no" selected="true">no</option>
77 </param>
78 <param format="text" size = "150" name = "param4" value="-30" type="text" label="max_pvalue" help="see tip below" />
79 </inputs>
80 <outputs>
81 <data format="tabular" name="output" />
82 </outputs>
83 <help>
84
85 .. class:: infomark
86
87 **TIP:** About text_search_organism: type is xsd:string, description from ontology is "Organism identifier"
88
89 .. class:: infomark
90
91 **TIP:** About text_expression: type is xsd:string, description from ontology is "This term can be used for any free-form comments and annotations."
92
93 .. class:: infomark
94
95 **TIP:** About text_fields: type is xsd:string, description from ontology is "Undefined concept"
96
97 .. class:: infomark
98
99 **TIP:** About whole_words: type is xsd:string, description from ontology is "
100 A simple parameter that is a toggle (boolean value), typically a control for a modal tool
101 "
102
103 .. class:: infomark
104
105 **TIP:** About max_pvalue: type is xsd:string
106 </help>
107 </tool>