Mercurial > repos > uga-galaxy-group > webservice_toolsuite_v1_1
diff WebServiceExtensionsV1.1/WebServiceToolWorkflow_REST_SOAP/workflowclients/client_61.xml~ @ 0:049760c677de default tip
Galaxy WSExtensions added successfully
author | uga-galaxy-group |
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date | Tue, 05 Jul 2011 19:34:18 -0400 |
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--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/WebServiceExtensionsV1.1/WebServiceToolWorkflow_REST_SOAP/workflowclients/client_61.xml~ Tue Jul 05 19:34:18 2011 -0400 @@ -0,0 +1,524 @@ +<tool id="client_61" name="run"> + <description> Client for operation : run , Web service : clustalw2.clustalw2_services </description> + <command interpreter="python"> + client_1.py + #if $cond_source.optional_param_source=="no": + $output + $servicetype + $url + $method +clustalw2.clustalw2_services run + "_email" + #if $source0.source0_source=="user": + $source0.user_param0 + #else: + fileInput + $source0.cached_param0 + #end if + #else: + $output + $servicetype + $url + $method +clustalw2.clustalw2_services run + "_email" + #if $source0.source0_source=="user": + $source0.user_param0 + #else: + fileInput + $source0.cached_param0 + #end if + "_parameters|_sequence" + #if $cond_source.source1.source1_source=="user": + $cond_source.source1.user_param1 + #else: + fileInput + $cond_source.source1.cached_param1 + #end if + "_parameters|_pwmatrix" + #if $cond_source.source2.source2_source=="user": + $cond_source.source2.user_param2 + #else: + fileInput + $cond_source.source2.cached_param2 + #end if + "_parameters|_dnamatrix" + #if $cond_source.source3.source3_source=="user": + $cond_source.source3.user_param3 + #else: + fileInput + $cond_source.source3.cached_param3 + #end if + "_parameters|_gapopen" + #if $cond_source.source4.source4_source=="user": + $cond_source.source4.user_param4 + #else: + fileInput + $cond_source.source4.cached_param4 + #end if + "_parameters|_pairgap" + #if $cond_source.source5.source5_source=="user": + $cond_source.source5.user_param5 + #else: + fileInput + $cond_source.source5.cached_param5 + #end if + "_parameters|_pwdnamatrix" + #if $cond_source.source6.source6_source=="user": + $cond_source.source6.user_param6 + #else: + fileInput + $cond_source.source6.cached_param6 + #end if + "_parameters|_outorder" + #if $cond_source.source7.source7_source=="user": + $cond_source.source7.user_param7 + #else: + fileInput + $cond_source.source7.cached_param7 + #end if + "_parameters|_iteration" + #if $cond_source.source8.source8_source=="user": + $cond_source.source8.user_param8 + #else: + fileInput + $cond_source.source8.cached_param8 + #end if + "_parameters|_noendgaps" + #if $cond_source.source9.source9_source=="user": + $cond_source.source9.user_param9 + #else: + fileInput + $cond_source.source9.cached_param9 + #end if + "_parameters|_pwgapopen" + #if $cond_source.source10.source10_source=="user": + $cond_source.source10.user_param10 + #else: + fileInput + $cond_source.source10.cached_param10 + #end if + "_parameters|_ktup" + #if $cond_source.source11.source11_source=="user": + $cond_source.source11.user_param11 + #else: + fileInput + $cond_source.source11.cached_param11 + #end if + "_parameters|_alignment" + #if $cond_source.source12.source12_source=="user": + $cond_source.source12.user_param12 + #else: + fileInput + $cond_source.source12.cached_param12 + #end if + "_parameters|_matrix" + #if $cond_source.source13.source13_source=="user": + $cond_source.source13.user_param13 + #else: + fileInput + $cond_source.source13.cached_param13 + #end if + "_parameters|_score" + #if $cond_source.source14.source14_source=="user": + $cond_source.source14.user_param14 + #else: + fileInput + $cond_source.source14.cached_param14 + #end if + "_title" + #if $cond_source.source15.source15_source=="user": + $cond_source.source15.user_param15 + #else: + fileInput + $cond_source.source15.cached_param15 + #end if + "_parameters|_gapext" + #if $cond_source.source16.source16_source=="user": + $cond_source.source16.user_param16 + #else: + fileInput + $cond_source.source16.cached_param16 + #end if + "_parameters|_clustering" + #if $cond_source.source17.source17_source=="user": + $cond_source.source17.user_param17 + #else: + fileInput + $cond_source.source17.cached_param17 + #end if + "_parameters|_numiter" + #if $cond_source.source18.source18_source=="user": + $cond_source.source18.user_param18 + #else: + fileInput + $cond_source.source18.cached_param18 + #end if + "_parameters|_pwgapext" + #if $cond_source.source19.source19_source=="user": + $cond_source.source19.user_param19 + #else: + fileInput + $cond_source.source19.cached_param19 + #end if + "_parameters|_topdiags" + #if $cond_source.source20.source20_source=="user": + $cond_source.source20.user_param20 + #else: + fileInput + $cond_source.source20.cached_param20 + #end if + "_parameters|_window" + #if $cond_source.source21.source21_source=="user": + $cond_source.source21.user_param21 + #else: + fileInput + $cond_source.source21.cached_param21 + #end if + "_parameters|_gapdist" + #if $cond_source.source22.source22_source=="user": + $cond_source.source22.user_param22 + #else: + fileInput + $cond_source.source22.cached_param22 + #end if + "_parameters|_type" + #if $cond_source.source23.source23_source=="user": + $cond_source.source23.user_param23 + #else: + fileInput + $cond_source.source23.cached_param23 + #end if + "_parameters|_output" + #if $cond_source.source24.source24_source=="user": + $cond_source.source24.user_param24 + #else: + fileInput + $cond_source.source24.cached_param24 + #end if + #end if +</command> + <inputs> + <param name="servicetype" type="hidden" value="SOAP" /> + <param name="url" type="hidden" value="http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl" /> + <param name="method" type="hidden" value="run" /> +<conditional name="source0"> + <param name="source0_source" type="select" label="email 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 format="text" size = "150" name = "user_param0" type="text" label="Enter email" help="see tip below" /> + </when> + <when value="cached"> + <param name = "cached_param0" type="data" label="Choose the step from which to get the parameter email"/> + </when> + </conditional> <conditional name="cond_source"> + <param name="optional_param_source" type="select" label="Display Additional Parameters"> + <option value="no" selected="true">no</option> + <option value="yes">yes</option> + </param> + <when value="no"> + </when> + <when value="yes"> + +<conditional name="source1"> + <param name="source1_source" type="select" label="sequence 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 format="text" size = "150" name = "user_param1" type="text" label="Enter sequence" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param1" type="data" label="Choose the step from which to get the parameter sequence"/> + </when> + </conditional> + +<conditional name="source2"> + <param name="source2_source" type="select" label="pwmatrix 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 format="text" size = "150" name = "user_param2" type="text" label="Enter pwmatrix" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param2" type="data" label="Choose the step from which to get the parameter pwmatrix"/> + </when> + </conditional> + +<conditional name="source3"> + <param name="source3_source" type="select" label="dnamatrix 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 format="text" size = "150" name = "user_param3" type="text" label="Enter dnamatrix" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param3" type="data" label="Choose the step from which to get the parameter dnamatrix"/> + </when> + </conditional> + +<conditional name="source4"> + <param name="source4_source" type="select" label="gapopen 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 format="text" size = "150" name = "user_param4" type="text" label="Enter gapopen" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param4" type="data" label="Choose the step from which to get the parameter gapopen"/> + </when> + </conditional> + +<conditional name="source5"> + <param name="source5_source" type="select" label="pairgap 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 format="text" size = "150" name = "user_param5" type="text" label="Enter pairgap" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param5" type="data" label="Choose the step from which to get the parameter pairgap"/> + </when> + </conditional> + +<conditional name="source6"> + <param name="source6_source" type="select" label="pwdnamatrix 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 format="text" size = "150" name = "user_param6" type="text" label="Enter pwdnamatrix" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param6" type="data" label="Choose the step from which to get the parameter pwdnamatrix"/> + </when> + </conditional> + +<conditional name="source7"> + <param name="source7_source" type="select" label="outorder 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 format="text" size = "150" name = "user_param7" type="text" label="Enter outorder" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param7" type="data" label="Choose the step from which to get the parameter outorder"/> + </when> + </conditional> + +<conditional name="source8"> + <param name="source8_source" type="select" label="iteration 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 format="text" size = "150" name = "user_param8" type="text" label="Enter iteration" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param8" type="data" label="Choose the step from which to get the parameter iteration"/> + </when> + </conditional> + +<conditional name="source9"> + <param name="source9_source" type="select" label="noendgaps 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 format="text" size = "150" name = "user_param9" type="text" label="Enter noendgaps" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param9" type="data" label="Choose the step from which to get the parameter noendgaps"/> + </when> + </conditional> + +<conditional name="source10"> + <param name="source10_source" type="select" label="pwgapopen 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 format="text" size = "150" name = "user_param10" type="text" label="Enter pwgapopen" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param10" type="data" label="Choose the step from which to get the parameter pwgapopen"/> + </when> + </conditional> + +<conditional name="source11"> + <param name="source11_source" type="select" label="ktup 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 format="text" size = "150" name = "user_param11" type="text" label="Enter ktup" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param11" type="data" label="Choose the step from which to get the parameter ktup"/> + </when> + </conditional> + +<conditional name="source12"> + <param name="source12_source" type="select" label="alignment 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 format="text" size = "150" name = "user_param12" type="text" label="Enter alignment" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param12" type="data" label="Choose the step from which to get the parameter alignment"/> + </when> + </conditional> + +<conditional name="source13"> + <param name="source13_source" type="select" label="matrix 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 format="text" size = "150" name = "user_param13" type="text" label="Enter matrix" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param13" type="data" label="Choose the step from which to get the parameter matrix"/> + </when> + </conditional> + +<conditional name="source14"> + <param name="source14_source" type="select" label="score 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 format="text" size = "150" name = "user_param14" type="text" label="Enter score" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param14" type="data" label="Choose the step from which to get the parameter score"/> + </when> + </conditional> + +<conditional name="source15"> + <param name="source15_source" type="select" label="title 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 format="text" size = "150" name = "user_param15" type="text" label="Enter title" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param15" type="data" label="Choose the step from which to get the parameter title"/> + </when> + </conditional> + +<conditional name="source16"> + <param name="source16_source" type="select" label="gapext 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 format="text" size = "150" name = "user_param16" type="text" label="Enter gapext" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param16" type="data" label="Choose the step from which to get the parameter gapext"/> + </when> + </conditional> + +<conditional name="source17"> + <param name="source17_source" type="select" label="clustering 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 format="text" size = "150" name = "user_param17" type="text" label="Enter clustering" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param17" type="data" label="Choose the step from which to get the parameter clustering"/> + </when> + </conditional> + +<conditional name="source18"> + <param name="source18_source" type="select" label="numiter 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 format="text" size = "150" name = "user_param18" type="text" label="Enter numiter" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param18" type="data" label="Choose the step from which to get the parameter numiter"/> + </when> + </conditional> + +<conditional name="source19"> + <param name="source19_source" type="select" label="pwgapext 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 format="text" size = "150" name = "user_param19" type="text" label="Enter pwgapext" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param19" type="data" label="Choose the step from which to get the parameter pwgapext"/> + </when> + </conditional> + +<conditional name="source20"> + <param name="source20_source" type="select" label="topdiags 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 format="text" size = "150" name = "user_param20" type="text" label="Enter topdiags" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param20" type="data" label="Choose the step from which to get the parameter topdiags"/> + </when> + </conditional> + +<conditional name="source21"> + <param name="source21_source" type="select" label="window 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 format="text" size = "150" name = "user_param21" type="text" label="Enter window" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param21" type="data" label="Choose the step from which to get the parameter window"/> + </when> + </conditional> + +<conditional name="source22"> + <param name="source22_source" type="select" label="gapdist 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 format="text" size = "150" name = "user_param22" type="text" label="Enter gapdist" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param22" type="data" label="Choose the step from which to get the parameter gapdist"/> + </when> + </conditional> + +<conditional name="source23"> + <param name="source23_source" type="select" label="type 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 format="text" size = "150" name = "user_param23" type="text" label="Enter type" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param23" type="data" label="Choose the step from which to get the parameter type"/> + </when> + </conditional> + +<conditional name="source24"> + <param name="source24_source" type="select" label="output 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 format="text" size = "150" name = "user_param24" type="text" label="Enter output" help="see tip below" /> + </when> +<when value="cached"> + <param name = "cached_param24" type="data" label="Choose the step from which to get the parameter output"/> + </when> + </conditional> + </when> + </conditional> +</inputs> + <outputs> + <data format="tabular" name="output" /> + </outputs> + <help> + +.. class:: infomark + +**TIP:** About email: type is String + </help> +</tool> \ No newline at end of file