Mercurial > repos > uga-galaxy-group > webservice_toolsuite_v1_1

comparison WebServiceExtensionsV1.1/WebServiceToolWorkflow_REST_SOAP/workflowclients/client_86.xml~ @ 0:049760c677de default tip

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Galaxy WSExtensions added successfully
author uga-galaxy-group
date Tue, 05 Jul 2011 19:34:18 -0400
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-1:000000000000 0:049760c677de
1 <tool id="client_86" name="wublast.run">
2 <description> Client for operation : run , Web service : wublast.wublast_services </description>
3 <command interpreter="python">
4 client_1.py
5 #if $cond_source.optional_param_source=="no":
6 $output
7 $servicetype
8 $url
9 $method
10 wublast.wublast_services run
11 "_parameters|_sequence"
12 #if $source0.source0_source=="user":
13 $source0.user_param0
14 #else:
15 fileInput
16 $source0.cached_param0
17 #end if
18 "_parameters|_stype"
19 #if $source1.source1_source=="user":
20 $source1.user_param1
21 #else:
22 fileInput
23 $source1.cached_param1
24 #end if
25 "_parameters|_program"
26 #if $source2.source2_source=="user":
27 $source2.user_param2
28 #else:
29 fileInput
30 $source2.cached_param2
31 #end if
32 "_email"
33 #if $source3.source3_source=="user":
34 $source3.user_param3
35 #else:
36 fileInput
37 $source3.cached_param3
38 #end if
39 "_parameters|_database|_string|$|"
40 #if $source4.source4_source=="user":
41 $source4.user_param4
42 #else:
43 fileInput
44 $source4.cached_param4
45 #end if
46 #else:
47 $output
48 $servicetype
49 $url
50 $method
51 wublast.wublast_services run
52 "_parameters|_sequence"
53 #if $source0.source0_source=="user":
54 $source0.user_param0
55 #else:
56 fileInput
57 $source0.cached_param0
58 #end if
59 "_parameters|_stype"
60 #if $source1.source1_source=="user":
61 $source1.user_param1
62 #else:
63 fileInput
64 $source1.cached_param1
65 #end if
66 "_parameters|_program"
67 #if $source2.source2_source=="user":
68 $source2.user_param2
69 #else:
70 fileInput
71 $source2.cached_param2
72 #end if
73 "_email"
74 #if $source3.source3_source=="user":
75 $source3.user_param3
76 #else:
77 fileInput
78 $source3.cached_param3
79 #end if
80 "_parameters|_database|_string|$|"
81 #if $source4.source4_source=="user":
82 $source4.user_param4
83 #else:
84 fileInput
85 $source4.cached_param4
86 #end if
87 "_parameters|_sensitivity"
88 #if $cond_source.source5.source5_source=="user":
89 $cond_source.source5.user_param5
90 #else:
91 fileInput
92 $cond_source.source5.cached_param5
93 #end if
94 "_parameters|_topcombon"
95 #if $cond_source.source6.source6_source=="user":
96 $cond_source.source6.user_param6
97 #else:
98 fileInput
99 $cond_source.source6.cached_param6
100 #end if
101 "_parameters|_filter"
102 #if $cond_source.source7.source7_source=="user":
103 $cond_source.source7.user_param7
104 #else:
105 fileInput
106 $cond_source.source7.cached_param7
107 #end if
108 "_parameters|_alignments"
109 #if $cond_source.source8.source8_source=="user":
110 $cond_source.source8.user_param8
111 #else:
112 fileInput
113 $cond_source.source8.cached_param8
114 #end if
115 "_parameters|_scores"
116 #if $cond_source.source9.source9_source=="user":
117 $cond_source.source9.user_param9
118 #else:
119 fileInput
120 $cond_source.source9.cached_param9
121 #end if
122 "_parameters|_viewfilter"
123 #if $cond_source.source10.source10_source=="user":
124 $cond_source.source10.user_param10
125 #else:
126 fileInput
127 $cond_source.source10.cached_param10
128 #end if
129 "_parameters|_sort"
130 #if $cond_source.source11.source11_source=="user":
131 $cond_source.source11.user_param11
132 #else:
133 fileInput
134 $cond_source.source11.cached_param11
135 #end if
136 "_parameters|_strand"
137 #if $cond_source.source12.source12_source=="user":
138 $cond_source.source12.user_param12
139 #else:
140 fileInput
141 $cond_source.source12.cached_param12
142 #end if
143 "_parameters|_align"
144 #if $cond_source.source13.source13_source=="user":
145 $cond_source.source13.user_param13
146 #else:
147 fileInput
148 $cond_source.source13.cached_param13
149 #end if
150 "_parameters|_matrix"
151 #if $cond_source.source14.source14_source=="user":
152 $cond_source.source14.user_param14
153 #else:
154 fileInput
155 $cond_source.source14.cached_param14
156 #end if
157 "_title"
158 #if $cond_source.source15.source15_source=="user":
159 $cond_source.source15.user_param15
160 #else:
161 fileInput
162 $cond_source.source15.cached_param15
163 #end if
164 "_parameters|_stats"
165 #if $cond_source.source16.source16_source=="user":
166 $cond_source.source16.user_param16
167 #else:
168 fileInput
169 $cond_source.source16.cached_param16
170 #end if
171 "_parameters|_exp"
172 #if $cond_source.source17.source17_source=="user":
173 $cond_source.source17.user_param17
174 #else:
175 fileInput
176 $cond_source.source17.cached_param17
177 #end if
178 #end if
179 </command>
180 <inputs>
181 <param name="servicetype" type="hidden" value="SOAP" />
182 <param name="url" type="hidden" value="http://www.cs.uga.edu/~guttula/wublast.wsdl" />
183 <param name="method" type="hidden" value="run" />
184 <conditional name="source0">
185 <param name="source0_source" type="select" label="sequence Source">
186 <option value="cached" selected="true">Param value will be taken from previous step</option>
187 <option value="user">User will enter the param value</option>
188 </param>
189 <when value="user">
190 <param format="text" size = "150" name = "user_param0" type="text" label="Enter sequence" help="see tip below" />
191 </when>
192 <when value="cached">
193 <param name = "cached_param0" type="data" label="Choose the step from which to get the parameter sequence"/>
194 </when>
195 </conditional><conditional name="source1">
196 <param name="source1_source" type="select" label="stype Source">
197 <option value="cached" selected="true">Param value will be taken from previous step</option>
198 <option value="user">User will enter the param value</option>
199 </param>
200 <when value="user">
201 <param format="text" size = "150" name = "user_param1" type="text" label="Enter stype" help="see tip below" />
202 </when>
203 <when value="cached">
204 <param name = "cached_param1" type="data" label="Choose the step from which to get the parameter stype"/>
205 </when>
206 </conditional><conditional name="source2">
207 <param name="source2_source" type="select" label="program Source">
208 <option value="cached" selected="true">Param value will be taken from previous step</option>
209 <option value="user">User will enter the param value</option>
210 </param>
211 <when value="user">
212 <param format="text" size = "150" name = "user_param2" type="text" label="Enter program" help="see tip below" />
213 </when>
214 <when value="cached">
215 <param name = "cached_param2" type="data" label="Choose the step from which to get the parameter program"/>
216 </when>
217 </conditional><conditional name="source3">
218 <param name="source3_source" type="select" label="email Source">
219 <option value="cached" selected="true">Param value will be taken from previous step</option>
220 <option value="user">User will enter the param value</option>
221 </param>
222 <when value="user">
223 <param format="text" size = "150" name = "user_param3" type="text" label="Enter email" help="see tip below" />
224 </when>
225 <when value="cached">
226 <param name = "cached_param3" type="data" label="Choose the step from which to get the parameter email"/>
227 </when>
228 </conditional><conditional name="source4">
229 <param name="source4_source" type="select" label="database Source">
230 <option value="cached" selected="true">Param value will be taken from previous step</option>
231 <option value="user">User will enter the param value</option>
232 </param>
233 <when value="user">
234 <param format="text" size = "150" name = "user_param4" type="text" label="Enter database" help="see tip below" />
235 </when>
236 <when value="cached">
237 <param name = "cached_param4" type="data" label="Choose the step from which to get the parameter database"/>
238 </when>
239 </conditional> <conditional name="cond_source">
240 <param name="optional_param_source" type="select" label="Display Optional Parameters">
241 <option value="no" selected="true">no</option>
242 <option value="yes">yes</option>
243 </param>
244 <when value="no">
245 </when>
246 <when value="yes">
247
248 <conditional name="source5">
249 <param name="source5_source" type="select" label="sensitivity Source">
250 <option value="cached" selected="true">Param value will be taken from previous step</option>
251 <option value="user">User will enter the param value</option>
252 </param>
253 <when value="user"><param format="text" size = "150" name = "user_param5" type="text" label="Enter sensitivity" help="see tip below" />
254 </when>
255 <when value="cached">
256 <param name = "cached_param5" type="data" label="Choose the step from which to get the parameter sensitivity"/>
257 </when>
258 </conditional>
259
260 <conditional name="source6">
261 <param name="source6_source" type="select" label="topcombon Source">
262 <option value="cached" selected="true">Param value will be taken from previous step</option>
263 <option value="user">User will enter the param value</option>
264 </param>
265 <when value="user"><param format="text" size = "150" name = "user_param6" type="text" label="Enter topcombon" help="see tip below" />
266 </when>
267 <when value="cached">
268 <param name = "cached_param6" type="data" label="Choose the step from which to get the parameter topcombon"/>
269 </when>
270 </conditional>
271
272 <conditional name="source7">
273 <param name="source7_source" type="select" label="filter Source">
274 <option value="cached" selected="true">Param value will be taken from previous step</option>
275 <option value="user">User will enter the param value</option>
276 </param>
277 <when value="user"><param format="text" size = "150" name = "user_param7" type="text" label="Enter filter" help="see tip below" />
278 </when>
279 <when value="cached">
280 <param name = "cached_param7" type="data" label="Choose the step from which to get the parameter filter"/>
281 </when>
282 </conditional>
283
284 <conditional name="source8">
285 <param name="source8_source" type="select" label="alignments Source">
286 <option value="cached" selected="true">Param value will be taken from previous step</option>
287 <option value="user">User will enter the param value</option>
288 </param>
289 <when value="user"><param format="text" size = "150" name = "user_param8" type="text" label="Enter alignments" help="see tip below" />
290 </when>
291 <when value="cached">
292 <param name = "cached_param8" type="data" label="Choose the step from which to get the parameter alignments"/>
293 </when>
294 </conditional>
295
296 <conditional name="source9">
297 <param name="source9_source" type="select" label="scores Source">
298 <option value="cached" selected="true">Param value will be taken from previous step</option>
299 <option value="user">User will enter the param value</option>
300 </param>
301 <when value="user"><param format="text" size = "150" name = "user_param9" type="text" label="Enter scores" help="see tip below" />
302 </when>
303 <when value="cached">
304 <param name = "cached_param9" type="data" label="Choose the step from which to get the parameter scores"/>
305 </when>
306 </conditional>
307
308 <conditional name="source10">
309 <param name="source10_source" type="select" label="viewfilter Source">
310 <option value="cached" selected="true">Param value will be taken from previous step</option>
311 <option value="user">User will enter the param value</option>
312 </param>
313 <when value="user"><param format="text" size = "150" name = "user_param10" type="text" label="Enter viewfilter" help="see tip below" />
314 </when>
315 <when value="cached">
316 <param name = "cached_param10" type="data" label="Choose the step from which to get the parameter viewfilter"/>
317 </when>
318 </conditional>
319
320 <conditional name="source11">
321 <param name="source11_source" type="select" label="sort Source">
322 <option value="cached" selected="true">Param value will be taken from previous step</option>
323 <option value="user">User will enter the param value</option>
324 </param>
325 <when value="user"><param format="text" size = "150" name = "user_param11" type="text" label="Enter sort" help="see tip below" />
326 </when>
327 <when value="cached">
328 <param name = "cached_param11" type="data" label="Choose the step from which to get the parameter sort"/>
329 </when>
330 </conditional>
331
332 <conditional name="source12">
333 <param name="source12_source" type="select" label="strand Source">
334 <option value="cached" selected="true">Param value will be taken from previous step</option>
335 <option value="user">User will enter the param value</option>
336 </param>
337 <when value="user"><param format="text" size = "150" name = "user_param12" type="text" label="Enter strand" help="see tip below" />
338 </when>
339 <when value="cached">
340 <param name = "cached_param12" type="data" label="Choose the step from which to get the parameter strand"/>
341 </when>
342 </conditional>
343
344 <conditional name="source13">
345 <param name="source13_source" type="select" label="align Source">
346 <option value="cached" selected="true">Param value will be taken from previous step</option>
347 <option value="user">User will enter the param value</option>
348 </param>
349 <when value="user"><param format="text" size = "150" name = "user_param13" type="text" label="Enter align" help="see tip below" />
350 </when>
351 <when value="cached">
352 <param name = "cached_param13" type="data" label="Choose the step from which to get the parameter align"/>
353 </when>
354 </conditional>
355
356 <conditional name="source14">
357 <param name="source14_source" type="select" label="matrix Source">
358 <option value="cached" selected="true">Param value will be taken from previous step</option>
359 <option value="user">User will enter the param value</option>
360 </param>
361 <when value="user"><param format="text" size = "150" name = "user_param14" type="text" label="Enter matrix" help="see tip below" />
362 </when>
363 <when value="cached">
364 <param name = "cached_param14" type="data" label="Choose the step from which to get the parameter matrix"/>
365 </when>
366 </conditional>
367
368 <conditional name="source15">
369 <param name="source15_source" type="select" label="title Source">
370 <option value="cached" selected="true">Param value will be taken from previous step</option>
371 <option value="user">User will enter the param value</option>
372 </param>
373 <when value="user"><param format="text" size = "150" name = "user_param15" type="text" label="Enter title" help="see tip below" />
374 </when>
375 <when value="cached">
376 <param name = "cached_param15" type="data" label="Choose the step from which to get the parameter title"/>
377 </when>
378 </conditional>
379
380 <conditional name="source16">
381 <param name="source16_source" type="select" label="stats Source">
382 <option value="cached" selected="true">Param value will be taken from previous step</option>
383 <option value="user">User will enter the param value</option>
384 </param>
385 <when value="user"><param format="text" size = "150" name = "user_param16" type="text" label="Enter stats" help="see tip below" />
386 </when>
387 <when value="cached">
388 <param name = "cached_param16" type="data" label="Choose the step from which to get the parameter stats"/>
389 </when>
390 </conditional>
391
392 <conditional name="source17">
393 <param name="source17_source" type="select" label="exp Source">
394 <option value="cached" selected="true">Param value will be taken from previous step</option>
395 <option value="user">User will enter the param value</option>
396 </param>
397 <when value="user"><param format="text" size = "150" name = "user_param17" type="text" label="Enter exp" help="see tip below" />
398 </when>
399 <when value="cached">
400 <param name = "cached_param17" type="data" label="Choose the step from which to get the parameter exp"/>
401 </when>
402 </conditional>
403 </when>
404 </conditional>
405 </inputs>
406 <outputs>
407 <data format="tabular" name="output" />
408 </outputs>
409 <help>
410
411 .. class:: infomark
412
413 **TIP:** About sequence: type is String
414
415 .. class:: infomark
416
417 **TIP:** About stype: type is String
418
419 .. class:: infomark
420
421 **TIP:** About program: type is String
422
423 .. class:: infomark
424
425 **TIP:** About email: type is String
426
427 .. class:: infomark
428
429 **TIP:** About database: type is String
430 </help>
431 </tool>