Mercurial > repos > uga-galaxy-group > webservice_toolsuite_v1_1
comparison 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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1 <tool id="client_61" name="run"> | |
2 <description> Client for operation : run , Web service : clustalw2.clustalw2_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 clustalw2.clustalw2_services run | |
11 "_email" | |
12 #if $source0.source0_source=="user": | |
13 $source0.user_param0 | |
14 #else: | |
15 fileInput | |
16 $source0.cached_param0 | |
17 #end if | |
18 #else: | |
19 $output | |
20 $servicetype | |
21 $url | |
22 $method | |
23 clustalw2.clustalw2_services run | |
24 "_email" | |
25 #if $source0.source0_source=="user": | |
26 $source0.user_param0 | |
27 #else: | |
28 fileInput | |
29 $source0.cached_param0 | |
30 #end if | |
31 "_parameters|_sequence" | |
32 #if $cond_source.source1.source1_source=="user": | |
33 $cond_source.source1.user_param1 | |
34 #else: | |
35 fileInput | |
36 $cond_source.source1.cached_param1 | |
37 #end if | |
38 "_parameters|_pwmatrix" | |
39 #if $cond_source.source2.source2_source=="user": | |
40 $cond_source.source2.user_param2 | |
41 #else: | |
42 fileInput | |
43 $cond_source.source2.cached_param2 | |
44 #end if | |
45 "_parameters|_dnamatrix" | |
46 #if $cond_source.source3.source3_source=="user": | |
47 $cond_source.source3.user_param3 | |
48 #else: | |
49 fileInput | |
50 $cond_source.source3.cached_param3 | |
51 #end if | |
52 "_parameters|_gapopen" | |
53 #if $cond_source.source4.source4_source=="user": | |
54 $cond_source.source4.user_param4 | |
55 #else: | |
56 fileInput | |
57 $cond_source.source4.cached_param4 | |
58 #end if | |
59 "_parameters|_pairgap" | |
60 #if $cond_source.source5.source5_source=="user": | |
61 $cond_source.source5.user_param5 | |
62 #else: | |
63 fileInput | |
64 $cond_source.source5.cached_param5 | |
65 #end if | |
66 "_parameters|_pwdnamatrix" | |
67 #if $cond_source.source6.source6_source=="user": | |
68 $cond_source.source6.user_param6 | |
69 #else: | |
70 fileInput | |
71 $cond_source.source6.cached_param6 | |
72 #end if | |
73 "_parameters|_outorder" | |
74 #if $cond_source.source7.source7_source=="user": | |
75 $cond_source.source7.user_param7 | |
76 #else: | |
77 fileInput | |
78 $cond_source.source7.cached_param7 | |
79 #end if | |
80 "_parameters|_iteration" | |
81 #if $cond_source.source8.source8_source=="user": | |
82 $cond_source.source8.user_param8 | |
83 #else: | |
84 fileInput | |
85 $cond_source.source8.cached_param8 | |
86 #end if | |
87 "_parameters|_noendgaps" | |
88 #if $cond_source.source9.source9_source=="user": | |
89 $cond_source.source9.user_param9 | |
90 #else: | |
91 fileInput | |
92 $cond_source.source9.cached_param9 | |
93 #end if | |
94 "_parameters|_pwgapopen" | |
95 #if $cond_source.source10.source10_source=="user": | |
96 $cond_source.source10.user_param10 | |
97 #else: | |
98 fileInput | |
99 $cond_source.source10.cached_param10 | |
100 #end if | |
101 "_parameters|_ktup" | |
102 #if $cond_source.source11.source11_source=="user": | |
103 $cond_source.source11.user_param11 | |
104 #else: | |
105 fileInput | |
106 $cond_source.source11.cached_param11 | |
107 #end if | |
108 "_parameters|_alignment" | |
109 #if $cond_source.source12.source12_source=="user": | |
110 $cond_source.source12.user_param12 | |
111 #else: | |
112 fileInput | |
113 $cond_source.source12.cached_param12 | |
114 #end if | |
115 "_parameters|_matrix" | |
116 #if $cond_source.source13.source13_source=="user": | |
117 $cond_source.source13.user_param13 | |
118 #else: | |
119 fileInput | |
120 $cond_source.source13.cached_param13 | |
121 #end if | |
122 "_parameters|_score" | |
123 #if $cond_source.source14.source14_source=="user": | |
124 $cond_source.source14.user_param14 | |
125 #else: | |
126 fileInput | |
127 $cond_source.source14.cached_param14 | |
128 #end if | |
129 "_title" | |
130 #if $cond_source.source15.source15_source=="user": | |
131 $cond_source.source15.user_param15 | |
132 #else: | |
133 fileInput | |
134 $cond_source.source15.cached_param15 | |
135 #end if | |
136 "_parameters|_gapext" | |
137 #if $cond_source.source16.source16_source=="user": | |
138 $cond_source.source16.user_param16 | |
139 #else: | |
140 fileInput | |
141 $cond_source.source16.cached_param16 | |
142 #end if | |
143 "_parameters|_clustering" | |
144 #if $cond_source.source17.source17_source=="user": | |
145 $cond_source.source17.user_param17 | |
146 #else: | |
147 fileInput | |
148 $cond_source.source17.cached_param17 | |
149 #end if | |
150 "_parameters|_numiter" | |
151 #if $cond_source.source18.source18_source=="user": | |
152 $cond_source.source18.user_param18 | |
153 #else: | |
154 fileInput | |
155 $cond_source.source18.cached_param18 | |
156 #end if | |
157 "_parameters|_pwgapext" | |
158 #if $cond_source.source19.source19_source=="user": | |
159 $cond_source.source19.user_param19 | |
160 #else: | |
161 fileInput | |
162 $cond_source.source19.cached_param19 | |
163 #end if | |
164 "_parameters|_topdiags" | |
165 #if $cond_source.source20.source20_source=="user": | |
166 $cond_source.source20.user_param20 | |
167 #else: | |
168 fileInput | |
169 $cond_source.source20.cached_param20 | |
170 #end if | |
171 "_parameters|_window" | |
172 #if $cond_source.source21.source21_source=="user": | |
173 $cond_source.source21.user_param21 | |
174 #else: | |
175 fileInput | |
176 $cond_source.source21.cached_param21 | |
177 #end if | |
178 "_parameters|_gapdist" | |
179 #if $cond_source.source22.source22_source=="user": | |
180 $cond_source.source22.user_param22 | |
181 #else: | |
182 fileInput | |
183 $cond_source.source22.cached_param22 | |
184 #end if | |
185 "_parameters|_type" | |
186 #if $cond_source.source23.source23_source=="user": | |
187 $cond_source.source23.user_param23 | |
188 #else: | |
189 fileInput | |
190 $cond_source.source23.cached_param23 | |
191 #end if | |
192 "_parameters|_output" | |
193 #if $cond_source.source24.source24_source=="user": | |
194 $cond_source.source24.user_param24 | |
195 #else: | |
196 fileInput | |
197 $cond_source.source24.cached_param24 | |
198 #end if | |
199 #end if | |
200 </command> | |
201 <inputs> | |
202 <param name="servicetype" type="hidden" value="SOAP" /> | |
203 <param name="url" type="hidden" value="http://www.ebi.ac.uk/Tools/services/soap/clustalw2?wsdl" /> | |
204 <param name="method" type="hidden" value="run" /> | |
205 <conditional name="source0"> | |
206 <param name="source0_source" type="select" label="email Source"> | |
207 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
208 <option value="user">User will enter the param value</option> | |
209 </param> | |
210 <when value="user"> | |
211 <param format="text" size = "150" name = "user_param0" type="text" label="Enter email" help="see tip below" /> | |
212 </when> | |
213 <when value="cached"> | |
214 <param name = "cached_param0" type="data" label="Choose the step from which to get the parameter email"/> | |
215 </when> | |
216 </conditional> <conditional name="cond_source"> | |
217 <param name="optional_param_source" type="select" label="Display Additional Parameters"> | |
218 <option value="no" selected="true">no</option> | |
219 <option value="yes">yes</option> | |
220 </param> | |
221 <when value="no"> | |
222 </when> | |
223 <when value="yes"> | |
224 | |
225 <conditional name="source1"> | |
226 <param name="source1_source" type="select" label="sequence Source"> | |
227 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
228 <option value="user">User will enter the param value</option> | |
229 </param> | |
230 <when value="user"><param format="text" size = "150" name = "user_param1" type="text" label="Enter sequence" help="see tip below" /> | |
231 </when> | |
232 <when value="cached"> | |
233 <param name = "cached_param1" type="data" label="Choose the step from which to get the parameter sequence"/> | |
234 </when> | |
235 </conditional> | |
236 | |
237 <conditional name="source2"> | |
238 <param name="source2_source" type="select" label="pwmatrix Source"> | |
239 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
240 <option value="user">User will enter the param value</option> | |
241 </param> | |
242 <when value="user"><param format="text" size = "150" name = "user_param2" type="text" label="Enter pwmatrix" help="see tip below" /> | |
243 </when> | |
244 <when value="cached"> | |
245 <param name = "cached_param2" type="data" label="Choose the step from which to get the parameter pwmatrix"/> | |
246 </when> | |
247 </conditional> | |
248 | |
249 <conditional name="source3"> | |
250 <param name="source3_source" type="select" label="dnamatrix Source"> | |
251 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
252 <option value="user">User will enter the param value</option> | |
253 </param> | |
254 <when value="user"><param format="text" size = "150" name = "user_param3" type="text" label="Enter dnamatrix" help="see tip below" /> | |
255 </when> | |
256 <when value="cached"> | |
257 <param name = "cached_param3" type="data" label="Choose the step from which to get the parameter dnamatrix"/> | |
258 </when> | |
259 </conditional> | |
260 | |
261 <conditional name="source4"> | |
262 <param name="source4_source" type="select" label="gapopen Source"> | |
263 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
264 <option value="user">User will enter the param value</option> | |
265 </param> | |
266 <when value="user"><param format="text" size = "150" name = "user_param4" type="text" label="Enter gapopen" help="see tip below" /> | |
267 </when> | |
268 <when value="cached"> | |
269 <param name = "cached_param4" type="data" label="Choose the step from which to get the parameter gapopen"/> | |
270 </when> | |
271 </conditional> | |
272 | |
273 <conditional name="source5"> | |
274 <param name="source5_source" type="select" label="pairgap Source"> | |
275 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
276 <option value="user">User will enter the param value</option> | |
277 </param> | |
278 <when value="user"><param format="text" size = "150" name = "user_param5" type="text" label="Enter pairgap" help="see tip below" /> | |
279 </when> | |
280 <when value="cached"> | |
281 <param name = "cached_param5" type="data" label="Choose the step from which to get the parameter pairgap"/> | |
282 </when> | |
283 </conditional> | |
284 | |
285 <conditional name="source6"> | |
286 <param name="source6_source" type="select" label="pwdnamatrix Source"> | |
287 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
288 <option value="user">User will enter the param value</option> | |
289 </param> | |
290 <when value="user"><param format="text" size = "150" name = "user_param6" type="text" label="Enter pwdnamatrix" help="see tip below" /> | |
291 </when> | |
292 <when value="cached"> | |
293 <param name = "cached_param6" type="data" label="Choose the step from which to get the parameter pwdnamatrix"/> | |
294 </when> | |
295 </conditional> | |
296 | |
297 <conditional name="source7"> | |
298 <param name="source7_source" type="select" label="outorder Source"> | |
299 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
300 <option value="user">User will enter the param value</option> | |
301 </param> | |
302 <when value="user"><param format="text" size = "150" name = "user_param7" type="text" label="Enter outorder" help="see tip below" /> | |
303 </when> | |
304 <when value="cached"> | |
305 <param name = "cached_param7" type="data" label="Choose the step from which to get the parameter outorder"/> | |
306 </when> | |
307 </conditional> | |
308 | |
309 <conditional name="source8"> | |
310 <param name="source8_source" type="select" label="iteration Source"> | |
311 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
312 <option value="user">User will enter the param value</option> | |
313 </param> | |
314 <when value="user"><param format="text" size = "150" name = "user_param8" type="text" label="Enter iteration" help="see tip below" /> | |
315 </when> | |
316 <when value="cached"> | |
317 <param name = "cached_param8" type="data" label="Choose the step from which to get the parameter iteration"/> | |
318 </when> | |
319 </conditional> | |
320 | |
321 <conditional name="source9"> | |
322 <param name="source9_source" type="select" label="noendgaps Source"> | |
323 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
324 <option value="user">User will enter the param value</option> | |
325 </param> | |
326 <when value="user"><param format="text" size = "150" name = "user_param9" type="text" label="Enter noendgaps" help="see tip below" /> | |
327 </when> | |
328 <when value="cached"> | |
329 <param name = "cached_param9" type="data" label="Choose the step from which to get the parameter noendgaps"/> | |
330 </when> | |
331 </conditional> | |
332 | |
333 <conditional name="source10"> | |
334 <param name="source10_source" type="select" label="pwgapopen Source"> | |
335 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
336 <option value="user">User will enter the param value</option> | |
337 </param> | |
338 <when value="user"><param format="text" size = "150" name = "user_param10" type="text" label="Enter pwgapopen" help="see tip below" /> | |
339 </when> | |
340 <when value="cached"> | |
341 <param name = "cached_param10" type="data" label="Choose the step from which to get the parameter pwgapopen"/> | |
342 </when> | |
343 </conditional> | |
344 | |
345 <conditional name="source11"> | |
346 <param name="source11_source" type="select" label="ktup Source"> | |
347 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
348 <option value="user">User will enter the param value</option> | |
349 </param> | |
350 <when value="user"><param format="text" size = "150" name = "user_param11" type="text" label="Enter ktup" help="see tip below" /> | |
351 </when> | |
352 <when value="cached"> | |
353 <param name = "cached_param11" type="data" label="Choose the step from which to get the parameter ktup"/> | |
354 </when> | |
355 </conditional> | |
356 | |
357 <conditional name="source12"> | |
358 <param name="source12_source" type="select" label="alignment Source"> | |
359 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
360 <option value="user">User will enter the param value</option> | |
361 </param> | |
362 <when value="user"><param format="text" size = "150" name = "user_param12" type="text" label="Enter alignment" help="see tip below" /> | |
363 </when> | |
364 <when value="cached"> | |
365 <param name = "cached_param12" type="data" label="Choose the step from which to get the parameter alignment"/> | |
366 </when> | |
367 </conditional> | |
368 | |
369 <conditional name="source13"> | |
370 <param name="source13_source" type="select" label="matrix Source"> | |
371 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
372 <option value="user">User will enter the param value</option> | |
373 </param> | |
374 <when value="user"><param format="text" size = "150" name = "user_param13" type="text" label="Enter matrix" help="see tip below" /> | |
375 </when> | |
376 <when value="cached"> | |
377 <param name = "cached_param13" type="data" label="Choose the step from which to get the parameter matrix"/> | |
378 </when> | |
379 </conditional> | |
380 | |
381 <conditional name="source14"> | |
382 <param name="source14_source" type="select" label="score Source"> | |
383 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
384 <option value="user">User will enter the param value</option> | |
385 </param> | |
386 <when value="user"><param format="text" size = "150" name = "user_param14" type="text" label="Enter score" help="see tip below" /> | |
387 </when> | |
388 <when value="cached"> | |
389 <param name = "cached_param14" type="data" label="Choose the step from which to get the parameter score"/> | |
390 </when> | |
391 </conditional> | |
392 | |
393 <conditional name="source15"> | |
394 <param name="source15_source" type="select" label="title Source"> | |
395 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
396 <option value="user">User will enter the param value</option> | |
397 </param> | |
398 <when value="user"><param format="text" size = "150" name = "user_param15" type="text" label="Enter title" help="see tip below" /> | |
399 </when> | |
400 <when value="cached"> | |
401 <param name = "cached_param15" type="data" label="Choose the step from which to get the parameter title"/> | |
402 </when> | |
403 </conditional> | |
404 | |
405 <conditional name="source16"> | |
406 <param name="source16_source" type="select" label="gapext Source"> | |
407 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
408 <option value="user">User will enter the param value</option> | |
409 </param> | |
410 <when value="user"><param format="text" size = "150" name = "user_param16" type="text" label="Enter gapext" help="see tip below" /> | |
411 </when> | |
412 <when value="cached"> | |
413 <param name = "cached_param16" type="data" label="Choose the step from which to get the parameter gapext"/> | |
414 </when> | |
415 </conditional> | |
416 | |
417 <conditional name="source17"> | |
418 <param name="source17_source" type="select" label="clustering Source"> | |
419 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
420 <option value="user">User will enter the param value</option> | |
421 </param> | |
422 <when value="user"><param format="text" size = "150" name = "user_param17" type="text" label="Enter clustering" help="see tip below" /> | |
423 </when> | |
424 <when value="cached"> | |
425 <param name = "cached_param17" type="data" label="Choose the step from which to get the parameter clustering"/> | |
426 </when> | |
427 </conditional> | |
428 | |
429 <conditional name="source18"> | |
430 <param name="source18_source" type="select" label="numiter Source"> | |
431 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
432 <option value="user">User will enter the param value</option> | |
433 </param> | |
434 <when value="user"><param format="text" size = "150" name = "user_param18" type="text" label="Enter numiter" help="see tip below" /> | |
435 </when> | |
436 <when value="cached"> | |
437 <param name = "cached_param18" type="data" label="Choose the step from which to get the parameter numiter"/> | |
438 </when> | |
439 </conditional> | |
440 | |
441 <conditional name="source19"> | |
442 <param name="source19_source" type="select" label="pwgapext Source"> | |
443 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
444 <option value="user">User will enter the param value</option> | |
445 </param> | |
446 <when value="user"><param format="text" size = "150" name = "user_param19" type="text" label="Enter pwgapext" help="see tip below" /> | |
447 </when> | |
448 <when value="cached"> | |
449 <param name = "cached_param19" type="data" label="Choose the step from which to get the parameter pwgapext"/> | |
450 </when> | |
451 </conditional> | |
452 | |
453 <conditional name="source20"> | |
454 <param name="source20_source" type="select" label="topdiags Source"> | |
455 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
456 <option value="user">User will enter the param value</option> | |
457 </param> | |
458 <when value="user"><param format="text" size = "150" name = "user_param20" type="text" label="Enter topdiags" help="see tip below" /> | |
459 </when> | |
460 <when value="cached"> | |
461 <param name = "cached_param20" type="data" label="Choose the step from which to get the parameter topdiags"/> | |
462 </when> | |
463 </conditional> | |
464 | |
465 <conditional name="source21"> | |
466 <param name="source21_source" type="select" label="window Source"> | |
467 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
468 <option value="user">User will enter the param value</option> | |
469 </param> | |
470 <when value="user"><param format="text" size = "150" name = "user_param21" type="text" label="Enter window" help="see tip below" /> | |
471 </when> | |
472 <when value="cached"> | |
473 <param name = "cached_param21" type="data" label="Choose the step from which to get the parameter window"/> | |
474 </when> | |
475 </conditional> | |
476 | |
477 <conditional name="source22"> | |
478 <param name="source22_source" type="select" label="gapdist Source"> | |
479 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
480 <option value="user">User will enter the param value</option> | |
481 </param> | |
482 <when value="user"><param format="text" size = "150" name = "user_param22" type="text" label="Enter gapdist" help="see tip below" /> | |
483 </when> | |
484 <when value="cached"> | |
485 <param name = "cached_param22" type="data" label="Choose the step from which to get the parameter gapdist"/> | |
486 </when> | |
487 </conditional> | |
488 | |
489 <conditional name="source23"> | |
490 <param name="source23_source" type="select" label="type Source"> | |
491 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
492 <option value="user">User will enter the param value</option> | |
493 </param> | |
494 <when value="user"><param format="text" size = "150" name = "user_param23" type="text" label="Enter type" help="see tip below" /> | |
495 </when> | |
496 <when value="cached"> | |
497 <param name = "cached_param23" type="data" label="Choose the step from which to get the parameter type"/> | |
498 </when> | |
499 </conditional> | |
500 | |
501 <conditional name="source24"> | |
502 <param name="source24_source" type="select" label="output Source"> | |
503 <option value="cached" selected="true">Param value will be taken from previous step</option> | |
504 <option value="user">User will enter the param value</option> | |
505 </param> | |
506 <when value="user"><param format="text" size = "150" name = "user_param24" type="text" label="Enter output" help="see tip below" /> | |
507 </when> | |
508 <when value="cached"> | |
509 <param name = "cached_param24" type="data" label="Choose the step from which to get the parameter output"/> | |
510 </when> | |
511 </conditional> | |
512 </when> | |
513 </conditional> | |
514 </inputs> | |
515 <outputs> | |
516 <data format="tabular" name="output" /> | |
517 </outputs> | |
518 <help> | |
519 | |
520 .. class:: infomark | |
521 | |
522 **TIP:** About email: type is String | |
523 </help> | |
524 </tool> |