Mercurial > repos > refinery-platform > refinery_test_workflows

comparison Test_workflow__SPP_analog.ga @ 0:ffdc0d961b77 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
Uploaded
author refinery-platform
date Fri, 15 Apr 2016 15:59:38 -0400
parents
children e75c9c9f72fc
comparison
equal deleted inserted replaced
-1:000000000000 0:ffdc0d961b77
1 {
2 "a_galaxy_workflow": "true",
3 "annotation": "{\"refinery_type\": \"analysis\", \"refinery_relationships\": [{\"category\":\"1-1\", \"set1\":\"tag file\", \"set2\":\"control file\"}]}",
4 "format-version": "0.1",
5 "name": "Test workflow: SPP analog",
6 "steps": {
7 "0": {
8 "annotation": "",
9 "id": 0,
10 "input_connections": {},
11 "inputs": [
12 {
13 "description": "",
14 "name": "tag file"
15 }
16 ],
17 "name": "Input dataset",
18 "outputs": [],
19 "position": {
20 "left": 200,
21 "top": 254
22 },
23 "tool_errors": null,
24 "tool_id": null,
25 "tool_state": "{\"name\": \"tag file\"}",
26 "tool_version": null,
27 "type": "data_input",
28 "user_outputs": []
29 },
30 "1": {
31 "annotation": "",
32 "id": 1,
33 "input_connections": {},
34 "inputs": [
35 {
36 "description": "",
37 "name": "control file"
38 }
39 ],
40 "name": "Input dataset",
41 "outputs": [],
42 "position": {
43 "left": 202,
44 "top": 368
45 },
46 "tool_errors": null,
47 "tool_id": null,
48 "tool_state": "{\"name\": \"control file\"}",
49 "tool_version": null,
50 "type": "data_input",
51 "user_outputs": []
52 },
53 "2": {
54 "annotation": "",
55 "id": 2,
56 "input_connections": {
57 "input_file": {
58 "id": 0,
59 "output_name": "output"
60 }
61 },
62 "inputs": [],
63 "name": "Refinery test tool 1-1",
64 "outputs": [
65 {
66 "name": "output_file",
67 "type": "txt"
68 }
69 ],
70 "position": {
71 "left": 412,
72 "top": 242
73 },
74 "post_job_actions": {},
75 "tool_errors": null,
76 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
77 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
78 "tool_version": "0.1",
79 "type": "tool",
80 "user_outputs": []
81 },
82 "3": {
83 "annotation": "",
84 "id": 3,
85 "input_connections": {
86 "input_file": {
87 "id": 1,
88 "output_name": "output"
89 }
90 },
91 "inputs": [],
92 "name": "Refinery test tool 1-1",
93 "outputs": [
94 {
95 "name": "output_file",
96 "type": "txt"
97 }
98 ],
99 "position": {
100 "left": 414,
101 "top": 362
102 },
103 "post_job_actions": {},
104 "tool_errors": null,
105 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
106 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
107 "tool_version": "0.1",
108 "type": "tool",
109 "user_outputs": []
110 },
111 "4": {
112 "annotation": "",
113 "id": 4,
114 "input_connections": {
115 "input_file": {
116 "id": 2,
117 "output_name": "output_file"
118 }
119 },
120 "inputs": [],
121 "name": "Refinery test tool 1-1",
122 "outputs": [
123 {
124 "name": "output_file",
125 "type": "txt"
126 }
127 ],
128 "position": {
129 "left": 629,
130 "top": 246
131 },
132 "post_job_actions": {},
133 "tool_errors": null,
134 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
135 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
136 "tool_version": "0.1",
137 "type": "tool",
138 "user_outputs": []
139 },
140 "5": {
141 "annotation": "",
142 "id": 5,
143 "input_connections": {
144 "input_file": {
145 "id": 3,
146 "output_name": "output_file"
147 }
148 },
149 "inputs": [],
150 "name": "Refinery test tool 1-1",
151 "outputs": [
152 {
153 "name": "output_file",
154 "type": "txt"
155 }
156 ],
157 "position": {
158 "left": 629,
159 "top": 368
160 },
161 "post_job_actions": {},
162 "tool_errors": null,
163 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
164 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
165 "tool_version": "0.1",
166 "type": "tool",
167 "user_outputs": []
168 },
169 "6": {
170 "annotation": "",
171 "id": 6,
172 "input_connections": {
173 "input_file": {
174 "id": 4,
175 "output_name": "output_file"
176 }
177 },
178 "inputs": [],
179 "name": "Refinery test tool 1-1",
180 "outputs": [
181 {
182 "name": "output_file",
183 "type": "txt"
184 }
185 ],
186 "position": {
187 "left": 847,
188 "top": 251
189 },
190 "post_job_actions": {},
191 "tool_errors": null,
192 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
193 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
194 "tool_version": "0.1",
195 "type": "tool",
196 "user_outputs": []
197 },
198 "7": {
199 "annotation": "",
200 "id": 7,
201 "input_connections": {
202 "input_file": {
203 "id": 5,
204 "output_name": "output_file"
205 }
206 },
207 "inputs": [],
208 "name": "Refinery test tool 1-1",
209 "outputs": [
210 {
211 "name": "output_file",
212 "type": "txt"
213 }
214 ],
215 "position": {
216 "left": 847,
217 "top": 370
218 },
219 "post_job_actions": {},
220 "tool_errors": null,
221 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
222 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
223 "tool_version": "0.1",
224 "type": "tool",
225 "user_outputs": []
226 },
227 "8": {
228 "annotation": "{\"output_file\": {\"name\":\"test_01\", \"description\":\"\", \"type\":\"txt\"}}",
229 "id": 8,
230 "input_connections": {
231 "input_file": {
232 "id": 6,
233 "output_name": "output_file"
234 }
235 },
236 "inputs": [],
237 "name": "Refinery test tool 1-1",
238 "outputs": [
239 {
240 "name": "output_file",
241 "type": "txt"
242 }
243 ],
244 "position": {
245 "left": 1088,
246 "top": 212
247 },
248 "post_job_actions": {},
249 "tool_errors": null,
250 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
251 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
252 "tool_version": "0.1",
253 "type": "tool",
254 "user_outputs": []
255 },
256 "9": {
257 "annotation": "",
258 "id": 9,
259 "input_connections": {
260 "input_file1": {
261 "id": 6,
262 "output_name": "output_file"
263 },
264 "input_file2": {
265 "id": 7,
266 "output_name": "output_file"
267 }
268 },
269 "inputs": [],
270 "name": "Refinery test tool 2-6",
271 "outputs": [
272 {
273 "name": "output_file1",
274 "type": "txt"
275 },
276 {
277 "name": "output_file2",
278 "type": "txt"
279 },
280 {
281 "name": "output_file3",
282 "type": "txt"
283 },
284 {
285 "name": "output_file4",
286 "type": "txt"
287 },
288 {
289 "name": "output_file5",
290 "type": "txt"
291 },
292 {
293 "name": "output_file6",
294 "type": "txt"
295 }
296 ],
297 "position": {
298 "left": 1083,
299 "top": 330
300 },
301 "post_job_actions": {},
302 "tool_errors": null,
303 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_2-6/0.1",
304 "tool_state": "{\"__page__\": 0, \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"sleep_time\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"input_file1\": \"null\", \"input_file2\": \"null\"}",
305 "tool_version": "0.1",
306 "type": "tool",
307 "user_outputs": []
308 },
309 "10": {
310 "annotation": "{\"output_file\": {\"name\":\"test_02\", \"description\":\"\", \"type\":\"txt\"}}",
311 "id": 10,
312 "input_connections": {
313 "input_file": {
314 "id": 7,
315 "output_name": "output_file"
316 }
317 },
318 "inputs": [],
319 "name": "Refinery test tool 1-1",
320 "outputs": [
321 {
322 "name": "output_file",
323 "type": "txt"
324 }
325 ],
326 "position": {
327 "left": 1088,
328 "top": 611
329 },
330 "post_job_actions": {},
331 "tool_errors": null,
332 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
333 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
334 "tool_version": "0.1",
335 "type": "tool",
336 "user_outputs": []
337 },
338 "11": {
339 "annotation": "",
340 "id": 11,
341 "input_connections": {
342 "input_file": {
343 "id": 9,
344 "output_name": "output_file2"
345 }
346 },
347 "inputs": [],
348 "name": "Refinery test tool 1-1",
349 "outputs": [
350 {
351 "name": "output_file",
352 "type": "txt"
353 }
354 ],
355 "position": {
356 "left": 1299,
357 "top": 371
358 },
359 "post_job_actions": {},
360 "tool_errors": null,
361 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
362 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
363 "tool_version": "0.1",
364 "type": "tool",
365 "user_outputs": []
366 },
367 "12": {
368 "annotation": "",
369 "id": 12,
370 "input_connections": {
371 "input_file": {
372 "id": 9,
373 "output_name": "output_file4"
374 }
375 },
376 "inputs": [],
377 "name": "Refinery test tool 1-1",
378 "outputs": [
379 {
380 "name": "output_file",
381 "type": "txt"
382 }
383 ],
384 "position": {
385 "left": 1301,
386 "top": 493
387 },
388 "post_job_actions": {},
389 "tool_errors": null,
390 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
391 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
392 "tool_version": "0.1",
393 "type": "tool",
394 "user_outputs": []
395 },
396 "13": {
397 "annotation": "",
398 "id": 13,
399 "input_connections": {
400 "input_file": {
401 "id": 11,
402 "output_name": "output_file"
403 }
404 },
405 "inputs": [],
406 "name": "Refinery test tool 1-1",
407 "outputs": [
408 {
409 "name": "output_file",
410 "type": "txt"
411 }
412 ],
413 "position": {
414 "left": 1522,
415 "top": 373
416 },
417 "post_job_actions": {},
418 "tool_errors": null,
419 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
420 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
421 "tool_version": "0.1",
422 "type": "tool",
423 "user_outputs": []
424 },
425 "14": {
426 "annotation": "",
427 "id": 14,
428 "input_connections": {
429 "input_file": {
430 "id": 12,
431 "output_name": "output_file"
432 }
433 },
434 "inputs": [],
435 "name": "Refinery test tool 1-1",
436 "outputs": [
437 {
438 "name": "output_file",
439 "type": "txt"
440 }
441 ],
442 "position": {
443 "left": 1522,
444 "top": 496
445 },
446 "post_job_actions": {},
447 "tool_errors": null,
448 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
449 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
450 "tool_version": "0.1",
451 "type": "tool",
452 "user_outputs": []
453 },
454 "15": {
455 "annotation": "{\"output_file\": {\"name\":\"test_03\", \"description\":\"\", \"type\":\"txt\"}}",
456 "id": 15,
457 "input_connections": {
458 "input_file": {
459 "id": 13,
460 "output_name": "output_file"
461 }
462 },
463 "inputs": [],
464 "name": "Refinery test tool 1-1",
465 "outputs": [
466 {
467 "name": "output_file",
468 "type": "txt"
469 }
470 ],
471 "position": {
472 "left": 1747,
473 "top": 377
474 },
475 "post_job_actions": {},
476 "tool_errors": null,
477 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
478 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
479 "tool_version": "0.1",
480 "type": "tool",
481 "user_outputs": []
482 },
483 "16": {
484 "annotation": "{\"output_file\": {\"name\":\"test_04\", \"description\":\"\", \"type\":\"txt\"}}",
485 "id": 16,
486 "input_connections": {
487 "input_file": {
488 "id": 14,
489 "output_name": "output_file"
490 }
491 },
492 "inputs": [],
493 "name": "Refinery test tool 1-1",
494 "outputs": [
495 {
496 "name": "output_file",
497 "type": "txt"
498 }
499 ],
500 "position": {
501 "left": 1745,
502 "top": 499
503 },
504 "post_job_actions": {},
505 "tool_errors": null,
506 "tool_id": "testtoolshed.g2.bx.psu.edu/repos/hackdna/refinery_test/refinery_test_1-1/0.1",
507 "tool_state": "{\"__page__\": 0, \"input_file\": \"null\", \"stdout\": \"\\\"False\\\"\", \"exit_code\": \"\\\"0\\\"\", \"p_fail\": \"\\\"0.0\\\"\", \"empty_outfile\": \"\\\"False\\\"\", \"stderr\": \"\\\"False\\\"\", \"sleep_time\": \"\\\"0\\\"\"}",
508 "tool_version": "0.1",
509 "type": "tool",
510 "user_outputs": []
511 }
512 }
513 }