comparison finding_orphan_genes.ga @ 1:267a94f068d7 draft

planemo upload for repository https://github.com/TGAC/earlham-galaxytools/tree/master/workflows/GeneSeqToFamily commit 424b04f764977420ce4d92ebee5929fa18a30efb-dirty
author earlhaminst
date Mon, 20 Feb 2017 12:57:16 -0500
parents b92f5ab6d127
children
comparison
equal deleted inserted replaced
0:b92f5ab6d127 1:267a94f068d7
13 { 13 {
14 "description": "Output file from blast_parser of GeneSeqToFamily", 14 "description": "Output file from blast_parser of GeneSeqToFamily",
15 "name": "blast_parser data" 15 "name": "blast_parser data"
16 } 16 }
17 ], 17 ],
18 "label": null, 18 "label": "blast_parser data",
19 "name": "Input dataset", 19 "name": "Input dataset",
20 "outputs": [], 20 "outputs": [],
21 "position": { 21 "position": {
22 "left": 199.94483947753906, 22 "left": 199.9375,
23 "top": 276.4521942138672 23 "top": 276.4375
24 }, 24 },
25 "tool_errors": null, 25 "tool_errors": null,
26 "tool_id": null, 26 "tool_id": null,
27 "tool_state": "{\"name\": \"blast_parser data\"}", 27 "tool_state": "{\"name\": \"blast_parser data\"}",
28 "tool_version": null, 28 "tool_version": null,
45 { 45 {
46 "description": "Same CDS, used to run BLASTP in GeneSeqToFamily", 46 "description": "Same CDS, used to run BLASTP in GeneSeqToFamily",
47 "name": "CDS" 47 "name": "CDS"
48 } 48 }
49 ], 49 ],
50 "label": null, 50 "label": "CDS",
51 "name": "Input dataset", 51 "name": "Input dataset",
52 "outputs": [], 52 "outputs": [],
53 "position": { 53 "position": {
54 "left": 195.93748474121094, 54 "left": 195.921875,
55 "top": 553.3639373779297 55 "top": 553.359375
56 }, 56 },
57 "tool_errors": null, 57 "tool_errors": null,
58 "tool_id": null, 58 "tool_id": null,
59 "tool_state": "{\"name\": \"CDS\"}", 59 "tool_state": "{\"name\": \"CDS\"}",
60 "tool_version": null, 60 "tool_version": null,
67 "uuid": "5e46019a-f8fb-4507-8206-2402d8088ca5" 67 "uuid": "5e46019a-f8fb-4507-8206-2402d8088ca5"
68 } 68 }
69 ] 69 ]
70 }, 70 },
71 "2": { 71 "2": {
72 "annotation": "List of IDs discarded from hcluster_sg results",
73 "content_id": null,
74 "id": 2,
75 "input_connections": {},
76 "inputs": [
77 {
78 "description": "List of IDs discarded from hcluster_sg results",
79 "name": "hcluster_sg discarded"
80 }
81 ],
82 "label": "hcluster_sg discarded",
83 "name": "Input dataset",
84 "outputs": [],
85 "position": {
86 "left": 191,
87 "top": 697
88 },
89 "tool_errors": null,
90 "tool_id": null,
91 "tool_state": "{\"name\": \"hcluster_sg discarded\"}",
92 "tool_version": null,
93 "type": "data_input",
94 "uuid": "3866a37f-3309-4c5d-8ed9-bb7c21d25d8a",
95 "workflow_outputs": [
96 {
97 "label": null,
98 "output_name": "output",
99 "uuid": "f9fe709d-8a1b-44b0-9989-688af44b16ad"
100 }
101 ]
102 },
103 "3": {
72 "annotation": "", 104 "annotation": "",
73 "content_id": "Cut1", 105 "content_id": "Cut1",
74 "id": 2, 106 "id": 3,
75 "input_connections": { 107 "input_connections": {
76 "input": { 108 "input": {
77 "id": 0, 109 "id": 0,
78 "output_name": "output" 110 "output_name": "output"
79 } 111 }
91 "name": "out_file1", 123 "name": "out_file1",
92 "type": "tabular" 124 "type": "tabular"
93 } 125 }
94 ], 126 ],
95 "position": { 127 "position": {
96 "left": 429.9632110595703, 128 "left": 429.953125,
97 "top": 276.4521942138672 129 "top": 276.4375
98 }, 130 },
99 "post_job_actions": { 131 "post_job_actions": {
100 "HideDatasetActionout_file1": { 132 "HideDatasetActionout_file1": {
101 "action_arguments": {}, 133 "action_arguments": {},
102 "action_type": "HideDatasetAction", 134 "action_type": "HideDatasetAction",
109 "tool_version": "1.0.2", 141 "tool_version": "1.0.2",
110 "type": "tool", 142 "type": "tool",
111 "uuid": "3d809485-291c-4858-ade6-2f465bf667f0", 143 "uuid": "3d809485-291c-4858-ade6-2f465bf667f0",
112 "workflow_outputs": [] 144 "workflow_outputs": []
113 }, 145 },
114 "3": { 146 "4": {
115 "annotation": "", 147 "annotation": "",
116 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0", 148 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/fasta_to_tabular/fasta2tab/1.1.0",
117 "id": 3, 149 "id": 4,
118 "input_connections": { 150 "input_connections": {
119 "input": { 151 "input": {
120 "id": 1, 152 "id": 1,
121 "output_name": "output" 153 "output_name": "output"
122 } 154 }
134 "name": "output", 166 "name": "output",
135 "type": "tabular" 167 "type": "tabular"
136 } 168 }
137 ], 169 ],
138 "position": { 170 "position": {
139 "left": 429.9632110595703, 171 "left": 429.953125,
140 "top": 389.44850158691406 172 "top": 389.4375
141 }, 173 },
142 "post_job_actions": { 174 "post_job_actions": {
143 "HideDatasetActionoutput": { 175 "HideDatasetActionoutput": {
144 "action_arguments": {}, 176 "action_arguments": {},
145 "action_type": "HideDatasetAction", 177 "action_type": "HideDatasetAction",
158 "tool_version": "1.1.0", 190 "tool_version": "1.1.0",
159 "type": "tool", 191 "type": "tool",
160 "uuid": "614def54-f941-49a4-950c-69f651e6b35f", 192 "uuid": "614def54-f941-49a4-950c-69f651e6b35f",
161 "workflow_outputs": [] 193 "workflow_outputs": []
162 }, 194 },
163 "4": { 195 "5": {
164 "annotation": "", 196 "annotation": "",
165 "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sorted_uniq/1.1.0", 197 "content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_sorted_uniq/1.1.0",
166 "id": 4, 198 "id": 5,
167 "input_connections": { 199 "input_connections": {
168 "infile": { 200 "infile": {
169 "id": 2, 201 "id": 3,
170 "output_name": "out_file1" 202 "output_name": "out_file1"
171 } 203 }
172 }, 204 },
173 "inputs": [ 205 "inputs": [
174 { 206 {
183 "name": "outfile", 215 "name": "outfile",
184 "type": "input" 216 "type": "input"
185 } 217 }
186 ], 218 ],
187 "position": { 219 "position": {
188 "left": 659.9999542236328, 220 "left": 659.984375,
189 "top": 199.94483947753906 221 "top": 199.9375
190 }, 222 },
191 "post_job_actions": { 223 "post_job_actions": {
192 "HideDatasetActionoutfile": { 224 "HideDatasetActionoutfile": {
193 "action_arguments": {}, 225 "action_arguments": {},
194 "action_type": "HideDatasetAction", 226 "action_type": "HideDatasetAction",
207 "tool_version": "1.1.0", 239 "tool_version": "1.1.0",
208 "type": "tool", 240 "type": "tool",
209 "uuid": "55da94d2-b1d9-46ed-9668-db9b7f19a5bb", 241 "uuid": "55da94d2-b1d9-46ed-9668-db9b7f19a5bb",
210 "workflow_outputs": [] 242 "workflow_outputs": []
211 }, 243 },
212 "5": { 244 "6": {
213 "annotation": "", 245 "annotation": "",
214 "content_id": "Cut1", 246 "content_id": "Cut1",
215 "id": 5, 247 "id": 6,
216 "input_connections": { 248 "input_connections": {
217 "input": { 249 "input": {
218 "id": 3, 250 "id": 4,
219 "output_name": "output" 251 "output_name": "output"
220 } 252 }
221 }, 253 },
222 "inputs": [ 254 "inputs": [
223 { 255 {
232 "name": "out_file1", 264 "name": "out_file1",
233 "type": "tabular" 265 "type": "tabular"
234 } 266 }
235 ], 267 ],
236 "position": { 268 "position": {
237 "left": 675.9558258056641, 269 "left": 675.953125,
238 "top": 389.44850158691406 270 "top": 389.4375
239 }, 271 },
240 "post_job_actions": { 272 "post_job_actions": {
241 "HideDatasetActionout_file1": { 273 "HideDatasetActionout_file1": {
242 "action_arguments": {}, 274 "action_arguments": {},
243 "action_type": "HideDatasetAction", 275 "action_type": "HideDatasetAction",
250 "tool_version": "1.0.2", 282 "tool_version": "1.0.2",
251 "type": "tool", 283 "type": "tool",
252 "uuid": "5bae54ed-b8c8-432c-9980-422d0f678be3", 284 "uuid": "5bae54ed-b8c8-432c-9980-422d0f678be3",
253 "workflow_outputs": [] 285 "workflow_outputs": []
254 }, 286 },
255 "6": { 287 "7": {
256 "annotation": "", 288 "annotation": "",
257 "content_id": "Cut1", 289 "content_id": "Cut1",
258 "id": 6, 290 "id": 7,
259 "input_connections": { 291 "input_connections": {
260 "input": { 292 "input": {
261 "id": 4, 293 "id": 5,
262 "output_name": "outfile" 294 "output_name": "outfile"
263 } 295 }
264 }, 296 },
265 "inputs": [ 297 "inputs": [
266 { 298 {
275 "name": "out_file1", 307 "name": "out_file1",
276 "type": "tabular" 308 "type": "tabular"
277 } 309 }
278 ], 310 ],
279 "position": { 311 "position": {
280 "left": 917.9411773681641, 312 "left": 917.9375,
281 "top": 198.47425842285156 313 "top": 198.46875
282 }, 314 },
283 "post_job_actions": { 315 "post_job_actions": {
284 "HideDatasetActionout_file1": { 316 "HideDatasetActionout_file1": {
285 "action_arguments": {}, 317 "action_arguments": {},
286 "action_type": "HideDatasetAction", 318 "action_type": "HideDatasetAction",
293 "tool_version": "1.0.2", 325 "tool_version": "1.0.2",
294 "type": "tool", 326 "type": "tool",
295 "uuid": "d6dc6ba2-efc0-4e90-8562-4739c4f41fab", 327 "uuid": "d6dc6ba2-efc0-4e90-8562-4739c4f41fab",
296 "workflow_outputs": [] 328 "workflow_outputs": []
297 }, 329 },
298 "7": { 330 "8": {
299 "annotation": "", 331 "annotation": "",
300 "content_id": "comp1", 332 "content_id": "comp1",
301 "id": 7, 333 "id": 8,
302 "input_connections": { 334 "input_connections": {
303 "input1": { 335 "input1": {
304 "id": 5, 336 "id": 6,
305 "output_name": "out_file1" 337 "output_name": "out_file1"
306 }, 338 },
307 "input2": { 339 "input2": {
308 "id": 6, 340 "id": 7,
309 "output_name": "out_file1" 341 "output_name": "out_file1"
310 } 342 }
311 }, 343 },
312 "inputs": [ 344 "inputs": [
313 { 345 {
326 "name": "out_file1", 358 "name": "out_file1",
327 "type": "input" 359 "type": "input"
328 } 360 }
329 ], 361 ],
330 "position": { 362 "position": {
331 "left": 1123.952163696289, 363 "left": 1123.9375,
332 "top": 363.4558563232422 364 "top": 363.453125
333 }, 365 },
334 "post_job_actions": { 366 "post_job_actions": {
335 "HideDatasetActionout_file1": { 367 "HideDatasetActionout_file1": {
336 "action_arguments": {}, 368 "action_arguments": {},
337 "action_type": "HideDatasetAction", 369 "action_type": "HideDatasetAction",
344 "tool_version": "1.0.2", 376 "tool_version": "1.0.2",
345 "type": "tool", 377 "type": "tool",
346 "uuid": "7c71fbae-828d-4c99-8f7b-fe1a90b27626", 378 "uuid": "7c71fbae-828d-4c99-8f7b-fe1a90b27626",
347 "workflow_outputs": [] 379 "workflow_outputs": []
348 }, 380 },
349 "8": { 381 "9": {
382 "annotation": "",
383 "content_id": "cat1",
384 "id": 9,
385 "input_connections": {
386 "input1": {
387 "id": 8,
388 "output_name": "out_file1"
389 },
390 "queries_0|input2": {
391 "id": 2,
392 "output_name": "output"
393 }
394 },
395 "inputs": [
396 {
397 "description": "runtime parameter for tool Concatenate datasets",
398 "name": "input1"
399 }
400 ],
401 "label": null,
402 "name": "Concatenate datasets",
403 "outputs": [
404 {
405 "name": "out_file1",
406 "type": "input"
407 }
408 ],
409 "position": {
410 "left": 1130.5,
411 "top": 686
412 },
413 "post_job_actions": {
414 "HideDatasetActionout_file1": {
415 "action_arguments": {},
416 "action_type": "HideDatasetAction",
417 "output_name": "out_file1"
418 }
419 },
420 "tool_errors": null,
421 "tool_id": "cat1",
422 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input1\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"queries\": \"[{\\\"input2\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"__index__\\\": 0}]\"}",
423 "tool_version": "1.0.0",
424 "type": "tool",
425 "uuid": "8a1e29ca-8dec-4143-9db1-f38f820b0e9a",
426 "workflow_outputs": []
427 },
428 "10": {
350 "annotation": "", 429 "annotation": "",
351 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/1.0", 430 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/1.0",
352 "id": 8, 431 "id": 10,
353 "input_connections": { 432 "input_connections": {
354 "identifiers": { 433 "identifiers": {
355 "id": 7, 434 "id": 9,
356 "output_name": "out_file1" 435 "output_name": "out_file1"
357 }, 436 },
358 "input": { 437 "input": {
359 "id": 1, 438 "id": 1,
360 "output_name": "output" 439 "output_name": "output"
377 "name": "output", 456 "name": "output",
378 "type": "fasta" 457 "type": "fasta"
379 } 458 }
380 ], 459 ],
381 "position": { 460 "position": {
382 "left": 1129.9264068603516, 461 "left": 1392.921875,
383 "top": 544.4669036865234 462 "top": 550.453125
384 }, 463 },
385 "post_job_actions": {}, 464 "post_job_actions": {},
386 "tool_errors": null, 465 "tool_errors": null,
387 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/1.0", 466 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/1.0",
388 "tool_shed_repository": { 467 "tool_shed_repository": {
402 "uuid": "56824bb4-df6b-4ebc-8c89-c6731b5d76f1" 481 "uuid": "56824bb4-df6b-4ebc-8c89-c6731b5d76f1"
403 } 482 }
404 ] 483 ]
405 } 484 }
406 }, 485 },
407 "uuid": "23e0aa20-d91a-429e-817c-654a67b0a171" 486 "uuid": "cf6b9210-2ed8-46b1-920e-ac6303ed44d5"
408 } 487 }