Mercurial > repos > mcharles > rapsosnp
comparison rapsodyn/Galaxy-Workflow-rapsosnp_v1.20_-_10x_-_sam.ga @ 7:3f7b0788a1c4 draft
Uploaded
author | mcharles |
---|---|
date | Tue, 07 Oct 2014 10:34:34 -0400 |
parents | |
children | d857538d9fea |
comparison
equal
deleted
inserted
replaced
6:1776b8ddd87e | 7:3f7b0788a1c4 |
---|---|
1 { | |
2 "a_galaxy_workflow": "true", | |
3 "annotation": "", | |
4 "format-version": "0.1", | |
5 "name": "rapsosnp v1.20 - 1x - sam", | |
6 "steps": { | |
7 "0": { | |
8 "annotation": "", | |
9 "id": 0, | |
10 "input_connections": {}, | |
11 "inputs": [ | |
12 { | |
13 "description": "", | |
14 "name": "READ1" | |
15 } | |
16 ], | |
17 "name": "Input dataset", | |
18 "outputs": [], | |
19 "position": { | |
20 "left": 279, | |
21 "top": 617 | |
22 }, | |
23 "tool_errors": null, | |
24 "tool_id": null, | |
25 "tool_state": "{\"name\": \"READ1\"}", | |
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": "READ2" | |
38 } | |
39 ], | |
40 "name": "Input dataset", | |
41 "outputs": [], | |
42 "position": { | |
43 "left": 276, | |
44 "top": 713 | |
45 }, | |
46 "tool_errors": null, | |
47 "tool_id": null, | |
48 "tool_state": "{\"name\": \"READ2\"}", | |
49 "tool_version": null, | |
50 "type": "data_input", | |
51 "user_outputs": [] | |
52 }, | |
53 "2": { | |
54 "annotation": "", | |
55 "id": 2, | |
56 "input_connections": {}, | |
57 "inputs": [ | |
58 { | |
59 "description": "", | |
60 "name": "ASSEMBLY" | |
61 } | |
62 ], | |
63 "name": "Input dataset", | |
64 "outputs": [], | |
65 "position": { | |
66 "left": 3921, | |
67 "top": 392 | |
68 }, | |
69 "tool_errors": null, | |
70 "tool_id": null, | |
71 "tool_state": "{\"name\": \"ASSEMBLY\"}", | |
72 "tool_version": null, | |
73 "type": "data_input", | |
74 "user_outputs": [] | |
75 }, | |
76 "3": { | |
77 "annotation": "", | |
78 "id": 3, | |
79 "input_connections": {}, | |
80 "inputs": [ | |
81 { | |
82 "description": "", | |
83 "name": "DUBIOUS" | |
84 } | |
85 ], | |
86 "name": "Input dataset", | |
87 "outputs": [], | |
88 "position": { | |
89 "left": 3415, | |
90 "top": 1131 | |
91 }, | |
92 "tool_errors": null, | |
93 "tool_id": null, | |
94 "tool_state": "{\"name\": \"DUBIOUS\"}", | |
95 "tool_version": null, | |
96 "type": "data_input", | |
97 "user_outputs": [] | |
98 }, | |
99 "4": { | |
100 "annotation": "", | |
101 "id": 4, | |
102 "input_connections": { | |
103 "input_file": { | |
104 "id": 0, | |
105 "output_name": "output" | |
106 } | |
107 }, | |
108 "inputs": [], | |
109 "name": "SplitFile10x", | |
110 "outputs": [ | |
111 { | |
112 "name": "output_file1", | |
113 "type": "txt" | |
114 }, | |
115 { | |
116 "name": "output_file2", | |
117 "type": "txt" | |
118 }, | |
119 { | |
120 "name": "output_file3", | |
121 "type": "txt" | |
122 }, | |
123 { | |
124 "name": "output_file4", | |
125 "type": "txt" | |
126 }, | |
127 { | |
128 "name": "output_file5", | |
129 "type": "txt" | |
130 }, | |
131 { | |
132 "name": "output_file6", | |
133 "type": "txt" | |
134 }, | |
135 { | |
136 "name": "output_file7", | |
137 "type": "txt" | |
138 }, | |
139 { | |
140 "name": "output_file8", | |
141 "type": "txt" | |
142 }, | |
143 { | |
144 "name": "output_file9", | |
145 "type": "txt" | |
146 }, | |
147 { | |
148 "name": "output_file10", | |
149 "type": "txt" | |
150 } | |
151 ], | |
152 "position": { | |
153 "left": 590, | |
154 "top": 338 | |
155 }, | |
156 "post_job_actions": {}, | |
157 "tool_errors": null, | |
158 "tool_id": "SplitFile10x", | |
159 "tool_state": "{\"out_format\": \"\\\"pileup\\\"\", \"line_number\": \"\\\"4\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_file\": \"null\"}", | |
160 "tool_version": "1.00", | |
161 "type": "tool", | |
162 "user_outputs": [] | |
163 }, | |
164 "5": { | |
165 "annotation": "", | |
166 "id": 5, | |
167 "input_connections": { | |
168 "input_file": { | |
169 "id": 1, | |
170 "output_name": "output" | |
171 } | |
172 }, | |
173 "inputs": [], | |
174 "name": "SplitFile10x", | |
175 "outputs": [ | |
176 { | |
177 "name": "output_file1", | |
178 "type": "txt" | |
179 }, | |
180 { | |
181 "name": "output_file2", | |
182 "type": "txt" | |
183 }, | |
184 { | |
185 "name": "output_file3", | |
186 "type": "txt" | |
187 }, | |
188 { | |
189 "name": "output_file4", | |
190 "type": "txt" | |
191 }, | |
192 { | |
193 "name": "output_file5", | |
194 "type": "txt" | |
195 }, | |
196 { | |
197 "name": "output_file6", | |
198 "type": "txt" | |
199 }, | |
200 { | |
201 "name": "output_file7", | |
202 "type": "txt" | |
203 }, | |
204 { | |
205 "name": "output_file8", | |
206 "type": "txt" | |
207 }, | |
208 { | |
209 "name": "output_file9", | |
210 "type": "txt" | |
211 }, | |
212 { | |
213 "name": "output_file10", | |
214 "type": "txt" | |
215 } | |
216 ], | |
217 "position": { | |
218 "left": 581, | |
219 "top": 871 | |
220 }, | |
221 "post_job_actions": {}, | |
222 "tool_errors": null, | |
223 "tool_id": "SplitFile10x", | |
224 "tool_state": "{\"out_format\": \"\\\"pileup\\\"\", \"line_number\": \"\\\"4\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_file\": \"null\"}", | |
225 "tool_version": "1.00", | |
226 "type": "tool", | |
227 "user_outputs": [] | |
228 }, | |
229 "6": { | |
230 "annotation": "", | |
231 "id": 6, | |
232 "input_connections": { | |
233 "input_fasta": { | |
234 "id": 2, | |
235 "output_name": "output" | |
236 } | |
237 }, | |
238 "inputs": [], | |
239 "name": "fastaGroomerForMakeBlastdb", | |
240 "outputs": [ | |
241 { | |
242 "name": "output_fasta", | |
243 "type": "fasta" | |
244 } | |
245 ], | |
246 "position": { | |
247 "left": 4471.25, | |
248 "top": 231.75 | |
249 }, | |
250 "post_job_actions": {}, | |
251 "tool_errors": null, | |
252 "tool_id": "fastaGroomerForMakeBlastdb", | |
253 "tool_state": "{\"input_fasta\": \"null\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", | |
254 "tool_version": "1.00", | |
255 "type": "tool", | |
256 "user_outputs": [] | |
257 }, | |
258 "7": { | |
259 "annotation": "", | |
260 "id": 7, | |
261 "input_connections": { | |
262 "input_read1_file": { | |
263 "id": 4, | |
264 "output_name": "output_file1" | |
265 }, | |
266 "input_read2_file": { | |
267 "id": 5, | |
268 "output_name": "output_file1" | |
269 } | |
270 }, | |
271 "inputs": [], | |
272 "name": "PrepareFastqLight", | |
273 "outputs": [ | |
274 { | |
275 "name": "output_read1_file", | |
276 "type": "fastqsanger" | |
277 }, | |
278 { | |
279 "name": "output_read2_file", | |
280 "type": "fastqsanger" | |
281 }, | |
282 { | |
283 "name": "log_file", | |
284 "type": "txt" | |
285 } | |
286 ], | |
287 "position": { | |
288 "left": 936.93310546875, | |
289 "top": 338.43333435058594 | |
290 }, | |
291 "post_job_actions": {}, | |
292 "tool_errors": null, | |
293 "tool_id": "PrepareFastqLight", | |
294 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
295 "tool_version": "1.01", | |
296 "type": "tool", | |
297 "user_outputs": [] | |
298 }, | |
299 "8": { | |
300 "annotation": "", | |
301 "id": 8, | |
302 "input_connections": { | |
303 "input_read1_file": { | |
304 "id": 4, | |
305 "output_name": "output_file2" | |
306 }, | |
307 "input_read2_file": { | |
308 "id": 5, | |
309 "output_name": "output_file2" | |
310 } | |
311 }, | |
312 "inputs": [], | |
313 "name": "PrepareFastqLight", | |
314 "outputs": [ | |
315 { | |
316 "name": "output_read1_file", | |
317 "type": "fastqsanger" | |
318 }, | |
319 { | |
320 "name": "output_read2_file", | |
321 "type": "fastqsanger" | |
322 }, | |
323 { | |
324 "name": "log_file", | |
325 "type": "txt" | |
326 } | |
327 ], | |
328 "position": { | |
329 "left": 943.93310546875, | |
330 "top": 585.4333343505859 | |
331 }, | |
332 "post_job_actions": {}, | |
333 "tool_errors": null, | |
334 "tool_id": "PrepareFastqLight", | |
335 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
336 "tool_version": "1.01", | |
337 "type": "tool", | |
338 "user_outputs": [] | |
339 }, | |
340 "9": { | |
341 "annotation": "", | |
342 "id": 9, | |
343 "input_connections": { | |
344 "input_read1_file": { | |
345 "id": 4, | |
346 "output_name": "output_file3" | |
347 }, | |
348 "input_read2_file": { | |
349 "id": 5, | |
350 "output_name": "output_file3" | |
351 } | |
352 }, | |
353 "inputs": [], | |
354 "name": "PrepareFastqLight", | |
355 "outputs": [ | |
356 { | |
357 "name": "output_read1_file", | |
358 "type": "fastqsanger" | |
359 }, | |
360 { | |
361 "name": "output_read2_file", | |
362 "type": "fastqsanger" | |
363 }, | |
364 { | |
365 "name": "log_file", | |
366 "type": "txt" | |
367 } | |
368 ], | |
369 "position": { | |
370 "left": 947.93310546875, | |
371 "top": 812.433349609375 | |
372 }, | |
373 "post_job_actions": {}, | |
374 "tool_errors": null, | |
375 "tool_id": "PrepareFastqLight", | |
376 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
377 "tool_version": "1.01", | |
378 "type": "tool", | |
379 "user_outputs": [] | |
380 }, | |
381 "10": { | |
382 "annotation": "", | |
383 "id": 10, | |
384 "input_connections": { | |
385 "input_read1_file": { | |
386 "id": 4, | |
387 "output_name": "output_file6" | |
388 }, | |
389 "input_read2_file": { | |
390 "id": 5, | |
391 "output_name": "output_file6" | |
392 } | |
393 }, | |
394 "inputs": [], | |
395 "name": "PrepareFastqLight", | |
396 "outputs": [ | |
397 { | |
398 "name": "output_read1_file", | |
399 "type": "fastqsanger" | |
400 }, | |
401 { | |
402 "name": "output_read2_file", | |
403 "type": "fastqsanger" | |
404 }, | |
405 { | |
406 "name": "log_file", | |
407 "type": "txt" | |
408 } | |
409 ], | |
410 "position": { | |
411 "left": 1267.93310546875, | |
412 "top": 343.43333435058594 | |
413 }, | |
414 "post_job_actions": {}, | |
415 "tool_errors": null, | |
416 "tool_id": "PrepareFastqLight", | |
417 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
418 "tool_version": "1.01", | |
419 "type": "tool", | |
420 "user_outputs": [] | |
421 }, | |
422 "11": { | |
423 "annotation": "", | |
424 "id": 11, | |
425 "input_connections": { | |
426 "input_read1_file": { | |
427 "id": 4, | |
428 "output_name": "output_file7" | |
429 }, | |
430 "input_read2_file": { | |
431 "id": 5, | |
432 "output_name": "output_file7" | |
433 } | |
434 }, | |
435 "inputs": [], | |
436 "name": "PrepareFastqLight", | |
437 "outputs": [ | |
438 { | |
439 "name": "output_read1_file", | |
440 "type": "fastqsanger" | |
441 }, | |
442 { | |
443 "name": "output_read2_file", | |
444 "type": "fastqsanger" | |
445 }, | |
446 { | |
447 "name": "log_file", | |
448 "type": "txt" | |
449 } | |
450 ], | |
451 "position": { | |
452 "left": 1261.93310546875, | |
453 "top": 587.4333343505859 | |
454 }, | |
455 "post_job_actions": {}, | |
456 "tool_errors": null, | |
457 "tool_id": "PrepareFastqLight", | |
458 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
459 "tool_version": "1.01", | |
460 "type": "tool", | |
461 "user_outputs": [] | |
462 }, | |
463 "12": { | |
464 "annotation": "", | |
465 "id": 12, | |
466 "input_connections": { | |
467 "input_read1_file": { | |
468 "id": 4, | |
469 "output_name": "output_file4" | |
470 }, | |
471 "input_read2_file": { | |
472 "id": 5, | |
473 "output_name": "output_file4" | |
474 } | |
475 }, | |
476 "inputs": [], | |
477 "name": "PrepareFastqLight", | |
478 "outputs": [ | |
479 { | |
480 "name": "output_read1_file", | |
481 "type": "fastqsanger" | |
482 }, | |
483 { | |
484 "name": "output_read2_file", | |
485 "type": "fastqsanger" | |
486 }, | |
487 { | |
488 "name": "log_file", | |
489 "type": "txt" | |
490 } | |
491 ], | |
492 "position": { | |
493 "left": 954.93310546875, | |
494 "top": 1044.433349609375 | |
495 }, | |
496 "post_job_actions": {}, | |
497 "tool_errors": null, | |
498 "tool_id": "PrepareFastqLight", | |
499 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
500 "tool_version": "1.01", | |
501 "type": "tool", | |
502 "user_outputs": [] | |
503 }, | |
504 "13": { | |
505 "annotation": "", | |
506 "id": 13, | |
507 "input_connections": { | |
508 "input_read1_file": { | |
509 "id": 4, | |
510 "output_name": "output_file8" | |
511 }, | |
512 "input_read2_file": { | |
513 "id": 5, | |
514 "output_name": "output_file8" | |
515 } | |
516 }, | |
517 "inputs": [], | |
518 "name": "PrepareFastqLight", | |
519 "outputs": [ | |
520 { | |
521 "name": "output_read1_file", | |
522 "type": "fastqsanger" | |
523 }, | |
524 { | |
525 "name": "output_read2_file", | |
526 "type": "fastqsanger" | |
527 }, | |
528 { | |
529 "name": "log_file", | |
530 "type": "txt" | |
531 } | |
532 ], | |
533 "position": { | |
534 "left": 1265.93310546875, | |
535 "top": 815.433349609375 | |
536 }, | |
537 "post_job_actions": {}, | |
538 "tool_errors": null, | |
539 "tool_id": "PrepareFastqLight", | |
540 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
541 "tool_version": "1.01", | |
542 "type": "tool", | |
543 "user_outputs": [] | |
544 }, | |
545 "14": { | |
546 "annotation": "", | |
547 "id": 14, | |
548 "input_connections": { | |
549 "input_read1_file": { | |
550 "id": 4, | |
551 "output_name": "output_file5" | |
552 }, | |
553 "input_read2_file": { | |
554 "id": 5, | |
555 "output_name": "output_file5" | |
556 } | |
557 }, | |
558 "inputs": [], | |
559 "name": "PrepareFastqLight", | |
560 "outputs": [ | |
561 { | |
562 "name": "output_read1_file", | |
563 "type": "fastqsanger" | |
564 }, | |
565 { | |
566 "name": "output_read2_file", | |
567 "type": "fastqsanger" | |
568 }, | |
569 { | |
570 "name": "log_file", | |
571 "type": "txt" | |
572 } | |
573 ], | |
574 "position": { | |
575 "left": 953.93310546875, | |
576 "top": 1282.433349609375 | |
577 }, | |
578 "post_job_actions": {}, | |
579 "tool_errors": null, | |
580 "tool_id": "PrepareFastqLight", | |
581 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
582 "tool_version": "1.01", | |
583 "type": "tool", | |
584 "user_outputs": [] | |
585 }, | |
586 "15": { | |
587 "annotation": "", | |
588 "id": 15, | |
589 "input_connections": { | |
590 "input_read1_file": { | |
591 "id": 4, | |
592 "output_name": "output_file9" | |
593 }, | |
594 "input_read2_file": { | |
595 "id": 5, | |
596 "output_name": "output_file9" | |
597 } | |
598 }, | |
599 "inputs": [], | |
600 "name": "PrepareFastqLight", | |
601 "outputs": [ | |
602 { | |
603 "name": "output_read1_file", | |
604 "type": "fastqsanger" | |
605 }, | |
606 { | |
607 "name": "output_read2_file", | |
608 "type": "fastqsanger" | |
609 }, | |
610 { | |
611 "name": "log_file", | |
612 "type": "txt" | |
613 } | |
614 ], | |
615 "position": { | |
616 "left": 1265.93310546875, | |
617 "top": 1043.433349609375 | |
618 }, | |
619 "post_job_actions": {}, | |
620 "tool_errors": null, | |
621 "tool_id": "PrepareFastqLight", | |
622 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
623 "tool_version": "1.01", | |
624 "type": "tool", | |
625 "user_outputs": [] | |
626 }, | |
627 "16": { | |
628 "annotation": "", | |
629 "id": 16, | |
630 "input_connections": { | |
631 "input_read1_file": { | |
632 "id": 4, | |
633 "output_name": "output_file10" | |
634 }, | |
635 "input_read2_file": { | |
636 "id": 5, | |
637 "output_name": "output_file10" | |
638 } | |
639 }, | |
640 "inputs": [], | |
641 "name": "PrepareFastqLight", | |
642 "outputs": [ | |
643 { | |
644 "name": "output_read1_file", | |
645 "type": "fastqsanger" | |
646 }, | |
647 { | |
648 "name": "output_read2_file", | |
649 "type": "fastqsanger" | |
650 }, | |
651 { | |
652 "name": "log_file", | |
653 "type": "txt" | |
654 } | |
655 ], | |
656 "position": { | |
657 "left": 1270.93310546875, | |
658 "top": 1281.433349609375 | |
659 }, | |
660 "post_job_actions": {}, | |
661 "tool_errors": null, | |
662 "tool_id": "PrepareFastqLight", | |
663 "tool_state": "{\"__page__\": 0, \"quality_type\": \"\\\"illumina\\\"\", \"min_length\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"min_quality\": \"\\\"30\\\"\", \"input_read1_file\": \"null\", \"input_read2_file\": \"null\"}", | |
664 "tool_version": "1.01", | |
665 "type": "tool", | |
666 "user_outputs": [] | |
667 }, | |
668 "17": { | |
669 "annotation": "", | |
670 "id": 17, | |
671 "input_connections": { | |
672 "input_file": { | |
673 "id": 6, | |
674 "output_name": "output_fasta" | |
675 } | |
676 }, | |
677 "inputs": [], | |
678 "name": "NCBI BLAST+ makeblastdb", | |
679 "outputs": [ | |
680 { | |
681 "name": "outfile", | |
682 "type": "data" | |
683 } | |
684 ], | |
685 "position": { | |
686 "left": 5062.25, | |
687 "top": 221.75 | |
688 }, | |
689 "post_job_actions": {}, | |
690 "tool_errors": null, | |
691 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.1.00", | |
692 "tool_state": "{\"__page__\": 0, \"mask_data_file\": \"null\", \"input_file\": \"null\", \"dbtype\": \"\\\"nucl\\\"\", \"__rerun_remap_job_id__\": null, \"hash_index\": \"\\\"True\\\"\", \"tax\": \"{\\\"taxselect\\\": \\\"\\\", \\\"__current_case__\\\": 0}\", \"title\": \"\\\"\\\"\", \"parse_seqids\": \"\\\"False\\\"\"}", | |
693 "tool_version": "0.1.00", | |
694 "type": "tool", | |
695 "user_outputs": [] | |
696 }, | |
697 "18": { | |
698 "annotation": "", | |
699 "id": 18, | |
700 "input_connections": { | |
701 "genomeSource|ownFile": { | |
702 "id": 2, | |
703 "output_name": "output" | |
704 }, | |
705 "paired|input1": { | |
706 "id": 7, | |
707 "output_name": "output_read1_file" | |
708 }, | |
709 "paired|input2": { | |
710 "id": 7, | |
711 "output_name": "output_read2_file" | |
712 } | |
713 }, | |
714 "inputs": [], | |
715 "name": "Map with BWA for Illumina", | |
716 "outputs": [ | |
717 { | |
718 "name": "output", | |
719 "type": "sam" | |
720 } | |
721 ], | |
722 "position": { | |
723 "left": 1576.25, | |
724 "top": 346.75 | |
725 }, | |
726 "post_job_actions": {}, | |
727 "tool_errors": null, | |
728 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
729 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
730 "tool_version": "1.2.3", | |
731 "type": "tool", | |
732 "user_outputs": [] | |
733 }, | |
734 "19": { | |
735 "annotation": "", | |
736 "id": 19, | |
737 "input_connections": { | |
738 "genomeSource|ownFile": { | |
739 "id": 2, | |
740 "output_name": "output" | |
741 }, | |
742 "paired|input1": { | |
743 "id": 8, | |
744 "output_name": "output_read1_file" | |
745 }, | |
746 "paired|input2": { | |
747 "id": 8, | |
748 "output_name": "output_read2_file" | |
749 } | |
750 }, | |
751 "inputs": [], | |
752 "name": "Map with BWA for Illumina", | |
753 "outputs": [ | |
754 { | |
755 "name": "output", | |
756 "type": "sam" | |
757 } | |
758 ], | |
759 "position": { | |
760 "left": 1571.25, | |
761 "top": 589.75 | |
762 }, | |
763 "post_job_actions": {}, | |
764 "tool_errors": null, | |
765 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
766 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
767 "tool_version": "1.2.3", | |
768 "type": "tool", | |
769 "user_outputs": [] | |
770 }, | |
771 "20": { | |
772 "annotation": "", | |
773 "id": 20, | |
774 "input_connections": { | |
775 "genomeSource|ownFile": { | |
776 "id": 2, | |
777 "output_name": "output" | |
778 }, | |
779 "paired|input1": { | |
780 "id": 9, | |
781 "output_name": "output_read1_file" | |
782 }, | |
783 "paired|input2": { | |
784 "id": 9, | |
785 "output_name": "output_read2_file" | |
786 } | |
787 }, | |
788 "inputs": [], | |
789 "name": "Map with BWA for Illumina", | |
790 "outputs": [ | |
791 { | |
792 "name": "output", | |
793 "type": "sam" | |
794 } | |
795 ], | |
796 "position": { | |
797 "left": 1562.25, | |
798 "top": 819.75 | |
799 }, | |
800 "post_job_actions": {}, | |
801 "tool_errors": null, | |
802 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
803 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
804 "tool_version": "1.2.3", | |
805 "type": "tool", | |
806 "user_outputs": [] | |
807 }, | |
808 "21": { | |
809 "annotation": "", | |
810 "id": 21, | |
811 "input_connections": { | |
812 "genomeSource|ownFile": { | |
813 "id": 2, | |
814 "output_name": "output" | |
815 }, | |
816 "paired|input1": { | |
817 "id": 10, | |
818 "output_name": "output_read1_file" | |
819 }, | |
820 "paired|input2": { | |
821 "id": 10, | |
822 "output_name": "output_read2_file" | |
823 } | |
824 }, | |
825 "inputs": [], | |
826 "name": "Map with BWA for Illumina", | |
827 "outputs": [ | |
828 { | |
829 "name": "output", | |
830 "type": "sam" | |
831 } | |
832 ], | |
833 "position": { | |
834 "left": 1826.25, | |
835 "top": 350.75 | |
836 }, | |
837 "post_job_actions": {}, | |
838 "tool_errors": null, | |
839 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
840 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
841 "tool_version": "1.2.3", | |
842 "type": "tool", | |
843 "user_outputs": [] | |
844 }, | |
845 "22": { | |
846 "annotation": "", | |
847 "id": 22, | |
848 "input_connections": { | |
849 "genomeSource|ownFile": { | |
850 "id": 2, | |
851 "output_name": "output" | |
852 }, | |
853 "paired|input1": { | |
854 "id": 11, | |
855 "output_name": "output_read1_file" | |
856 }, | |
857 "paired|input2": { | |
858 "id": 11, | |
859 "output_name": "output_read2_file" | |
860 } | |
861 }, | |
862 "inputs": [], | |
863 "name": "Map with BWA for Illumina", | |
864 "outputs": [ | |
865 { | |
866 "name": "output", | |
867 "type": "sam" | |
868 } | |
869 ], | |
870 "position": { | |
871 "left": 1824.25, | |
872 "top": 592.75 | |
873 }, | |
874 "post_job_actions": {}, | |
875 "tool_errors": null, | |
876 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
877 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
878 "tool_version": "1.2.3", | |
879 "type": "tool", | |
880 "user_outputs": [] | |
881 }, | |
882 "23": { | |
883 "annotation": "", | |
884 "id": 23, | |
885 "input_connections": { | |
886 "genomeSource|ownFile": { | |
887 "id": 2, | |
888 "output_name": "output" | |
889 }, | |
890 "paired|input1": { | |
891 "id": 12, | |
892 "output_name": "output_read1_file" | |
893 }, | |
894 "paired|input2": { | |
895 "id": 12, | |
896 "output_name": "output_read2_file" | |
897 } | |
898 }, | |
899 "inputs": [], | |
900 "name": "Map with BWA for Illumina", | |
901 "outputs": [ | |
902 { | |
903 "name": "output", | |
904 "type": "sam" | |
905 } | |
906 ], | |
907 "position": { | |
908 "left": 1562.25, | |
909 "top": 1045.75 | |
910 }, | |
911 "post_job_actions": {}, | |
912 "tool_errors": null, | |
913 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
914 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
915 "tool_version": "1.2.3", | |
916 "type": "tool", | |
917 "user_outputs": [] | |
918 }, | |
919 "24": { | |
920 "annotation": "", | |
921 "id": 24, | |
922 "input_connections": { | |
923 "genomeSource|ownFile": { | |
924 "id": 2, | |
925 "output_name": "output" | |
926 }, | |
927 "paired|input1": { | |
928 "id": 13, | |
929 "output_name": "output_read1_file" | |
930 }, | |
931 "paired|input2": { | |
932 "id": 13, | |
933 "output_name": "output_read2_file" | |
934 } | |
935 }, | |
936 "inputs": [], | |
937 "name": "Map with BWA for Illumina", | |
938 "outputs": [ | |
939 { | |
940 "name": "output", | |
941 "type": "sam" | |
942 } | |
943 ], | |
944 "position": { | |
945 "left": 1818.25, | |
946 "top": 821.75 | |
947 }, | |
948 "post_job_actions": {}, | |
949 "tool_errors": null, | |
950 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
951 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
952 "tool_version": "1.2.3", | |
953 "type": "tool", | |
954 "user_outputs": [] | |
955 }, | |
956 "25": { | |
957 "annotation": "", | |
958 "id": 25, | |
959 "input_connections": { | |
960 "genomeSource|ownFile": { | |
961 "id": 2, | |
962 "output_name": "output" | |
963 }, | |
964 "paired|input1": { | |
965 "id": 14, | |
966 "output_name": "output_read1_file" | |
967 }, | |
968 "paired|input2": { | |
969 "id": 14, | |
970 "output_name": "output_read2_file" | |
971 } | |
972 }, | |
973 "inputs": [], | |
974 "name": "Map with BWA for Illumina", | |
975 "outputs": [ | |
976 { | |
977 "name": "output", | |
978 "type": "sam" | |
979 } | |
980 ], | |
981 "position": { | |
982 "left": 1563.25, | |
983 "top": 1284.75 | |
984 }, | |
985 "post_job_actions": {}, | |
986 "tool_errors": null, | |
987 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
988 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
989 "tool_version": "1.2.3", | |
990 "type": "tool", | |
991 "user_outputs": [] | |
992 }, | |
993 "26": { | |
994 "annotation": "", | |
995 "id": 26, | |
996 "input_connections": { | |
997 "genomeSource|ownFile": { | |
998 "id": 2, | |
999 "output_name": "output" | |
1000 }, | |
1001 "paired|input1": { | |
1002 "id": 15, | |
1003 "output_name": "output_read1_file" | |
1004 }, | |
1005 "paired|input2": { | |
1006 "id": 15, | |
1007 "output_name": "output_read2_file" | |
1008 } | |
1009 }, | |
1010 "inputs": [], | |
1011 "name": "Map with BWA for Illumina", | |
1012 "outputs": [ | |
1013 { | |
1014 "name": "output", | |
1015 "type": "sam" | |
1016 } | |
1017 ], | |
1018 "position": { | |
1019 "left": 1813.25, | |
1020 "top": 1044.75 | |
1021 }, | |
1022 "post_job_actions": {}, | |
1023 "tool_errors": null, | |
1024 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
1025 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
1026 "tool_version": "1.2.3", | |
1027 "type": "tool", | |
1028 "user_outputs": [] | |
1029 }, | |
1030 "27": { | |
1031 "annotation": "", | |
1032 "id": 27, | |
1033 "input_connections": { | |
1034 "genomeSource|ownFile": { | |
1035 "id": 2, | |
1036 "output_name": "output" | |
1037 }, | |
1038 "paired|input1": { | |
1039 "id": 16, | |
1040 "output_name": "output_read1_file" | |
1041 }, | |
1042 "paired|input2": { | |
1043 "id": 16, | |
1044 "output_name": "output_read2_file" | |
1045 } | |
1046 }, | |
1047 "inputs": [], | |
1048 "name": "Map with BWA for Illumina", | |
1049 "outputs": [ | |
1050 { | |
1051 "name": "output", | |
1052 "type": "sam" | |
1053 } | |
1054 ], | |
1055 "position": { | |
1056 "left": 1807.25, | |
1057 "top": 1286.75 | |
1058 }, | |
1059 "post_job_actions": {}, | |
1060 "tool_errors": null, | |
1061 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3", | |
1062 "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"__current_case__\\\": 0, \\\"source_select\\\": \\\"pre_set\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}", | |
1063 "tool_version": "1.2.3", | |
1064 "type": "tool", | |
1065 "user_outputs": [] | |
1066 }, | |
1067 "28": { | |
1068 "annotation": "", | |
1069 "id": 28, | |
1070 "input_connections": { | |
1071 "input_sam_file": { | |
1072 "id": 18, | |
1073 "output_name": "output" | |
1074 } | |
1075 }, | |
1076 "inputs": [], | |
1077 "name": "filtersam_mapped_and_unique", | |
1078 "outputs": [ | |
1079 { | |
1080 "name": "output_sam_file", | |
1081 "type": "sam" | |
1082 }, | |
1083 { | |
1084 "name": "log_file", | |
1085 "type": "txt" | |
1086 } | |
1087 ], | |
1088 "position": { | |
1089 "left": 2096.75, | |
1090 "top": 353.75 | |
1091 }, | |
1092 "post_job_actions": {}, | |
1093 "tool_errors": null, | |
1094 "tool_id": "filtersam_mapped_and_unique", | |
1095 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1096 "tool_version": "1.01", | |
1097 "type": "tool", | |
1098 "user_outputs": [] | |
1099 }, | |
1100 "29": { | |
1101 "annotation": "", | |
1102 "id": 29, | |
1103 "input_connections": { | |
1104 "input_sam_file": { | |
1105 "id": 19, | |
1106 "output_name": "output" | |
1107 } | |
1108 }, | |
1109 "inputs": [], | |
1110 "name": "filtersam_mapped_and_unique", | |
1111 "outputs": [ | |
1112 { | |
1113 "name": "output_sam_file", | |
1114 "type": "sam" | |
1115 }, | |
1116 { | |
1117 "name": "log_file", | |
1118 "type": "txt" | |
1119 } | |
1120 ], | |
1121 "position": { | |
1122 "left": 2093.75, | |
1123 "top": 596.75 | |
1124 }, | |
1125 "post_job_actions": {}, | |
1126 "tool_errors": null, | |
1127 "tool_id": "filtersam_mapped_and_unique", | |
1128 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1129 "tool_version": "1.01", | |
1130 "type": "tool", | |
1131 "user_outputs": [] | |
1132 }, | |
1133 "30": { | |
1134 "annotation": "", | |
1135 "id": 30, | |
1136 "input_connections": { | |
1137 "input_sam_file": { | |
1138 "id": 20, | |
1139 "output_name": "output" | |
1140 } | |
1141 }, | |
1142 "inputs": [], | |
1143 "name": "filtersam_mapped_and_unique", | |
1144 "outputs": [ | |
1145 { | |
1146 "name": "output_sam_file", | |
1147 "type": "sam" | |
1148 }, | |
1149 { | |
1150 "name": "log_file", | |
1151 "type": "txt" | |
1152 } | |
1153 ], | |
1154 "position": { | |
1155 "left": 2091.75, | |
1156 "top": 827.75 | |
1157 }, | |
1158 "post_job_actions": {}, | |
1159 "tool_errors": null, | |
1160 "tool_id": "filtersam_mapped_and_unique", | |
1161 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1162 "tool_version": "1.01", | |
1163 "type": "tool", | |
1164 "user_outputs": [] | |
1165 }, | |
1166 "31": { | |
1167 "annotation": "", | |
1168 "id": 31, | |
1169 "input_connections": { | |
1170 "input_sam_file": { | |
1171 "id": 21, | |
1172 "output_name": "output" | |
1173 } | |
1174 }, | |
1175 "inputs": [], | |
1176 "name": "filtersam_mapped_and_unique", | |
1177 "outputs": [ | |
1178 { | |
1179 "name": "output_sam_file", | |
1180 "type": "sam" | |
1181 }, | |
1182 { | |
1183 "name": "log_file", | |
1184 "type": "txt" | |
1185 } | |
1186 ], | |
1187 "position": { | |
1188 "left": 2443.75, | |
1189 "top": 356.75 | |
1190 }, | |
1191 "post_job_actions": {}, | |
1192 "tool_errors": null, | |
1193 "tool_id": "filtersam_mapped_and_unique", | |
1194 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1195 "tool_version": "1.01", | |
1196 "type": "tool", | |
1197 "user_outputs": [] | |
1198 }, | |
1199 "32": { | |
1200 "annotation": "", | |
1201 "id": 32, | |
1202 "input_connections": { | |
1203 "input_sam_file": { | |
1204 "id": 22, | |
1205 "output_name": "output" | |
1206 } | |
1207 }, | |
1208 "inputs": [], | |
1209 "name": "filtersam_mapped_and_unique", | |
1210 "outputs": [ | |
1211 { | |
1212 "name": "output_sam_file", | |
1213 "type": "sam" | |
1214 }, | |
1215 { | |
1216 "name": "log_file", | |
1217 "type": "txt" | |
1218 } | |
1219 ], | |
1220 "position": { | |
1221 "left": 2438.75, | |
1222 "top": 596.75 | |
1223 }, | |
1224 "post_job_actions": {}, | |
1225 "tool_errors": null, | |
1226 "tool_id": "filtersam_mapped_and_unique", | |
1227 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1228 "tool_version": "1.01", | |
1229 "type": "tool", | |
1230 "user_outputs": [] | |
1231 }, | |
1232 "33": { | |
1233 "annotation": "", | |
1234 "id": 33, | |
1235 "input_connections": { | |
1236 "input_sam_file": { | |
1237 "id": 23, | |
1238 "output_name": "output" | |
1239 } | |
1240 }, | |
1241 "inputs": [], | |
1242 "name": "filtersam_mapped_and_unique", | |
1243 "outputs": [ | |
1244 { | |
1245 "name": "output_sam_file", | |
1246 "type": "sam" | |
1247 }, | |
1248 { | |
1249 "name": "log_file", | |
1250 "type": "txt" | |
1251 } | |
1252 ], | |
1253 "position": { | |
1254 "left": 2087.75, | |
1255 "top": 1046.75 | |
1256 }, | |
1257 "post_job_actions": {}, | |
1258 "tool_errors": null, | |
1259 "tool_id": "filtersam_mapped_and_unique", | |
1260 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1261 "tool_version": "1.01", | |
1262 "type": "tool", | |
1263 "user_outputs": [] | |
1264 }, | |
1265 "34": { | |
1266 "annotation": "", | |
1267 "id": 34, | |
1268 "input_connections": { | |
1269 "input_sam_file": { | |
1270 "id": 24, | |
1271 "output_name": "output" | |
1272 } | |
1273 }, | |
1274 "inputs": [], | |
1275 "name": "filtersam_mapped_and_unique", | |
1276 "outputs": [ | |
1277 { | |
1278 "name": "output_sam_file", | |
1279 "type": "sam" | |
1280 }, | |
1281 { | |
1282 "name": "log_file", | |
1283 "type": "txt" | |
1284 } | |
1285 ], | |
1286 "position": { | |
1287 "left": 2432.75, | |
1288 "top": 826.75 | |
1289 }, | |
1290 "post_job_actions": {}, | |
1291 "tool_errors": null, | |
1292 "tool_id": "filtersam_mapped_and_unique", | |
1293 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1294 "tool_version": "1.01", | |
1295 "type": "tool", | |
1296 "user_outputs": [] | |
1297 }, | |
1298 "35": { | |
1299 "annotation": "", | |
1300 "id": 35, | |
1301 "input_connections": { | |
1302 "input_sam_file": { | |
1303 "id": 25, | |
1304 "output_name": "output" | |
1305 } | |
1306 }, | |
1307 "inputs": [], | |
1308 "name": "filtersam_mapped_and_unique", | |
1309 "outputs": [ | |
1310 { | |
1311 "name": "output_sam_file", | |
1312 "type": "sam" | |
1313 }, | |
1314 { | |
1315 "name": "log_file", | |
1316 "type": "txt" | |
1317 } | |
1318 ], | |
1319 "position": { | |
1320 "left": 2089.75, | |
1321 "top": 1289.75 | |
1322 }, | |
1323 "post_job_actions": {}, | |
1324 "tool_errors": null, | |
1325 "tool_id": "filtersam_mapped_and_unique", | |
1326 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1327 "tool_version": "1.01", | |
1328 "type": "tool", | |
1329 "user_outputs": [] | |
1330 }, | |
1331 "36": { | |
1332 "annotation": "", | |
1333 "id": 36, | |
1334 "input_connections": { | |
1335 "input_sam_file": { | |
1336 "id": 26, | |
1337 "output_name": "output" | |
1338 } | |
1339 }, | |
1340 "inputs": [], | |
1341 "name": "filtersam_mapped_and_unique", | |
1342 "outputs": [ | |
1343 { | |
1344 "name": "output_sam_file", | |
1345 "type": "sam" | |
1346 }, | |
1347 { | |
1348 "name": "log_file", | |
1349 "type": "txt" | |
1350 } | |
1351 ], | |
1352 "position": { | |
1353 "left": 2436.75, | |
1354 "top": 1048.75 | |
1355 }, | |
1356 "post_job_actions": {}, | |
1357 "tool_errors": null, | |
1358 "tool_id": "filtersam_mapped_and_unique", | |
1359 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1360 "tool_version": "1.01", | |
1361 "type": "tool", | |
1362 "user_outputs": [] | |
1363 }, | |
1364 "37": { | |
1365 "annotation": "", | |
1366 "id": 37, | |
1367 "input_connections": { | |
1368 "input_sam_file": { | |
1369 "id": 27, | |
1370 "output_name": "output" | |
1371 } | |
1372 }, | |
1373 "inputs": [], | |
1374 "name": "filtersam_mapped_and_unique", | |
1375 "outputs": [ | |
1376 { | |
1377 "name": "output_sam_file", | |
1378 "type": "sam" | |
1379 }, | |
1380 { | |
1381 "name": "log_file", | |
1382 "type": "txt" | |
1383 } | |
1384 ], | |
1385 "position": { | |
1386 "left": 2437.75, | |
1387 "top": 1289.75 | |
1388 }, | |
1389 "post_job_actions": {}, | |
1390 "tool_errors": null, | |
1391 "tool_id": "filtersam_mapped_and_unique", | |
1392 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_sam_file\": \"null\"}", | |
1393 "tool_version": "1.01", | |
1394 "type": "tool", | |
1395 "user_outputs": [] | |
1396 }, | |
1397 "38": { | |
1398 "annotation": "", | |
1399 "id": 38, | |
1400 "input_connections": { | |
1401 "input_files": [ | |
1402 { | |
1403 "id": 37, | |
1404 "output_name": "output_sam_file" | |
1405 }, | |
1406 { | |
1407 "id": 36, | |
1408 "output_name": "output_sam_file" | |
1409 }, | |
1410 { | |
1411 "id": 35, | |
1412 "output_name": "output_sam_file" | |
1413 }, | |
1414 { | |
1415 "id": 34, | |
1416 "output_name": "output_sam_file" | |
1417 }, | |
1418 { | |
1419 "id": 33, | |
1420 "output_name": "output_sam_file" | |
1421 }, | |
1422 { | |
1423 "id": 32, | |
1424 "output_name": "output_sam_file" | |
1425 }, | |
1426 { | |
1427 "id": 31, | |
1428 "output_name": "output_sam_file" | |
1429 }, | |
1430 { | |
1431 "id": 30, | |
1432 "output_name": "output_sam_file" | |
1433 }, | |
1434 { | |
1435 "id": 29, | |
1436 "output_name": "output_sam_file" | |
1437 }, | |
1438 { | |
1439 "id": 28, | |
1440 "output_name": "output_sam_file" | |
1441 } | |
1442 ] | |
1443 }, | |
1444 "inputs": [], | |
1445 "name": "MergeSamFiles", | |
1446 "outputs": [ | |
1447 { | |
1448 "name": "output_file", | |
1449 "type": "sam" | |
1450 } | |
1451 ], | |
1452 "position": { | |
1453 "left": 2900.25, | |
1454 "top": 806.75 | |
1455 }, | |
1456 "post_job_actions": {}, | |
1457 "tool_errors": null, | |
1458 "tool_id": "MergeSamFiles", | |
1459 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_files\": \"null\"}", | |
1460 "tool_version": "1.00", | |
1461 "type": "tool", | |
1462 "user_outputs": [] | |
1463 }, | |
1464 "39": { | |
1465 "annotation": "", | |
1466 "id": 39, | |
1467 "input_connections": { | |
1468 "source|input1": { | |
1469 "id": 38, | |
1470 "output_name": "output_file" | |
1471 }, | |
1472 "source|ref_file": { | |
1473 "id": 2, | |
1474 "output_name": "output" | |
1475 } | |
1476 }, | |
1477 "inputs": [], | |
1478 "name": "SAM-to-BAM", | |
1479 "outputs": [ | |
1480 { | |
1481 "name": "output1", | |
1482 "type": "bam" | |
1483 } | |
1484 ], | |
1485 "position": { | |
1486 "left": 3233.25, | |
1487 "top": 807.75 | |
1488 }, | |
1489 "post_job_actions": {}, | |
1490 "tool_errors": null, | |
1491 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/sam_to_bam/sam_to_bam/1.1.4", | |
1492 "tool_state": "{\"source\": \"{\\\"index_source\\\": \\\"history\\\", \\\"ref_file\\\": null, \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", | |
1493 "tool_version": "1.1.4", | |
1494 "type": "tool", | |
1495 "user_outputs": [] | |
1496 }, | |
1497 "40": { | |
1498 "annotation": "", | |
1499 "id": 40, | |
1500 "input_connections": { | |
1501 "reference_source|input_bams_0|input_bam": { | |
1502 "id": 39, | |
1503 "output_name": "output1" | |
1504 }, | |
1505 "reference_source|ref_file": { | |
1506 "id": 2, | |
1507 "output_name": "output" | |
1508 } | |
1509 }, | |
1510 "inputs": [], | |
1511 "name": "MPileup", | |
1512 "outputs": [ | |
1513 { | |
1514 "name": "output_mpileup", | |
1515 "type": "pileup" | |
1516 }, | |
1517 { | |
1518 "name": "output_log", | |
1519 "type": "txt" | |
1520 } | |
1521 ], | |
1522 "position": { | |
1523 "left": 3462.25, | |
1524 "top": 809.75 | |
1525 }, | |
1526 "post_job_actions": {}, | |
1527 "tool_errors": null, | |
1528 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_mpileup/samtools_mpileup/0.0.3", | |
1529 "tool_state": "{\"__page__\": 0, \"advanced_options\": \"{\\\"max_reads_per_bam\\\": \\\"250\\\", \\\"advanced_options_selector\\\": \\\"advanced\\\", \\\"extended_BAQ_computation\\\": \\\"False\\\", \\\"region_string\\\": \\\"\\\", \\\"output_per_sample_strand_bias_p_value\\\": \\\"False\\\", \\\"minimum_base_quality\\\": \\\"0\\\", \\\"disable_probabilistic_realignment\\\": \\\"False\\\", \\\"skip_anomalous_read_pairs\\\": \\\"False\\\", \\\"minimum_mapping_quality\\\": \\\"0\\\", \\\"output_per_sample_read_depth\\\": \\\"False\\\", \\\"__current_case__\\\": 0, \\\"position_list\\\": null, \\\"coefficient_for_downgrading\\\": \\\"0\\\"}\", \"__rerun_remap_job_id__\": null, \"genotype_likelihood_computation_type\": \"{\\\"genotype_likelihood_computation_type_selector\\\": \\\"do_not_perform_genotype_likelihood_computation\\\", \\\"__current_case__\\\": 1}\", \"reference_source\": \"{\\\"ref_file\\\": null, \\\"reference_source_selector\\\": \\\"history\\\", \\\"input_bams\\\": [{\\\"__index__\\\": 0, \\\"input_bam\\\": null}], \\\"__current_case__\\\": 1}\"}", | |
1530 "tool_version": "0.0.3", | |
1531 "type": "tool", | |
1532 "user_outputs": [] | |
1533 }, | |
1534 "41": { | |
1535 "annotation": "", | |
1536 "id": 41, | |
1537 "input_connections": { | |
1538 "input_pileup_file": { | |
1539 "id": 40, | |
1540 "output_name": "output_mpileup" | |
1541 } | |
1542 }, | |
1543 "inputs": [], | |
1544 "name": "PileupVariant", | |
1545 "outputs": [ | |
1546 { | |
1547 "name": "output_pileup_file", | |
1548 "type": "pileup" | |
1549 }, | |
1550 { | |
1551 "name": "log_file", | |
1552 "type": "txt" | |
1553 } | |
1554 ], | |
1555 "position": { | |
1556 "left": 3743.25, | |
1557 "top": 901.75 | |
1558 }, | |
1559 "post_job_actions": {}, | |
1560 "tool_errors": null, | |
1561 "tool_id": "PileupVariant", | |
1562 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_pileup_file\": \"null\"}", | |
1563 "tool_version": "1.01", | |
1564 "type": "tool", | |
1565 "user_outputs": [] | |
1566 }, | |
1567 "42": { | |
1568 "annotation": "", | |
1569 "id": 42, | |
1570 "input_connections": { | |
1571 "input_list1": { | |
1572 "id": 41, | |
1573 "output_name": "output_pileup_file" | |
1574 }, | |
1575 "input_list2": { | |
1576 "id": 3, | |
1577 "output_name": "output" | |
1578 } | |
1579 }, | |
1580 "inputs": [], | |
1581 "name": "listfiltering", | |
1582 "outputs": [ | |
1583 { | |
1584 "name": "output_file", | |
1585 "type": "pileup" | |
1586 }, | |
1587 { | |
1588 "name": "log_file", | |
1589 "type": "txt" | |
1590 } | |
1591 ], | |
1592 "position": { | |
1593 "left": 4107.25, | |
1594 "top": 905.75 | |
1595 }, | |
1596 "post_job_actions": {}, | |
1597 "tool_errors": null, | |
1598 "tool_id": "listfiltering", | |
1599 "tool_state": "{\"__page__\": 0, \"input_list2\": \"null\", \"input_list1\": \"null\", \"__rerun_remap_job_id__\": null, \"nb_col\": \"\\\"2\\\"\", \"type\": \"\\\"specific\\\"\"}", | |
1600 "tool_version": "1.01", | |
1601 "type": "tool", | |
1602 "user_outputs": [] | |
1603 }, | |
1604 "43": { | |
1605 "annotation": "", | |
1606 "id": 43, | |
1607 "input_connections": { | |
1608 "input_file": { | |
1609 "id": 42, | |
1610 "output_name": "output_file" | |
1611 } | |
1612 }, | |
1613 "inputs": [], | |
1614 "name": "SplitFile10x", | |
1615 "outputs": [ | |
1616 { | |
1617 "name": "output_file1", | |
1618 "type": "txt" | |
1619 }, | |
1620 { | |
1621 "name": "output_file2", | |
1622 "type": "txt" | |
1623 }, | |
1624 { | |
1625 "name": "output_file3", | |
1626 "type": "txt" | |
1627 }, | |
1628 { | |
1629 "name": "output_file4", | |
1630 "type": "txt" | |
1631 }, | |
1632 { | |
1633 "name": "output_file5", | |
1634 "type": "txt" | |
1635 }, | |
1636 { | |
1637 "name": "output_file6", | |
1638 "type": "txt" | |
1639 }, | |
1640 { | |
1641 "name": "output_file7", | |
1642 "type": "txt" | |
1643 }, | |
1644 { | |
1645 "name": "output_file8", | |
1646 "type": "txt" | |
1647 }, | |
1648 { | |
1649 "name": "output_file9", | |
1650 "type": "txt" | |
1651 }, | |
1652 { | |
1653 "name": "output_file10", | |
1654 "type": "txt" | |
1655 } | |
1656 ], | |
1657 "position": { | |
1658 "left": 4405.25, | |
1659 "top": 635.75 | |
1660 }, | |
1661 "post_job_actions": {}, | |
1662 "tool_errors": null, | |
1663 "tool_id": "SplitFile10x", | |
1664 "tool_state": "{\"out_format\": \"\\\"pileup\\\"\", \"line_number\": \"\\\"4\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_file\": \"null\"}", | |
1665 "tool_version": "1.00", | |
1666 "type": "tool", | |
1667 "user_outputs": [] | |
1668 }, | |
1669 "44": { | |
1670 "annotation": "", | |
1671 "id": 44, | |
1672 "input_connections": { | |
1673 "input_assembly_file": { | |
1674 "id": 2, | |
1675 "output_name": "output" | |
1676 }, | |
1677 "input_variant_file": { | |
1678 "id": 43, | |
1679 "output_name": "output_file1" | |
1680 } | |
1681 }, | |
1682 "inputs": [], | |
1683 "name": "extractseq", | |
1684 "outputs": [ | |
1685 { | |
1686 "name": "output_file", | |
1687 "type": "fasta" | |
1688 } | |
1689 ], | |
1690 "position": { | |
1691 "left": 4738.25, | |
1692 "top": 471.75 | |
1693 }, | |
1694 "post_job_actions": {}, | |
1695 "tool_errors": null, | |
1696 "tool_id": "extractseq", | |
1697 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1698 "tool_version": "1.01", | |
1699 "type": "tool", | |
1700 "user_outputs": [] | |
1701 }, | |
1702 "45": { | |
1703 "annotation": "", | |
1704 "id": 45, | |
1705 "input_connections": { | |
1706 "input_assembly_file": { | |
1707 "id": 2, | |
1708 "output_name": "output" | |
1709 }, | |
1710 "input_variant_file": { | |
1711 "id": 43, | |
1712 "output_name": "output_file2" | |
1713 } | |
1714 }, | |
1715 "inputs": [], | |
1716 "name": "extractseq", | |
1717 "outputs": [ | |
1718 { | |
1719 "name": "output_file", | |
1720 "type": "fasta" | |
1721 } | |
1722 ], | |
1723 "position": { | |
1724 "left": 4739.25, | |
1725 "top": 655.75 | |
1726 }, | |
1727 "post_job_actions": {}, | |
1728 "tool_errors": null, | |
1729 "tool_id": "extractseq", | |
1730 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1731 "tool_version": "1.01", | |
1732 "type": "tool", | |
1733 "user_outputs": [] | |
1734 }, | |
1735 "46": { | |
1736 "annotation": "", | |
1737 "id": 46, | |
1738 "input_connections": { | |
1739 "input_assembly_file": { | |
1740 "id": 2, | |
1741 "output_name": "output" | |
1742 }, | |
1743 "input_variant_file": { | |
1744 "id": 43, | |
1745 "output_name": "output_file3" | |
1746 } | |
1747 }, | |
1748 "inputs": [], | |
1749 "name": "extractseq", | |
1750 "outputs": [ | |
1751 { | |
1752 "name": "output_file", | |
1753 "type": "fasta" | |
1754 } | |
1755 ], | |
1756 "position": { | |
1757 "left": 4733.25, | |
1758 "top": 855.75 | |
1759 }, | |
1760 "post_job_actions": {}, | |
1761 "tool_errors": null, | |
1762 "tool_id": "extractseq", | |
1763 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1764 "tool_version": "1.01", | |
1765 "type": "tool", | |
1766 "user_outputs": [] | |
1767 }, | |
1768 "47": { | |
1769 "annotation": "", | |
1770 "id": 47, | |
1771 "input_connections": { | |
1772 "input_assembly_file": { | |
1773 "id": 2, | |
1774 "output_name": "output" | |
1775 }, | |
1776 "input_variant_file": { | |
1777 "id": 43, | |
1778 "output_name": "output_file4" | |
1779 } | |
1780 }, | |
1781 "inputs": [], | |
1782 "name": "extractseq", | |
1783 "outputs": [ | |
1784 { | |
1785 "name": "output_file", | |
1786 "type": "fasta" | |
1787 } | |
1788 ], | |
1789 "position": { | |
1790 "left": 4737.25, | |
1791 "top": 1051.75 | |
1792 }, | |
1793 "post_job_actions": {}, | |
1794 "tool_errors": null, | |
1795 "tool_id": "extractseq", | |
1796 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1797 "tool_version": "1.01", | |
1798 "type": "tool", | |
1799 "user_outputs": [] | |
1800 }, | |
1801 "48": { | |
1802 "annotation": "", | |
1803 "id": 48, | |
1804 "input_connections": { | |
1805 "input_assembly_file": { | |
1806 "id": 2, | |
1807 "output_name": "output" | |
1808 }, | |
1809 "input_variant_file": { | |
1810 "id": 43, | |
1811 "output_name": "output_file5" | |
1812 } | |
1813 }, | |
1814 "inputs": [], | |
1815 "name": "extractseq", | |
1816 "outputs": [ | |
1817 { | |
1818 "name": "output_file", | |
1819 "type": "fasta" | |
1820 } | |
1821 ], | |
1822 "position": { | |
1823 "left": 4742.25, | |
1824 "top": 1228.75 | |
1825 }, | |
1826 "post_job_actions": {}, | |
1827 "tool_errors": null, | |
1828 "tool_id": "extractseq", | |
1829 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1830 "tool_version": "1.01", | |
1831 "type": "tool", | |
1832 "user_outputs": [] | |
1833 }, | |
1834 "49": { | |
1835 "annotation": "", | |
1836 "id": 49, | |
1837 "input_connections": { | |
1838 "input_assembly_file": { | |
1839 "id": 2, | |
1840 "output_name": "output" | |
1841 }, | |
1842 "input_variant_file": { | |
1843 "id": 43, | |
1844 "output_name": "output_file6" | |
1845 } | |
1846 }, | |
1847 "inputs": [], | |
1848 "name": "extractseq", | |
1849 "outputs": [ | |
1850 { | |
1851 "name": "output_file", | |
1852 "type": "fasta" | |
1853 } | |
1854 ], | |
1855 "position": { | |
1856 "left": 5066.25, | |
1857 "top": 474.75 | |
1858 }, | |
1859 "post_job_actions": {}, | |
1860 "tool_errors": null, | |
1861 "tool_id": "extractseq", | |
1862 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1863 "tool_version": "1.01", | |
1864 "type": "tool", | |
1865 "user_outputs": [] | |
1866 }, | |
1867 "50": { | |
1868 "annotation": "", | |
1869 "id": 50, | |
1870 "input_connections": { | |
1871 "input_assembly_file": { | |
1872 "id": 2, | |
1873 "output_name": "output" | |
1874 }, | |
1875 "input_variant_file": { | |
1876 "id": 43, | |
1877 "output_name": "output_file7" | |
1878 } | |
1879 }, | |
1880 "inputs": [], | |
1881 "name": "extractseq", | |
1882 "outputs": [ | |
1883 { | |
1884 "name": "output_file", | |
1885 "type": "fasta" | |
1886 } | |
1887 ], | |
1888 "position": { | |
1889 "left": 5069.25, | |
1890 "top": 656.75 | |
1891 }, | |
1892 "post_job_actions": {}, | |
1893 "tool_errors": null, | |
1894 "tool_id": "extractseq", | |
1895 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1896 "tool_version": "1.01", | |
1897 "type": "tool", | |
1898 "user_outputs": [] | |
1899 }, | |
1900 "51": { | |
1901 "annotation": "", | |
1902 "id": 51, | |
1903 "input_connections": { | |
1904 "input_assembly_file": { | |
1905 "id": 2, | |
1906 "output_name": "output" | |
1907 }, | |
1908 "input_variant_file": { | |
1909 "id": 43, | |
1910 "output_name": "output_file8" | |
1911 } | |
1912 }, | |
1913 "inputs": [], | |
1914 "name": "extractseq", | |
1915 "outputs": [ | |
1916 { | |
1917 "name": "output_file", | |
1918 "type": "fasta" | |
1919 } | |
1920 ], | |
1921 "position": { | |
1922 "left": 5073.25, | |
1923 "top": 858.75 | |
1924 }, | |
1925 "post_job_actions": {}, | |
1926 "tool_errors": null, | |
1927 "tool_id": "extractseq", | |
1928 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1929 "tool_version": "1.01", | |
1930 "type": "tool", | |
1931 "user_outputs": [] | |
1932 }, | |
1933 "52": { | |
1934 "annotation": "", | |
1935 "id": 52, | |
1936 "input_connections": { | |
1937 "input_assembly_file": { | |
1938 "id": 2, | |
1939 "output_name": "output" | |
1940 }, | |
1941 "input_variant_file": { | |
1942 "id": 43, | |
1943 "output_name": "output_file9" | |
1944 } | |
1945 }, | |
1946 "inputs": [], | |
1947 "name": "extractseq", | |
1948 "outputs": [ | |
1949 { | |
1950 "name": "output_file", | |
1951 "type": "fasta" | |
1952 } | |
1953 ], | |
1954 "position": { | |
1955 "left": 5071.25, | |
1956 "top": 1046.75 | |
1957 }, | |
1958 "post_job_actions": {}, | |
1959 "tool_errors": null, | |
1960 "tool_id": "extractseq", | |
1961 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1962 "tool_version": "1.01", | |
1963 "type": "tool", | |
1964 "user_outputs": [] | |
1965 }, | |
1966 "53": { | |
1967 "annotation": "", | |
1968 "id": 53, | |
1969 "input_connections": { | |
1970 "input_assembly_file": { | |
1971 "id": 2, | |
1972 "output_name": "output" | |
1973 }, | |
1974 "input_variant_file": { | |
1975 "id": 43, | |
1976 "output_name": "output_file10" | |
1977 } | |
1978 }, | |
1979 "inputs": [], | |
1980 "name": "extractseq", | |
1981 "outputs": [ | |
1982 { | |
1983 "name": "output_file", | |
1984 "type": "fasta" | |
1985 } | |
1986 ], | |
1987 "position": { | |
1988 "left": 5078.25, | |
1989 "top": 1229.75 | |
1990 }, | |
1991 "post_job_actions": {}, | |
1992 "tool_errors": null, | |
1993 "tool_id": "extractseq", | |
1994 "tool_state": "{\"__page__\": 0, \"input_variant_file\": \"null\", \"__rerun_remap_job_id__\": null, \"window_length\": \"\\\"50\\\"\", \"input_assembly_file\": \"null\"}", | |
1995 "tool_version": "1.01", | |
1996 "type": "tool", | |
1997 "user_outputs": [] | |
1998 }, | |
1999 "54": { | |
2000 "annotation": "", | |
2001 "id": 54, | |
2002 "input_connections": { | |
2003 "db_opts|histdb": { | |
2004 "id": 17, | |
2005 "output_name": "outfile" | |
2006 }, | |
2007 "query": { | |
2008 "id": 44, | |
2009 "output_name": "output_file" | |
2010 } | |
2011 }, | |
2012 "inputs": [], | |
2013 "name": "NCBI BLAST+ blastn", | |
2014 "outputs": [ | |
2015 { | |
2016 "name": "output1", | |
2017 "type": "tabular" | |
2018 } | |
2019 ], | |
2020 "position": { | |
2021 "left": 5398.75, | |
2022 "top": 475.75 | |
2023 }, | |
2024 "post_job_actions": {}, | |
2025 "tool_errors": null, | |
2026 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2027 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2028 "tool_version": "0.1.00", | |
2029 "type": "tool", | |
2030 "user_outputs": [] | |
2031 }, | |
2032 "55": { | |
2033 "annotation": "", | |
2034 "id": 55, | |
2035 "input_connections": { | |
2036 "db_opts|histdb": { | |
2037 "id": 17, | |
2038 "output_name": "outfile" | |
2039 }, | |
2040 "query": { | |
2041 "id": 45, | |
2042 "output_name": "output_file" | |
2043 } | |
2044 }, | |
2045 "inputs": [], | |
2046 "name": "NCBI BLAST+ blastn", | |
2047 "outputs": [ | |
2048 { | |
2049 "name": "output1", | |
2050 "type": "tabular" | |
2051 } | |
2052 ], | |
2053 "position": { | |
2054 "left": 5395.75, | |
2055 "top": 656.75 | |
2056 }, | |
2057 "post_job_actions": {}, | |
2058 "tool_errors": null, | |
2059 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2060 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2061 "tool_version": "0.1.00", | |
2062 "type": "tool", | |
2063 "user_outputs": [] | |
2064 }, | |
2065 "56": { | |
2066 "annotation": "", | |
2067 "id": 56, | |
2068 "input_connections": { | |
2069 "db_opts|histdb": { | |
2070 "id": 17, | |
2071 "output_name": "outfile" | |
2072 }, | |
2073 "query": { | |
2074 "id": 46, | |
2075 "output_name": "output_file" | |
2076 } | |
2077 }, | |
2078 "inputs": [], | |
2079 "name": "NCBI BLAST+ blastn", | |
2080 "outputs": [ | |
2081 { | |
2082 "name": "output1", | |
2083 "type": "tabular" | |
2084 } | |
2085 ], | |
2086 "position": { | |
2087 "left": 5391.75, | |
2088 "top": 860.75 | |
2089 }, | |
2090 "post_job_actions": {}, | |
2091 "tool_errors": null, | |
2092 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2093 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2094 "tool_version": "0.1.00", | |
2095 "type": "tool", | |
2096 "user_outputs": [] | |
2097 }, | |
2098 "57": { | |
2099 "annotation": "", | |
2100 "id": 57, | |
2101 "input_connections": { | |
2102 "db_opts|histdb": { | |
2103 "id": 17, | |
2104 "output_name": "outfile" | |
2105 }, | |
2106 "query": { | |
2107 "id": 47, | |
2108 "output_name": "output_file" | |
2109 } | |
2110 }, | |
2111 "inputs": [], | |
2112 "name": "NCBI BLAST+ blastn", | |
2113 "outputs": [ | |
2114 { | |
2115 "name": "output1", | |
2116 "type": "tabular" | |
2117 } | |
2118 ], | |
2119 "position": { | |
2120 "left": 5389.75, | |
2121 "top": 1051.75 | |
2122 }, | |
2123 "post_job_actions": {}, | |
2124 "tool_errors": null, | |
2125 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2126 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2127 "tool_version": "0.1.00", | |
2128 "type": "tool", | |
2129 "user_outputs": [] | |
2130 }, | |
2131 "58": { | |
2132 "annotation": "", | |
2133 "id": 58, | |
2134 "input_connections": { | |
2135 "db_opts|histdb": { | |
2136 "id": 17, | |
2137 "output_name": "outfile" | |
2138 }, | |
2139 "query": { | |
2140 "id": 48, | |
2141 "output_name": "output_file" | |
2142 } | |
2143 }, | |
2144 "inputs": [], | |
2145 "name": "NCBI BLAST+ blastn", | |
2146 "outputs": [ | |
2147 { | |
2148 "name": "output1", | |
2149 "type": "tabular" | |
2150 } | |
2151 ], | |
2152 "position": { | |
2153 "left": 5397.75, | |
2154 "top": 1237.75 | |
2155 }, | |
2156 "post_job_actions": {}, | |
2157 "tool_errors": null, | |
2158 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2159 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2160 "tool_version": "0.1.00", | |
2161 "type": "tool", | |
2162 "user_outputs": [] | |
2163 }, | |
2164 "59": { | |
2165 "annotation": "", | |
2166 "id": 59, | |
2167 "input_connections": { | |
2168 "db_opts|histdb": { | |
2169 "id": 17, | |
2170 "output_name": "outfile" | |
2171 }, | |
2172 "query": { | |
2173 "id": 48, | |
2174 "output_name": "output_file" | |
2175 } | |
2176 }, | |
2177 "inputs": [], | |
2178 "name": "NCBI BLAST+ blastn", | |
2179 "outputs": [ | |
2180 { | |
2181 "name": "output1", | |
2182 "type": "tabular" | |
2183 } | |
2184 ], | |
2185 "position": { | |
2186 "left": 5684.75, | |
2187 "top": 1231.75 | |
2188 }, | |
2189 "post_job_actions": {}, | |
2190 "tool_errors": null, | |
2191 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2192 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2193 "tool_version": "0.1.00", | |
2194 "type": "tool", | |
2195 "user_outputs": [] | |
2196 }, | |
2197 "60": { | |
2198 "annotation": "", | |
2199 "id": 60, | |
2200 "input_connections": { | |
2201 "db_opts|histdb": { | |
2202 "id": 17, | |
2203 "output_name": "outfile" | |
2204 }, | |
2205 "query": { | |
2206 "id": 49, | |
2207 "output_name": "output_file" | |
2208 } | |
2209 }, | |
2210 "inputs": [], | |
2211 "name": "NCBI BLAST+ blastn", | |
2212 "outputs": [ | |
2213 { | |
2214 "name": "output1", | |
2215 "type": "tabular" | |
2216 } | |
2217 ], | |
2218 "position": { | |
2219 "left": 5676.75, | |
2220 "top": 476.75 | |
2221 }, | |
2222 "post_job_actions": {}, | |
2223 "tool_errors": null, | |
2224 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2225 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2226 "tool_version": "0.1.00", | |
2227 "type": "tool", | |
2228 "user_outputs": [] | |
2229 }, | |
2230 "61": { | |
2231 "annotation": "", | |
2232 "id": 61, | |
2233 "input_connections": { | |
2234 "db_opts|histdb": { | |
2235 "id": 17, | |
2236 "output_name": "outfile" | |
2237 }, | |
2238 "query": { | |
2239 "id": 50, | |
2240 "output_name": "output_file" | |
2241 } | |
2242 }, | |
2243 "inputs": [], | |
2244 "name": "NCBI BLAST+ blastn", | |
2245 "outputs": [ | |
2246 { | |
2247 "name": "output1", | |
2248 "type": "tabular" | |
2249 } | |
2250 ], | |
2251 "position": { | |
2252 "left": 5681.75, | |
2253 "top": 657.75 | |
2254 }, | |
2255 "post_job_actions": {}, | |
2256 "tool_errors": null, | |
2257 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2258 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2259 "tool_version": "0.1.00", | |
2260 "type": "tool", | |
2261 "user_outputs": [] | |
2262 }, | |
2263 "62": { | |
2264 "annotation": "", | |
2265 "id": 62, | |
2266 "input_connections": { | |
2267 "db_opts|histdb": { | |
2268 "id": 17, | |
2269 "output_name": "outfile" | |
2270 }, | |
2271 "query": { | |
2272 "id": 51, | |
2273 "output_name": "output_file" | |
2274 } | |
2275 }, | |
2276 "inputs": [], | |
2277 "name": "NCBI BLAST+ blastn", | |
2278 "outputs": [ | |
2279 { | |
2280 "name": "output1", | |
2281 "type": "tabular" | |
2282 } | |
2283 ], | |
2284 "position": { | |
2285 "left": 5688.75, | |
2286 "top": 862.75 | |
2287 }, | |
2288 "post_job_actions": {}, | |
2289 "tool_errors": null, | |
2290 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2291 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2292 "tool_version": "0.1.00", | |
2293 "type": "tool", | |
2294 "user_outputs": [] | |
2295 }, | |
2296 "63": { | |
2297 "annotation": "", | |
2298 "id": 63, | |
2299 "input_connections": { | |
2300 "db_opts|histdb": { | |
2301 "id": 17, | |
2302 "output_name": "outfile" | |
2303 }, | |
2304 "query": { | |
2305 "id": 52, | |
2306 "output_name": "output_file" | |
2307 } | |
2308 }, | |
2309 "inputs": [], | |
2310 "name": "NCBI BLAST+ blastn", | |
2311 "outputs": [ | |
2312 { | |
2313 "name": "output1", | |
2314 "type": "tabular" | |
2315 } | |
2316 ], | |
2317 "position": { | |
2318 "left": 5688.75, | |
2319 "top": 1056.75 | |
2320 }, | |
2321 "post_job_actions": {}, | |
2322 "tool_errors": null, | |
2323 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.00", | |
2324 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"identity_cutoff\\\": \\\"0.0\\\", \\\"adv_opts_selector\\\": \\\"advanced\\\", \\\"ungapped\\\": \\\"False\\\", \\\"filter_query\\\": \\\"False\\\", \\\"word_size\\\": \\\"0\\\", \\\"__current_case__\\\": 1, \\\"parse_deflines\\\": \\\"False\\\", \\\"strand\\\": \\\"-strand both\\\", \\\"max_hits\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"megablast\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"qstart\\\", \\\"qend\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"qseq\\\", \\\"sseq\\\"]}\", \"query\": \"null\"}", | |
2325 "tool_version": "0.1.00", | |
2326 "type": "tool", | |
2327 "user_outputs": [] | |
2328 }, | |
2329 "64": { | |
2330 "annotation": "", | |
2331 "id": 64, | |
2332 "input_connections": { | |
2333 "input_blast_file": { | |
2334 "id": 54, | |
2335 "output_name": "output1" | |
2336 }, | |
2337 "input_variant_file": { | |
2338 "id": 43, | |
2339 "output_name": "output_file1" | |
2340 } | |
2341 }, | |
2342 "inputs": [], | |
2343 "name": "ParseBlastForUniqueMatch", | |
2344 "outputs": [ | |
2345 { | |
2346 "name": "output_variant_file", | |
2347 "type": "pileup" | |
2348 }, | |
2349 { | |
2350 "name": "log_file", | |
2351 "type": "txt" | |
2352 } | |
2353 ], | |
2354 "position": { | |
2355 "left": 6013.25, | |
2356 "top": 432.75 | |
2357 }, | |
2358 "post_job_actions": {}, | |
2359 "tool_errors": null, | |
2360 "tool_id": "ParseBlastForUniqueMatch", | |
2361 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2362 "tool_version": "1.01", | |
2363 "type": "tool", | |
2364 "user_outputs": [] | |
2365 }, | |
2366 "65": { | |
2367 "annotation": "", | |
2368 "id": 65, | |
2369 "input_connections": { | |
2370 "input_blast_file": { | |
2371 "id": 55, | |
2372 "output_name": "output1" | |
2373 }, | |
2374 "input_variant_file": { | |
2375 "id": 43, | |
2376 "output_name": "output_file2" | |
2377 } | |
2378 }, | |
2379 "inputs": [], | |
2380 "name": "ParseBlastForUniqueMatch", | |
2381 "outputs": [ | |
2382 { | |
2383 "name": "output_variant_file", | |
2384 "type": "pileup" | |
2385 }, | |
2386 { | |
2387 "name": "log_file", | |
2388 "type": "txt" | |
2389 } | |
2390 ], | |
2391 "position": { | |
2392 "left": 6010.25, | |
2393 "top": 656.75 | |
2394 }, | |
2395 "post_job_actions": {}, | |
2396 "tool_errors": null, | |
2397 "tool_id": "ParseBlastForUniqueMatch", | |
2398 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2399 "tool_version": "1.01", | |
2400 "type": "tool", | |
2401 "user_outputs": [] | |
2402 }, | |
2403 "66": { | |
2404 "annotation": "", | |
2405 "id": 66, | |
2406 "input_connections": { | |
2407 "input_blast_file": { | |
2408 "id": 56, | |
2409 "output_name": "output1" | |
2410 }, | |
2411 "input_variant_file": { | |
2412 "id": 43, | |
2413 "output_name": "output_file3" | |
2414 } | |
2415 }, | |
2416 "inputs": [], | |
2417 "name": "ParseBlastForUniqueMatch", | |
2418 "outputs": [ | |
2419 { | |
2420 "name": "output_variant_file", | |
2421 "type": "pileup" | |
2422 }, | |
2423 { | |
2424 "name": "log_file", | |
2425 "type": "txt" | |
2426 } | |
2427 ], | |
2428 "position": { | |
2429 "left": 6014.25, | |
2430 "top": 891.75 | |
2431 }, | |
2432 "post_job_actions": {}, | |
2433 "tool_errors": null, | |
2434 "tool_id": "ParseBlastForUniqueMatch", | |
2435 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2436 "tool_version": "1.01", | |
2437 "type": "tool", | |
2438 "user_outputs": [] | |
2439 }, | |
2440 "67": { | |
2441 "annotation": "", | |
2442 "id": 67, | |
2443 "input_connections": { | |
2444 "input_blast_file": { | |
2445 "id": 57, | |
2446 "output_name": "output1" | |
2447 }, | |
2448 "input_variant_file": { | |
2449 "id": 43, | |
2450 "output_name": "output_file4" | |
2451 } | |
2452 }, | |
2453 "inputs": [], | |
2454 "name": "ParseBlastForUniqueMatch", | |
2455 "outputs": [ | |
2456 { | |
2457 "name": "output_variant_file", | |
2458 "type": "pileup" | |
2459 }, | |
2460 { | |
2461 "name": "log_file", | |
2462 "type": "txt" | |
2463 } | |
2464 ], | |
2465 "position": { | |
2466 "left": 6014.25, | |
2467 "top": 1120.75 | |
2468 }, | |
2469 "post_job_actions": {}, | |
2470 "tool_errors": null, | |
2471 "tool_id": "ParseBlastForUniqueMatch", | |
2472 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2473 "tool_version": "1.01", | |
2474 "type": "tool", | |
2475 "user_outputs": [] | |
2476 }, | |
2477 "68": { | |
2478 "annotation": "", | |
2479 "id": 68, | |
2480 "input_connections": { | |
2481 "input_blast_file": { | |
2482 "id": 58, | |
2483 "output_name": "output1" | |
2484 }, | |
2485 "input_variant_file": { | |
2486 "id": 43, | |
2487 "output_name": "output_file5" | |
2488 } | |
2489 }, | |
2490 "inputs": [], | |
2491 "name": "ParseBlastForUniqueMatch", | |
2492 "outputs": [ | |
2493 { | |
2494 "name": "output_variant_file", | |
2495 "type": "pileup" | |
2496 }, | |
2497 { | |
2498 "name": "log_file", | |
2499 "type": "txt" | |
2500 } | |
2501 ], | |
2502 "position": { | |
2503 "left": 6013.25, | |
2504 "top": 1352.75 | |
2505 }, | |
2506 "post_job_actions": {}, | |
2507 "tool_errors": null, | |
2508 "tool_id": "ParseBlastForUniqueMatch", | |
2509 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2510 "tool_version": "1.01", | |
2511 "type": "tool", | |
2512 "user_outputs": [] | |
2513 }, | |
2514 "69": { | |
2515 "annotation": "", | |
2516 "id": 69, | |
2517 "input_connections": { | |
2518 "input_blast_file": { | |
2519 "id": 59, | |
2520 "output_name": "output1" | |
2521 }, | |
2522 "input_variant_file": { | |
2523 "id": 43, | |
2524 "output_name": "output_file10" | |
2525 } | |
2526 }, | |
2527 "inputs": [], | |
2528 "name": "ParseBlastForUniqueMatch", | |
2529 "outputs": [ | |
2530 { | |
2531 "name": "output_variant_file", | |
2532 "type": "pileup" | |
2533 }, | |
2534 { | |
2535 "name": "log_file", | |
2536 "type": "txt" | |
2537 } | |
2538 ], | |
2539 "position": { | |
2540 "left": 6313.25, | |
2541 "top": 1356.75 | |
2542 }, | |
2543 "post_job_actions": {}, | |
2544 "tool_errors": null, | |
2545 "tool_id": "ParseBlastForUniqueMatch", | |
2546 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2547 "tool_version": "1.01", | |
2548 "type": "tool", | |
2549 "user_outputs": [] | |
2550 }, | |
2551 "70": { | |
2552 "annotation": "", | |
2553 "id": 70, | |
2554 "input_connections": { | |
2555 "input_blast_file": { | |
2556 "id": 60, | |
2557 "output_name": "output1" | |
2558 }, | |
2559 "input_variant_file": { | |
2560 "id": 43, | |
2561 "output_name": "output_file6" | |
2562 } | |
2563 }, | |
2564 "inputs": [], | |
2565 "name": "ParseBlastForUniqueMatch", | |
2566 "outputs": [ | |
2567 { | |
2568 "name": "output_variant_file", | |
2569 "type": "pileup" | |
2570 }, | |
2571 { | |
2572 "name": "log_file", | |
2573 "type": "txt" | |
2574 } | |
2575 ], | |
2576 "position": { | |
2577 "left": 6300.25, | |
2578 "top": 428.75 | |
2579 }, | |
2580 "post_job_actions": {}, | |
2581 "tool_errors": null, | |
2582 "tool_id": "ParseBlastForUniqueMatch", | |
2583 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2584 "tool_version": "1.01", | |
2585 "type": "tool", | |
2586 "user_outputs": [] | |
2587 }, | |
2588 "71": { | |
2589 "annotation": "", | |
2590 "id": 71, | |
2591 "input_connections": { | |
2592 "input_blast_file": { | |
2593 "id": 61, | |
2594 "output_name": "output1" | |
2595 }, | |
2596 "input_variant_file": { | |
2597 "id": 43, | |
2598 "output_name": "output_file7" | |
2599 } | |
2600 }, | |
2601 "inputs": [], | |
2602 "name": "ParseBlastForUniqueMatch", | |
2603 "outputs": [ | |
2604 { | |
2605 "name": "output_variant_file", | |
2606 "type": "pileup" | |
2607 }, | |
2608 { | |
2609 "name": "log_file", | |
2610 "type": "txt" | |
2611 } | |
2612 ], | |
2613 "position": { | |
2614 "left": 6302.25, | |
2615 "top": 657.75 | |
2616 }, | |
2617 "post_job_actions": {}, | |
2618 "tool_errors": null, | |
2619 "tool_id": "ParseBlastForUniqueMatch", | |
2620 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2621 "tool_version": "1.01", | |
2622 "type": "tool", | |
2623 "user_outputs": [] | |
2624 }, | |
2625 "72": { | |
2626 "annotation": "", | |
2627 "id": 72, | |
2628 "input_connections": { | |
2629 "input_blast_file": { | |
2630 "id": 62, | |
2631 "output_name": "output1" | |
2632 }, | |
2633 "input_variant_file": { | |
2634 "id": 43, | |
2635 "output_name": "output_file8" | |
2636 } | |
2637 }, | |
2638 "inputs": [], | |
2639 "name": "ParseBlastForUniqueMatch", | |
2640 "outputs": [ | |
2641 { | |
2642 "name": "output_variant_file", | |
2643 "type": "pileup" | |
2644 }, | |
2645 { | |
2646 "name": "log_file", | |
2647 "type": "txt" | |
2648 } | |
2649 ], | |
2650 "position": { | |
2651 "left": 6304.25, | |
2652 "top": 893.75 | |
2653 }, | |
2654 "post_job_actions": {}, | |
2655 "tool_errors": null, | |
2656 "tool_id": "ParseBlastForUniqueMatch", | |
2657 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2658 "tool_version": "1.01", | |
2659 "type": "tool", | |
2660 "user_outputs": [] | |
2661 }, | |
2662 "73": { | |
2663 "annotation": "", | |
2664 "id": 73, | |
2665 "input_connections": { | |
2666 "input_blast_file": { | |
2667 "id": 63, | |
2668 "output_name": "output1" | |
2669 }, | |
2670 "input_variant_file": { | |
2671 "id": 43, | |
2672 "output_name": "output_file9" | |
2673 } | |
2674 }, | |
2675 "inputs": [], | |
2676 "name": "ParseBlastForUniqueMatch", | |
2677 "outputs": [ | |
2678 { | |
2679 "name": "output_variant_file", | |
2680 "type": "pileup" | |
2681 }, | |
2682 { | |
2683 "name": "log_file", | |
2684 "type": "txt" | |
2685 } | |
2686 ], | |
2687 "position": { | |
2688 "left": 6306.25, | |
2689 "top": 1124.75 | |
2690 }, | |
2691 "post_job_actions": {}, | |
2692 "tool_errors": null, | |
2693 "tool_id": "ParseBlastForUniqueMatch", | |
2694 "tool_state": "{\"input_variant_file\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_blast_file\": \"null\", \"window_length\": \"\\\"50\\\"\", \"nb_mismatch_max\": \"\\\"3\\\"\"}", | |
2695 "tool_version": "1.01", | |
2696 "type": "tool", | |
2697 "user_outputs": [] | |
2698 }, | |
2699 "74": { | |
2700 "annotation": "", | |
2701 "id": 74, | |
2702 "input_connections": { | |
2703 "input_files": [ | |
2704 { | |
2705 "id": 64, | |
2706 "output_name": "output_variant_file" | |
2707 }, | |
2708 { | |
2709 "id": 65, | |
2710 "output_name": "output_variant_file" | |
2711 }, | |
2712 { | |
2713 "id": 66, | |
2714 "output_name": "output_variant_file" | |
2715 }, | |
2716 { | |
2717 "id": 67, | |
2718 "output_name": "output_variant_file" | |
2719 }, | |
2720 { | |
2721 "id": 68, | |
2722 "output_name": "output_variant_file" | |
2723 }, | |
2724 { | |
2725 "id": 70, | |
2726 "output_name": "output_variant_file" | |
2727 }, | |
2728 { | |
2729 "id": 71, | |
2730 "output_name": "output_variant_file" | |
2731 }, | |
2732 { | |
2733 "id": 72, | |
2734 "output_name": "output_variant_file" | |
2735 }, | |
2736 { | |
2737 "id": 73, | |
2738 "output_name": "output_variant_file" | |
2739 }, | |
2740 { | |
2741 "id": 69, | |
2742 "output_name": "output_variant_file" | |
2743 } | |
2744 ] | |
2745 }, | |
2746 "inputs": [], | |
2747 "name": "MergeMultiFile", | |
2748 "outputs": [ | |
2749 { | |
2750 "name": "output_file", | |
2751 "type": "txt" | |
2752 } | |
2753 ], | |
2754 "position": { | |
2755 "left": 6737.25, | |
2756 "top": 872.75 | |
2757 }, | |
2758 "post_job_actions": {}, | |
2759 "tool_errors": null, | |
2760 "tool_id": "MergeMultiFile", | |
2761 "tool_state": "{\"out_format\": \"\\\"pileup\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_files\": \"null\"}", | |
2762 "tool_version": "1.00", | |
2763 "type": "tool", | |
2764 "user_outputs": [] | |
2765 }, | |
2766 "75": { | |
2767 "annotation": "", | |
2768 "id": 75, | |
2769 "input_connections": { | |
2770 "input_file": { | |
2771 "id": 74, | |
2772 "output_name": "output_file" | |
2773 } | |
2774 }, | |
2775 "inputs": [], | |
2776 "name": "mpileupfilterandstat", | |
2777 "outputs": [ | |
2778 { | |
2779 "name": "output_file", | |
2780 "type": "pileup" | |
2781 }, | |
2782 { | |
2783 "name": "log_file", | |
2784 "type": "txt" | |
2785 } | |
2786 ], | |
2787 "position": { | |
2788 "left": 7105.75, | |
2789 "top": 903.75 | |
2790 }, | |
2791 "post_job_actions": {}, | |
2792 "tool_errors": null, | |
2793 "tool_id": "mpileupfilterandstat", | |
2794 "tool_state": "{\"__page__\": 0, \"stat\": \"{\\\"stat_dist_step\\\": \\\"50\\\", \\\"stat_min_depth_step\\\": \\\"4\\\", \\\"stat_max_depth_max\\\": \\\"200\\\", \\\"stat_min_depth_max\\\": \\\"20\\\", \\\"stat_freq_max\\\": \\\"1.0\\\", \\\"stat_min_depth_min\\\": \\\"4\\\", \\\"stat_max_depth_min\\\": \\\"200\\\", \\\"do_stat\\\": \\\"YES\\\", \\\"stat_dist_min\\\": \\\"0\\\", \\\"__current_case__\\\": 0, \\\"stat_max_depth_step\\\": \\\"100\\\", \\\"stat_dist_max\\\": \\\"50\\\", \\\"stat_freq_step\\\": \\\"0.2\\\", \\\"stat_freq_min\\\": \\\"0.8\\\"}\", \"input_file\": \"null\", \"min_frequency\": \"\\\"0.0\\\"\", \"min_depth\": \"\\\"1\\\"\", \"__rerun_remap_job_id__\": null, \"min_forward_and_reverse\": \"\\\"0\\\"\", \"max_depth\": \"\\\"500\\\"\", \"min_distance\": \"\\\"0\\\"\"}", | |
2795 "tool_version": "1.00", | |
2796 "type": "tool", | |
2797 "user_outputs": [] | |
2798 }, | |
2799 "76": { | |
2800 "annotation": "", | |
2801 "id": 76, | |
2802 "input_connections": { | |
2803 "input_files": [ | |
2804 { | |
2805 "id": 7, | |
2806 "output_name": "log_file" | |
2807 }, | |
2808 { | |
2809 "id": 8, | |
2810 "output_name": "log_file" | |
2811 }, | |
2812 { | |
2813 "id": 9, | |
2814 "output_name": "log_file" | |
2815 }, | |
2816 { | |
2817 "id": 12, | |
2818 "output_name": "log_file" | |
2819 }, | |
2820 { | |
2821 "id": 14, | |
2822 "output_name": "log_file" | |
2823 }, | |
2824 { | |
2825 "id": 10, | |
2826 "output_name": "log_file" | |
2827 }, | |
2828 { | |
2829 "id": 11, | |
2830 "output_name": "log_file" | |
2831 }, | |
2832 { | |
2833 "id": 13, | |
2834 "output_name": "log_file" | |
2835 }, | |
2836 { | |
2837 "id": 15, | |
2838 "output_name": "log_file" | |
2839 }, | |
2840 { | |
2841 "id": 16, | |
2842 "output_name": "log_file" | |
2843 }, | |
2844 { | |
2845 "id": 28, | |
2846 "output_name": "log_file" | |
2847 }, | |
2848 { | |
2849 "id": 29, | |
2850 "output_name": "log_file" | |
2851 }, | |
2852 { | |
2853 "id": 30, | |
2854 "output_name": "log_file" | |
2855 }, | |
2856 { | |
2857 "id": 33, | |
2858 "output_name": "log_file" | |
2859 }, | |
2860 { | |
2861 "id": 35, | |
2862 "output_name": "log_file" | |
2863 }, | |
2864 { | |
2865 "id": 31, | |
2866 "output_name": "log_file" | |
2867 }, | |
2868 { | |
2869 "id": 32, | |
2870 "output_name": "log_file" | |
2871 }, | |
2872 { | |
2873 "id": 34, | |
2874 "output_name": "log_file" | |
2875 }, | |
2876 { | |
2877 "id": 36, | |
2878 "output_name": "log_file" | |
2879 }, | |
2880 { | |
2881 "id": 37, | |
2882 "output_name": "log_file" | |
2883 }, | |
2884 { | |
2885 "id": 41, | |
2886 "output_name": "log_file" | |
2887 }, | |
2888 { | |
2889 "id": 42, | |
2890 "output_name": "log_file" | |
2891 }, | |
2892 { | |
2893 "id": 64, | |
2894 "output_name": "log_file" | |
2895 }, | |
2896 { | |
2897 "id": 65, | |
2898 "output_name": "log_file" | |
2899 }, | |
2900 { | |
2901 "id": 66, | |
2902 "output_name": "log_file" | |
2903 }, | |
2904 { | |
2905 "id": 67, | |
2906 "output_name": "log_file" | |
2907 }, | |
2908 { | |
2909 "id": 68, | |
2910 "output_name": "log_file" | |
2911 }, | |
2912 { | |
2913 "id": 70, | |
2914 "output_name": "log_file" | |
2915 }, | |
2916 { | |
2917 "id": 71, | |
2918 "output_name": "log_file" | |
2919 }, | |
2920 { | |
2921 "id": 72, | |
2922 "output_name": "log_file" | |
2923 }, | |
2924 { | |
2925 "id": 73, | |
2926 "output_name": "log_file" | |
2927 }, | |
2928 { | |
2929 "id": 69, | |
2930 "output_name": "log_file" | |
2931 }, | |
2932 { | |
2933 "id": 75, | |
2934 "output_name": "log_file" | |
2935 } | |
2936 ] | |
2937 }, | |
2938 "inputs": [], | |
2939 "name": "MergeMultiFile", | |
2940 "outputs": [ | |
2941 { | |
2942 "name": "output_file", | |
2943 "type": "txt" | |
2944 } | |
2945 ], | |
2946 "position": { | |
2947 "left": 7458.25, | |
2948 "top": 1140.75 | |
2949 }, | |
2950 "post_job_actions": { | |
2951 "RenameDatasetActionoutput_file": { | |
2952 "action_arguments": { | |
2953 "newname": "LOGS" | |
2954 }, | |
2955 "action_type": "RenameDatasetAction", | |
2956 "output_name": "output_file" | |
2957 } | |
2958 }, | |
2959 "tool_errors": null, | |
2960 "tool_id": "MergeMultiFile", | |
2961 "tool_state": "{\"out_format\": \"\\\"txt\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input_files\": \"null\"}", | |
2962 "tool_version": "1.00", | |
2963 "type": "tool", | |
2964 "user_outputs": [] | |
2965 } | |
2966 } | |
2967 } |