Mercurial > repos > drosofff > metavisitor_workflows
comparison Galaxy-Workflow-Metavisitor__Workflow_for_Use_Case_3-3.ga @ 3:ba15c770fd40 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit 9e3f79e20670526453bbed9f5b028aabb1bb7ae4
author | drosofff |
---|---|
date | Thu, 17 Nov 2016 07:27:04 -0500 |
parents | 48b020a0d2f7 |
children |
comparison
equal
deleted
inserted
replaced
2:48b020a0d2f7 | 3:ba15c770fd40 |
---|---|
226 "uuid": "d8ac3b32-882b-4761-affd-b3f71ddb3fcb", | 226 "uuid": "d8ac3b32-882b-4761-affd-b3f71ddb3fcb", |
227 "workflow_outputs": [] | 227 "workflow_outputs": [] |
228 }, | 228 }, |
229 "4": { | 229 "4": { |
230 "annotation": "", | 230 "annotation": "", |
231 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.1.07", | 231 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.1.08", |
232 "id": 4, | 232 "id": 4, |
233 "input_connections": { | 233 "input_connections": { |
234 "input_file": { | 234 "input_file": { |
235 "id": 2, | 235 "id": 2, |
236 "output_name": "outfilename" | 236 "output_name": "outfilename" |
249 "left": 1500.96875, | 249 "left": 1500.96875, |
250 "top": 1043.96875 | 250 "top": 1043.96875 |
251 }, | 251 }, |
252 "post_job_actions": {}, | 252 "post_job_actions": {}, |
253 "tool_errors": null, | 253 "tool_errors": null, |
254 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.1.07", | 254 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_makeblastdb/0.1.08", |
255 "tool_shed_repository": { | 255 "tool_shed_repository": { |
256 "changeset_revision": "7f3c448e119b", | 256 "changeset_revision": "3034ce97dd33", |
257 "name": "ncbi_blast_plus", | 257 "name": "ncbi_blast_plus", |
258 "owner": "devteam", | 258 "owner": "devteam", |
259 "tool_shed": "toolshed.g2.bx.psu.edu" | 259 "tool_shed": "toolshed.g2.bx.psu.edu" |
260 }, | 260 }, |
261 "tool_state": "{\"__page__\": 0, \"mask_data_file\": \"null\", \"title\": \"\\\"reference virus blast nucleotide database\\\"\", \"dbtype\": \"\\\"nucl\\\"\", \"__rerun_remap_job_id__\": null, \"hash_index\": \"\\\"true\\\"\", \"tax\": \"{\\\"__current_case__\\\": 0, \\\"taxselect\\\": \\\"\\\"}\", \"input_file\": \"null\", \"parse_seqids\": \"\\\"false\\\"\"}", | 261 "tool_state": "{\"__page__\": 0, \"mask_data_file\": \"null\", \"title\": \"\\\"reference virus blast nucleotide database\\\"\", \"dbtype\": \"\\\"nucl\\\"\", \"__rerun_remap_job_id__\": null, \"hash_index\": \"\\\"true\\\"\", \"tax\": \"{\\\"__current_case__\\\": 0, \\\"taxselect\\\": \\\"\\\"}\", \"input_file\": \"null\", \"parse_seqids\": \"\\\"false\\\"\"}", |
262 "tool_version": "0.1.07", | 262 "tool_version": "0.1.08", |
263 "type": "tool", | 263 "type": "tool", |
264 "uuid": "6271cf86-2fa0-4f3c-8870-d1f315fb46b8", | 264 "uuid": "6271cf86-2fa0-4f3c-8870-d1f315fb46b8", |
265 "workflow_outputs": [ | 265 "workflow_outputs": [ |
266 { | 266 { |
267 "label": null, | 267 "label": null, |
315 "changeset_revision": "0a576a57a9eb", | 315 "changeset_revision": "0a576a57a9eb", |
316 "name": "trinityrnaseq", | 316 "name": "trinityrnaseq", |
317 "owner": "anmoljh", | 317 "owner": "anmoljh", |
318 "tool_shed": "toolshed.g2.bx.psu.edu" | 318 "tool_shed": "toolshed.g2.bx.psu.edu" |
319 }, | 319 }, |
320 "tool_state": "{\"__page__\": 0, \"JM\": \"\\\"1G\\\"\", \"__rerun_remap_job_id__\": null, \"additional_params\": \"{\\\"use_additional\\\": \\\"no\\\", \\\"__current_case__\\\": 0}\", \"inputs\": \"{\\\"paired_or_single\\\": \\\"single\\\", \\\"input\\\": null, \\\"path_reinforcement_distance\\\": \\\"40\\\", \\\"__current_case__\\\": 1, \\\"library_type\\\": \\\"None\\\"}\"}", | 320 "tool_state": "{\"__page__\": 0, \"JM\": \"\\\"1G\\\"\", \"__rerun_remap_job_id__\": null, \"additional_params\": \"{\\\"use_additional\\\": \\\"no\\\", \\\"__current_case__\\\": 0}\", \"inputs\": \"{\\\"paired_or_single\\\": \\\"single\\\", \\\"input\\\": null, \\\"path_reinforcement_distance\\\": \\\"40\\\", \\\"__current_case__\\\": 1, \\\"library_type\\\": \\\"None\\\"}\", \"CPU\": \"\\\"2\\\"\"}", |
321 "tool_version": "r20140717", | 321 "tool_version": "r20140717", |
322 "type": "tool", | 322 "type": "tool", |
323 "uuid": "400add87-e5bc-470a-bc3c-6d7bbff41b78", | 323 "uuid": "400add87-e5bc-470a-bc3c-6d7bbff41b78", |
324 "workflow_outputs": [] | 324 "workflow_outputs": [] |
325 }, | 325 }, |
367 "uuid": "6d243d3c-511c-465a-93ee-f8df9657d4d7", | 367 "uuid": "6d243d3c-511c-465a-93ee-f8df9657d4d7", |
368 "workflow_outputs": [] | 368 "workflow_outputs": [] |
369 }, | 369 }, |
370 "7": { | 370 "7": { |
371 "annotation": "", | 371 "annotation": "", |
372 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.07", | 372 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.08", |
373 "id": 7, | 373 "id": 7, |
374 "input_connections": { | 374 "input_connections": { |
375 "db_opts|histdb": { | 375 "db_opts|histdb": { |
376 "id": 1, | 376 "id": 1, |
377 "output_name": "output" | 377 "output_name": "output" |
402 "action_type": "RenameDatasetAction", | 402 "action_type": "RenameDatasetAction", |
403 "output_name": "output1" | 403 "output_name": "output1" |
404 } | 404 } |
405 }, | 405 }, |
406 "tool_errors": null, | 406 "tool_errors": null, |
407 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.07", | 407 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.08", |
408 "tool_shed_repository": { | 408 "tool_shed_repository": { |
409 "changeset_revision": "7f3c448e119b", | 409 "changeset_revision": "3034ce97dd33", |
410 "name": "ncbi_blast_plus", | 410 "name": "ncbi_blast_plus", |
411 "owner": "devteam", | 411 "owner": "devteam", |
412 "tool_shed": "toolshed.g2.bx.psu.edu" | 412 "tool_shed": "toolshed.g2.bx.psu.edu" |
413 }, | 413 }, |
414 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"blastn\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"sseqid\\\", \\\"pident\\\", \\\"length\\\", \\\"mismatch\\\", \\\"gapopen\\\", \\\"qstart\\\", \\\"qend\\\", \\\"sstart\\\", \\\"send\\\", \\\"evalue\\\", \\\"bitscore\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"slen\\\"]}\", \"query\": \"null\"}", | 414 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"blastn\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"sseqid\\\", \\\"pident\\\", \\\"length\\\", \\\"mismatch\\\", \\\"gapopen\\\", \\\"qstart\\\", \\\"qend\\\", \\\"sstart\\\", \\\"send\\\", \\\"evalue\\\", \\\"bitscore\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"slen\\\"]}\", \"query\": \"null\"}", |
415 "tool_version": "0.1.07", | 415 "tool_version": "0.1.08", |
416 "type": "tool", | 416 "type": "tool", |
417 "uuid": "0e8b01bc-d919-4bc4-ba28-c2fde37de6b6", | 417 "uuid": "0e8b01bc-d919-4bc4-ba28-c2fde37de6b6", |
418 "workflow_outputs": [ | 418 "workflow_outputs": [ |
419 { | 419 { |
420 "label": null, | 420 "label": null, |
556 } | 556 } |
557 ] | 557 ] |
558 }, | 558 }, |
559 "10": { | 559 "10": { |
560 "annotation": "", | 560 "annotation": "", |
561 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.07", | 561 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.08", |
562 "id": 10, | 562 "id": 10, |
563 "input_connections": { | 563 "input_connections": { |
564 "db_opts|histdb": { | 564 "db_opts|histdb": { |
565 "id": 4, | 565 "id": 4, |
566 "output_name": "outfile" | 566 "output_name": "outfile" |
589 "action_type": "HideDatasetAction", | 589 "action_type": "HideDatasetAction", |
590 "output_name": "output1" | 590 "output_name": "output1" |
591 } | 591 } |
592 }, | 592 }, |
593 "tool_errors": null, | 593 "tool_errors": null, |
594 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.07", | 594 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/0.1.08", |
595 "tool_shed_repository": { | 595 "tool_shed_repository": { |
596 "changeset_revision": "7f3c448e119b", | 596 "changeset_revision": "3034ce97dd33", |
597 "name": "ncbi_blast_plus", | 597 "name": "ncbi_blast_plus", |
598 "owner": "devteam", | 598 "owner": "devteam", |
599 "tool_shed": "toolshed.g2.bx.psu.edu" | 599 "tool_shed": "toolshed.g2.bx.psu.edu" |
600 }, | 600 }, |
601 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"blastn\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"sseqid\\\", \\\"pident\\\", \\\"length\\\", \\\"mismatch\\\", \\\"gapopen\\\", \\\"qstart\\\", \\\"qend\\\", \\\"sstart\\\", \\\"send\\\", \\\"evalue\\\", \\\"bitscore\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"slen\\\"]}\", \"query\": \"null\"}", | 601 "tool_state": "{\"evalue_cutoff\": \"\\\"0.001\\\"\", \"__page__\": 0, \"adv_opts\": \"{\\\"adv_opts_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}\", \"__rerun_remap_job_id__\": null, \"blast_type\": \"\\\"blastn\\\"\", \"db_opts\": \"{\\\"db_opts_selector\\\": \\\"histdb\\\", \\\"subject\\\": \\\"\\\", \\\"histdb\\\": null, \\\"__current_case__\\\": 1, \\\"database\\\": \\\"\\\"}\", \"output\": \"{\\\"out_format\\\": \\\"cols\\\", \\\"std_cols\\\": [\\\"qseqid\\\", \\\"sseqid\\\", \\\"pident\\\", \\\"length\\\", \\\"mismatch\\\", \\\"gapopen\\\", \\\"qstart\\\", \\\"qend\\\", \\\"sstart\\\", \\\"send\\\", \\\"evalue\\\", \\\"bitscore\\\"], \\\"ids_cols\\\": null, \\\"tax_cols\\\": null, \\\"__current_case__\\\": 2, \\\"misc_cols\\\": null, \\\"ext_cols\\\": [\\\"slen\\\"]}\", \"query\": \"null\"}", |
602 "tool_version": "0.1.07", | 602 "tool_version": "0.1.08", |
603 "type": "tool", | 603 "type": "tool", |
604 "uuid": "6aad301d-b295-43af-ae9b-a1ec6f41da49", | 604 "uuid": "6aad301d-b295-43af-ae9b-a1ec6f41da49", |
605 "workflow_outputs": [] | 605 "workflow_outputs": [] |
606 }, | 606 }, |
607 "11": { | 607 "11": { |