Mercurial > repos > galaxyp > abrf2017_workshop
comparison Galaxy-Workflow-ABRF_2017_Taxonomy_Comparison_Workflow.ga @ 0:eb71034189fb draft
planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/abrf2017_workshop commit bfcee2067ac57cc7136bb6a4281b1748a36776d5
author | galaxyp |
---|---|
date | Thu, 02 Mar 2017 15:42:24 -0500 |
parents | |
children |
comparison
equal
deleted
inserted
replaced
-1:000000000000 | 0:eb71034189fb |
---|---|
1 { | |
2 "a_galaxy_workflow": "true", | |
3 "annotation": "", | |
4 "format-version": "0.1", | |
5 "name": "ABRF 2017:Taxonomy Comparison Workflow", | |
6 "steps": { | |
7 "0": { | |
8 "annotation": "", | |
9 "content_id": null, | |
10 "id": 0, | |
11 "input_connections": {}, | |
12 "inputs": [ | |
13 { | |
14 "description": "", | |
15 "name": "PSM Report (Bering Strait)" | |
16 } | |
17 ], | |
18 "label": null, | |
19 "name": "Input dataset", | |
20 "outputs": [], | |
21 "position": { | |
22 "left": 296, | |
23 "top": 186 | |
24 }, | |
25 "tool_errors": null, | |
26 "tool_id": null, | |
27 "tool_state": "{\"name\": \"PSM Report (Bering Strait)\"}", | |
28 "tool_version": null, | |
29 "type": "data_input", | |
30 "uuid": "c404eaed-7c90-4b48-82c4-9083bdb6db29", | |
31 "workflow_outputs": [ | |
32 { | |
33 "label": null, | |
34 "output_name": "output", | |
35 "uuid": "0bfee776-11e1-4553-a7ee-25fd0c628891" | |
36 } | |
37 ] | |
38 }, | |
39 "1": { | |
40 "annotation": "", | |
41 "content_id": null, | |
42 "id": 1, | |
43 "input_connections": {}, | |
44 "inputs": [ | |
45 { | |
46 "description": "", | |
47 "name": "PSM Report (Chukchi Sea)" | |
48 } | |
49 ], | |
50 "label": null, | |
51 "name": "Input dataset", | |
52 "outputs": [], | |
53 "position": { | |
54 "left": 352, | |
55 "top": 596.5 | |
56 }, | |
57 "tool_errors": null, | |
58 "tool_id": null, | |
59 "tool_state": "{\"name\": \"PSM Report (Chukchi Sea)\"}", | |
60 "tool_version": null, | |
61 "type": "data_input", | |
62 "uuid": "c6e42b4c-4116-48eb-92a2-bebdbceaba1d", | |
63 "workflow_outputs": [ | |
64 { | |
65 "label": null, | |
66 "output_name": "output", | |
67 "uuid": "0d4f355a-1f05-49a9-a5a3-2f58fc25ca32" | |
68 } | |
69 ] | |
70 }, | |
71 "2": { | |
72 "annotation": "", | |
73 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
74 "id": 2, | |
75 "input_connections": { | |
76 "tables_0|table": { | |
77 "id": 0, | |
78 "output_name": "output" | |
79 } | |
80 }, | |
81 "inputs": [ | |
82 { | |
83 "description": "runtime parameter for tool Query Tabular", | |
84 "name": "add_to_database" | |
85 } | |
86 ], | |
87 "label": null, | |
88 "name": "Query Tabular", | |
89 "outputs": [ | |
90 { | |
91 "name": "sqlitedb", | |
92 "type": "sqlite" | |
93 }, | |
94 { | |
95 "name": "output", | |
96 "type": "tabular" | |
97 } | |
98 ], | |
99 "position": { | |
100 "left": 453, | |
101 "top": 335 | |
102 }, | |
103 "post_job_actions": { | |
104 "HideDatasetActionsqlitedb": { | |
105 "action_arguments": {}, | |
106 "action_type": "HideDatasetAction", | |
107 "output_name": "sqlitedb" | |
108 } | |
109 }, | |
110 "tool_errors": null, | |
111 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
112 "tool_shed_repository": { | |
113 "changeset_revision": "e84d1c3bf4fe", | |
114 "name": "query_tabular", | |
115 "owner": "jjohnson", | |
116 "tool_shed": "toolshed.g2.bx.psu.edu" | |
117 }, | |
118 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"true\\\"\", \"sqlquery\": \"\\\"SELECT distinct sequence \\\\nFROM psm \\\\nWHERE validation IS NOT 'Confident' AND confidence >= 95 \\\\nORDER BY sequence\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}", | |
119 "tool_version": "2.0.0", | |
120 "type": "tool", | |
121 "uuid": "90d1308d-cd0a-4dc7-8da8-eb1a311e3825", | |
122 "workflow_outputs": [ | |
123 { | |
124 "label": null, | |
125 "output_name": "output", | |
126 "uuid": "cb6d774d-7930-4c42-b3dd-7e523acc58a2" | |
127 } | |
128 ] | |
129 }, | |
130 "3": { | |
131 "annotation": "", | |
132 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
133 "id": 3, | |
134 "input_connections": { | |
135 "tables_0|table": { | |
136 "id": 1, | |
137 "output_name": "output" | |
138 } | |
139 }, | |
140 "inputs": [ | |
141 { | |
142 "description": "runtime parameter for tool Query Tabular", | |
143 "name": "add_to_database" | |
144 } | |
145 ], | |
146 "label": null, | |
147 "name": "Query Tabular", | |
148 "outputs": [ | |
149 { | |
150 "name": "sqlitedb", | |
151 "type": "sqlite" | |
152 }, | |
153 { | |
154 "name": "output", | |
155 "type": "tabular" | |
156 } | |
157 ], | |
158 "position": { | |
159 "left": 562, | |
160 "top": 646.5 | |
161 }, | |
162 "post_job_actions": { | |
163 "HideDatasetActionsqlitedb": { | |
164 "action_arguments": {}, | |
165 "action_type": "HideDatasetAction", | |
166 "output_name": "sqlitedb" | |
167 } | |
168 }, | |
169 "tool_errors": null, | |
170 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
171 "tool_shed_repository": { | |
172 "changeset_revision": "e84d1c3bf4fe", | |
173 "name": "query_tabular", | |
174 "owner": "jjohnson", | |
175 "tool_shed": "toolshed.g2.bx.psu.edu" | |
176 }, | |
177 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"false\\\"\", \"sqlquery\": \"\\\"SELECT distinct sequence \\\\nFROM psm \\\\nWHERE validation IS NOT 'Confident' AND confidence >= 95 \\\\nORDER BY sequence\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}", | |
178 "tool_version": "2.0.0", | |
179 "type": "tool", | |
180 "uuid": "f512a71f-f718-4eca-9879-95c876274d57", | |
181 "workflow_outputs": [ | |
182 { | |
183 "label": null, | |
184 "output_name": "output", | |
185 "uuid": "b2c1c6ac-672f-471f-8f81-1e9d7aaf1b18" | |
186 } | |
187 ] | |
188 }, | |
189 "4": { | |
190 "annotation": "", | |
191 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1", | |
192 "id": 4, | |
193 "input_connections": { | |
194 "peptide_src|input_tsv": { | |
195 "id": 2, | |
196 "output_name": "output" | |
197 } | |
198 }, | |
199 "inputs": [ | |
200 { | |
201 "description": "runtime parameter for tool Unipept", | |
202 "name": "peptide_src" | |
203 } | |
204 ], | |
205 "label": null, | |
206 "name": "Unipept", | |
207 "outputs": [ | |
208 { | |
209 "name": "output_json", | |
210 "type": "d3_hierarchy" | |
211 }, | |
212 { | |
213 "name": "output_tsv", | |
214 "type": "tabular" | |
215 }, | |
216 { | |
217 "name": "output_csv", | |
218 "type": "csv" | |
219 }, | |
220 { | |
221 "name": "output_unmatched", | |
222 "type": "tabular" | |
223 } | |
224 ], | |
225 "position": { | |
226 "left": 754.5, | |
227 "top": 327.5 | |
228 }, | |
229 "post_job_actions": { | |
230 "HideDatasetActionoutput_csv": { | |
231 "action_arguments": {}, | |
232 "action_type": "HideDatasetAction", | |
233 "output_name": "output_csv" | |
234 }, | |
235 "HideDatasetActionoutput_unmatched": { | |
236 "action_arguments": {}, | |
237 "action_type": "HideDatasetAction", | |
238 "output_name": "output_unmatched" | |
239 }, | |
240 "RenameDatasetActionoutput_json": { | |
241 "action_arguments": { | |
242 "newname": "Unipept: TAXONOMY Phylogenetic Tree (Bering Strait)" | |
243 }, | |
244 "action_type": "RenameDatasetAction", | |
245 "output_name": "output_json" | |
246 } | |
247 }, | |
248 "tool_errors": null, | |
249 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1", | |
250 "tool_shed_repository": { | |
251 "changeset_revision": "34758ab8aaa4", | |
252 "name": "unipept", | |
253 "owner": "galaxyp", | |
254 "tool_shed": "toolshed.g2.bx.psu.edu" | |
255 }, | |
256 "tool_state": "{\"__page__\": 0, \"outputs\": \"[\\\"tsv\\\", \\\"json\\\"]\", \"__rerun_remap_job_id__\": null, \"peptide_src\": \"{\\\"column\\\": \\\"1\\\", \\\"fmt\\\": \\\"tabular\\\", \\\"input_tsv\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"__current_case__\\\": 1}\", \"strict\": \"\\\"false\\\"\", \"unipept\": \"{\\\"allfields\\\": \\\"false\\\", \\\"extra\\\": \\\"false\\\", \\\"api\\\": \\\"pept2lca\\\", \\\"names\\\": \\\"true\\\", \\\"__current_case__\\\": 0, \\\"equate_il\\\": \\\"true\\\"}\"}", | |
257 "tool_version": "2.0.1", | |
258 "type": "tool", | |
259 "uuid": "829dee5e-7a29-4dce-857a-2c73f5967fc6", | |
260 "workflow_outputs": [ | |
261 { | |
262 "label": null, | |
263 "output_name": "output_tsv", | |
264 "uuid": "3b30dfdc-5778-4862-8d14-819c4a1c81a5" | |
265 }, | |
266 { | |
267 "label": null, | |
268 "output_name": "output_json", | |
269 "uuid": "d1d13d17-c7b2-4ebc-a4e6-822b05a99eea" | |
270 } | |
271 ] | |
272 }, | |
273 "5": { | |
274 "annotation": "", | |
275 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1", | |
276 "id": 5, | |
277 "input_connections": { | |
278 "peptide_src|input_tsv": { | |
279 "id": 3, | |
280 "output_name": "output" | |
281 } | |
282 }, | |
283 "inputs": [ | |
284 { | |
285 "description": "runtime parameter for tool Unipept", | |
286 "name": "peptide_src" | |
287 } | |
288 ], | |
289 "label": null, | |
290 "name": "Unipept", | |
291 "outputs": [ | |
292 { | |
293 "name": "output_json", | |
294 "type": "d3_hierarchy" | |
295 }, | |
296 { | |
297 "name": "output_tsv", | |
298 "type": "tabular" | |
299 }, | |
300 { | |
301 "name": "output_csv", | |
302 "type": "csv" | |
303 }, | |
304 { | |
305 "name": "output_unmatched", | |
306 "type": "tabular" | |
307 } | |
308 ], | |
309 "position": { | |
310 "left": 869, | |
311 "top": 628.5 | |
312 }, | |
313 "post_job_actions": { | |
314 "HideDatasetActionoutput_csv": { | |
315 "action_arguments": {}, | |
316 "action_type": "HideDatasetAction", | |
317 "output_name": "output_csv" | |
318 }, | |
319 "HideDatasetActionoutput_unmatched": { | |
320 "action_arguments": {}, | |
321 "action_type": "HideDatasetAction", | |
322 "output_name": "output_unmatched" | |
323 }, | |
324 "RenameDatasetActionoutput_json": { | |
325 "action_arguments": { | |
326 "newname": "Unipept: TAXONOMY Phylogenetic Tree (Chukchi Sea)" | |
327 }, | |
328 "action_type": "RenameDatasetAction", | |
329 "output_name": "output_json" | |
330 } | |
331 }, | |
332 "tool_errors": null, | |
333 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/unipept/unipept/2.0.1", | |
334 "tool_shed_repository": { | |
335 "changeset_revision": "34758ab8aaa4", | |
336 "name": "unipept", | |
337 "owner": "galaxyp", | |
338 "tool_shed": "toolshed.g2.bx.psu.edu" | |
339 }, | |
340 "tool_state": "{\"__page__\": 0, \"outputs\": \"[\\\"tsv\\\", \\\"json\\\"]\", \"__rerun_remap_job_id__\": null, \"peptide_src\": \"{\\\"column\\\": \\\"1\\\", \\\"fmt\\\": \\\"tabular\\\", \\\"input_tsv\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"__current_case__\\\": 1}\", \"strict\": \"\\\"false\\\"\", \"unipept\": \"{\\\"allfields\\\": \\\"false\\\", \\\"extra\\\": \\\"false\\\", \\\"api\\\": \\\"pept2lca\\\", \\\"names\\\": \\\"true\\\", \\\"__current_case__\\\": 0, \\\"equate_il\\\": \\\"true\\\"}\"}", | |
341 "tool_version": "2.0.1", | |
342 "type": "tool", | |
343 "uuid": "a9912f29-258c-4327-9b45-67cccb557cf3", | |
344 "workflow_outputs": [ | |
345 { | |
346 "label": null, | |
347 "output_name": "output_tsv", | |
348 "uuid": "cc2030a9-5328-445a-bc90-5ce555b57275" | |
349 }, | |
350 { | |
351 "label": null, | |
352 "output_name": "output_json", | |
353 "uuid": "d1495e86-d619-4bf5-b573-b0afcb5aebbc" | |
354 } | |
355 ] | |
356 }, | |
357 "6": { | |
358 "annotation": "", | |
359 "content_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
360 "id": 6, | |
361 "input_connections": { | |
362 "tables_0|table": { | |
363 "id": 0, | |
364 "output_name": "output" | |
365 }, | |
366 "tables_1|table": { | |
367 "id": 4, | |
368 "output_name": "output_tsv" | |
369 }, | |
370 "tables_2|table": { | |
371 "id": 1, | |
372 "output_name": "output" | |
373 }, | |
374 "tables_3|table": { | |
375 "id": 5, | |
376 "output_name": "output_tsv" | |
377 } | |
378 }, | |
379 "inputs": [ | |
380 { | |
381 "description": "runtime parameter for tool Query Tabular", | |
382 "name": "add_to_database" | |
383 } | |
384 ], | |
385 "label": null, | |
386 "name": "Query Tabular", | |
387 "outputs": [ | |
388 { | |
389 "name": "sqlitedb", | |
390 "type": "sqlite" | |
391 }, | |
392 { | |
393 "name": "output", | |
394 "type": "tabular" | |
395 } | |
396 ], | |
397 "position": { | |
398 "left": 1342, | |
399 "top": 298.5 | |
400 }, | |
401 "post_job_actions": { | |
402 "HideDatasetActionsqlitedb": { | |
403 "action_arguments": {}, | |
404 "action_type": "HideDatasetAction", | |
405 "output_name": "sqlitedb" | |
406 }, | |
407 "RenameDatasetActionoutput": { | |
408 "action_arguments": { | |
409 "newname": "Unipept: TAXONOMY GENUS PSMs Peptides (Bering Strait and Chukchi Sea)" | |
410 }, | |
411 "action_type": "RenameDatasetAction", | |
412 "output_name": "output" | |
413 } | |
414 }, | |
415 "tool_errors": null, | |
416 "tool_id": "toolshed.g2.bx.psu.edu/repos/jjohnson/query_tabular/query_tabular/2.0.0", | |
417 "tool_shed_repository": { | |
418 "changeset_revision": "e84d1c3bf4fe", | |
419 "name": "query_tabular", | |
420 "owner": "jjohnson", | |
421 "tool_shed": "toolshed.g2.bx.psu.edu" | |
422 }, | |
423 "tool_state": "{\"tables\": \"[{\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"bering_psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 0, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"bering_lca\\\", \\\"col_names\\\": \\\"peptide,,,,,,,,,,,,,,,,,,,,,genus\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 1, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"comment_char\\\": \\\"#\\\", \\\"__current_case__\\\": 1, \\\"filter_type\\\": \\\"comment\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"chukchi_psm\\\", \\\"col_names\\\": \\\"id,,sequence,,,,,,,,,,,,,,,,,,,,confidence,validation\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 2, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"regex_action\\\": \\\"include_match\\\", \\\"regex_pattern\\\": \\\"^\\\\\\\\d\\\", \\\"__current_case__\\\": 2, \\\"filter_type\\\": \\\"regex\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"tbl_opts\\\": {\\\"load_named_columns\\\": \\\"true\\\", \\\"pkey_autoincr\\\": \\\"\\\", \\\"table_name\\\": \\\"chukchi_lca\\\", \\\"col_names\\\": \\\"peptide,,,,,,,,,,,,,,,,,,,,,genus\\\", \\\"indexes\\\": []}, \\\"__index__\\\": 3, \\\"input_opts\\\": {\\\"linefilters\\\": [{\\\"filter\\\": {\\\"comment_char\\\": \\\"#\\\", \\\"__current_case__\\\": 1, \\\"filter_type\\\": \\\"comment\\\"}, \\\"__index__\\\": 0}]}, \\\"table\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"save_db\": \"\\\"true\\\"\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"no_header\": \"\\\"false\\\"\", \"sqlquery\": \"\\\"SELECT taxon.genus, bering.psms as \\\\\\\"BeringStrait_PSMs\\\\\\\", chukchi.psms as \\\\\\\"ChukchiSea_PSMs\\\\\\\",\\\\nbering.peptides as \\\\\\\"BeringStrait_Peptides\\\\\\\", chukchi.peptides as \\\\\\\"ChukchiSea_Peptides\\\\\\\"\\\\nFROM\\\\n (SELECT distinct genus FROM bering_lca WHERE genus IS NOT NULL\\\\n UNION\\\\n SELECT distinct genus FROM chukchi_lca WHERE genus IS NOT NULL) as taxon\\\\n LEFT OUTER JOIN\\\\n (SELECT bering_lca.genus,count(bering_psm.sequence) as \\\\\\\"psms\\\\\\\",count(distinct bering_psm.sequence) as \\\\\\\"peptides\\\\\\\"\\\\n FROM bering_psm LEFT JOIN bering_lca ON bering_psm.sequence = bering_lca.peptide\\\\n WHERE validation IS NOT 'Confident'\\\\n AND confidence >= 95\\\\n GROUP BY bering_lca.genus ) as bering\\\\n ON taxon.genus = bering.genus\\\\n LEFT OUTER JOIN\\\\n (SELECT chukchi_lca.genus,count(chukchi_psm.sequence) as \\\\\\\"psms\\\\\\\",count(distinct chukchi_psm.sequence) as \\\\\\\"peptides\\\\\\\"\\\\n FROM chukchi_psm LEFT JOIN chukchi_lca ON chukchi_psm.sequence = chukchi_lca.peptide\\\\n WHERE validation IS NOT 'Confident'\\\\n AND confidence >= 95\\\\n GROUP BY chukchi_lca.genus) as chukchi\\\\n ON taxon.genus = chukchi.genus\\\\nWHERE bering.psms IS NOT NULL OR chukchi.psms IS NOT NULL\\\\nORDER BY taxon.genus\\\\n\\\"\", \"add_to_database\": \"{\\\"withdb\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}\", \"workdb\": \"\\\"workdb.sqlite\\\"\"}", | |
424 "tool_version": "2.0.0", | |
425 "type": "tool", | |
426 "uuid": "c8b14d06-f3a3-46db-b3c6-01f5c50bc16e", | |
427 "workflow_outputs": [ | |
428 { | |
429 "label": null, | |
430 "output_name": "output", | |
431 "uuid": "ea8853c6-d1e2-4c04-a795-4b1af5e50ff4" | |
432 } | |
433 ] | |
434 } | |
435 }, | |
436 "uuid": "8fac309b-4ea6-4c20-9e40-651b2346b3e8" | |
437 } |