Mercurial > repos > tduigou > basic_assembly_workflow
comparison BASIC_Assembly_Workflow.ga @ 0:f7630688c61d draft
"planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
| author | tduigou |
|---|---|
| date | Wed, 15 Dec 2021 15:54:06 +0000 |
| parents | |
| children |
comparison
equal
deleted
inserted
replaced
| -1:000000000000 | 0:f7630688c61d |
|---|---|
| 1 { | |
| 2 "a_galaxy_workflow": "true", | |
| 3 "annotation": "", | |
| 4 "format-version": "0.1", | |
| 5 "name": "BASIC_Assembly_Workflow", | |
| 6 "steps": { | |
| 7 "0": { | |
| 8 "annotation": "", | |
| 9 "content_id": null, | |
| 10 "errors": null, | |
| 11 "id": 0, | |
| 12 "input_connections": {}, | |
| 13 "inputs": [ | |
| 14 { | |
| 15 "description": "", | |
| 16 "name": "SBML pathways" | |
| 17 } | |
| 18 ], | |
| 19 "label": "SBML pathways", | |
| 20 "name": "Input dataset", | |
| 21 "outputs": [], | |
| 22 "position": { | |
| 23 "bottom": 335.8000030517578, | |
| 24 "height": 61.80000305175781, | |
| 25 "left": -118.5, | |
| 26 "right": 81.5, | |
| 27 "top": 274, | |
| 28 "width": 200, | |
| 29 "x": -118.5, | |
| 30 "y": 274 | |
| 31 }, | |
| 32 "tool_id": null, | |
| 33 "tool_state": "{\"optional\": false}", | |
| 34 "tool_version": null, | |
| 35 "type": "data_input", | |
| 36 "uuid": "274db529-8d38-4f2b-84ce-8bc14e5fc35e", | |
| 37 "workflow_outputs": [ | |
| 38 { | |
| 39 "label": null, | |
| 40 "output_name": "output", | |
| 41 "uuid": "0058aece-8f90-4470-ba24-ba9cf7a08fdc" | |
| 42 } | |
| 43 ] | |
| 44 }, | |
| 45 "1": { | |
| 46 "annotation": "", | |
| 47 "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/selenzy/selenzy-wrapper/0.1.0", | |
| 48 "errors": null, | |
| 49 "id": 1, | |
| 50 "input_connections": { | |
| 51 "pathway": { | |
| 52 "id": 0, | |
| 53 "output_name": "output" | |
| 54 } | |
| 55 }, | |
| 56 "inputs": [], | |
| 57 "label": null, | |
| 58 "name": "Selenzyme", | |
| 59 "outputs": [ | |
| 60 { | |
| 61 "name": "uniprot_ids", | |
| 62 "type": "xml" | |
| 63 }, | |
| 64 { | |
| 65 "name": "uniprot_ids_csv", | |
| 66 "type": "csv" | |
| 67 } | |
| 68 ], | |
| 69 "position": { | |
| 70 "bottom": 464.6000061035156, | |
| 71 "height": 123.60000610351562, | |
| 72 "left": 117.5, | |
| 73 "right": 317.5, | |
| 74 "top": 341, | |
| 75 "width": 200, | |
| 76 "x": 117.5, | |
| 77 "y": 341 | |
| 78 }, | |
| 79 "post_job_actions": {}, | |
| 80 "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/selenzy/selenzy-wrapper/0.1.0", | |
| 81 "tool_shed_repository": { | |
| 82 "changeset_revision": "481f7c35323d", | |
| 83 "name": "selenzy", | |
| 84 "owner": "tduigou", | |
| 85 "tool_shed": "toolshed.g2.bx.psu.edu" | |
| 86 }, | |
| 87 "tool_state": "{\"adv\": {\"nb_ids\": \"-1\", \"nb_targets\": \"500\", \"direction\": \"0.0\", \"NoMSA\": \"true\", \"taxonIDs\": \"83333\"}, \"pathway\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", | |
| 88 "tool_version": "0.1.0", | |
| 89 "type": "tool", | |
| 90 "uuid": "b8f4e97e-a3e1-4743-80bf-29b3bf2c41eb", | |
| 91 "workflow_outputs": [ | |
| 92 { | |
| 93 "label": "Uniprot IDs", | |
| 94 "output_name": "uniprot_ids", | |
| 95 "uuid": "93661860-776f-4cb8-baa7-eda965d2c194" | |
| 96 }, | |
| 97 { | |
| 98 "label": "Uniprot IDs", | |
| 99 "output_name": "uniprot_ids_csv", | |
| 100 "uuid": "a62113ab-6728-48d5-acb4-14bc2bc6795d" | |
| 101 } | |
| 102 ] | |
| 103 }, | |
| 104 "2": { | |
| 105 "annotation": "", | |
| 106 "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/rpbasicdesign/rpbasicdesign/0.3.4", | |
| 107 "errors": null, | |
| 108 "id": 2, | |
| 109 "input_connections": { | |
| 110 "rpsbml_file": { | |
| 111 "id": 1, | |
| 112 "output_name": "uniprot_ids" | |
| 113 } | |
| 114 }, | |
| 115 "inputs": [ | |
| 116 { | |
| 117 "description": "runtime parameter for tool BasicDesign", | |
| 118 "name": "adv" | |
| 119 }, | |
| 120 { | |
| 121 "description": "runtime parameter for tool BasicDesign", | |
| 122 "name": "rpsbml_file" | |
| 123 } | |
| 124 ], | |
| 125 "label": null, | |
| 126 "name": "BasicDesign", | |
| 127 "outputs": [ | |
| 128 { | |
| 129 "name": "sbol_dir", | |
| 130 "type": "input" | |
| 131 }, | |
| 132 { | |
| 133 "name": "Constructs", | |
| 134 "type": "csv" | |
| 135 }, | |
| 136 { | |
| 137 "name": "User parts plate", | |
| 138 "type": "csv" | |
| 139 }, | |
| 140 { | |
| 141 "name": "Biolegio plate", | |
| 142 "type": "csv" | |
| 143 } | |
| 144 ], | |
| 145 "position": { | |
| 146 "bottom": 583.8000030517578, | |
| 147 "height": 214.8000030517578, | |
| 148 "left": 386, | |
| 149 "right": 586, | |
| 150 "top": 369, | |
| 151 "width": 200, | |
| 152 "x": 386, | |
| 153 "y": 369 | |
| 154 }, | |
| 155 "post_job_actions": {}, | |
| 156 "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/rpbasicdesign/rpbasicdesign/0.3.4", | |
| 157 "tool_shed_repository": { | |
| 158 "changeset_revision": "de9f53630349", | |
| 159 "name": "rpbasicdesign", | |
| 160 "owner": "tduigou", | |
| 161 "tool_shed": "toolshed.g2.bx.psu.edu" | |
| 162 }, | |
| 163 "tool_state": "{\"adv\": {\"parts_files\": {\"__class__\": \"RuntimeValue\"}, \"lms_id\": \"LMS\", \"lmp_id\": \"LMP\", \"cds_permutation\": \"true\"}, \"backbone_id\": \"BASIC_SEVA_37_CmR-p15A.1\", \"rpsbml_file\": {\"__class__\": \"RuntimeValue\"}, \"sample_size\": \"88\", \"__page__\": null, \"__rerun_remap_job_id__\": null}", | |
| 164 "tool_version": "0.3.4", | |
| 165 "type": "tool", | |
| 166 "uuid": "678a53d3-1241-4f82-8d40-3da99f2be890", | |
| 167 "workflow_outputs": [ | |
| 168 { | |
| 169 "label": null, | |
| 170 "output_name": "Biolegio plate", | |
| 171 "uuid": "a34be5bd-9da4-461c-bec5-1c4dc5a8c18f" | |
| 172 }, | |
| 173 { | |
| 174 "label": null, | |
| 175 "output_name": "sbol_dir", | |
| 176 "uuid": "469241a2-0ecb-42f5-bcea-53aca636bb46" | |
| 177 }, | |
| 178 { | |
| 179 "label": null, | |
| 180 "output_name": "Constructs", | |
| 181 "uuid": "8755e80f-1ebe-4210-b0df-8acf8218a62c" | |
| 182 }, | |
| 183 { | |
| 184 "label": null, | |
| 185 "output_name": "User parts plate", | |
| 186 "uuid": "ff9e10e0-bfd3-4d0f-98f1-87fd94771293" | |
| 187 } | |
| 188 ] | |
| 189 }, | |
| 190 "3": { | |
| 191 "annotation": "", | |
| 192 "content_id": "toolshed.g2.bx.psu.edu/repos/tduigou/dnabot/dnabot/3.0.0", | |
| 193 "errors": null, | |
| 194 "id": 3, | |
| 195 "input_connections": { | |
| 196 "construct_file": { | |
| 197 "id": 2, | |
| 198 "output_name": "Constructs" | |
| 199 }, | |
| 200 "plate_files": [ | |
| 201 { | |
| 202 "id": 2, | |
| 203 "output_name": "User parts plate" | |
| 204 }, | |
| 205 { | |
| 206 "id": 2, | |
| 207 "output_name": "Biolegio plate" | |
| 208 } | |
| 209 ] | |
| 210 }, | |
| 211 "inputs": [ | |
| 212 { | |
| 213 "description": "runtime parameter for tool DNA-Bot", | |
| 214 "name": "adv" | |
| 215 } | |
| 216 ], | |
| 217 "label": null, | |
| 218 "name": "DNA-Bot", | |
| 219 "outputs": [ | |
| 220 { | |
| 221 "name": "dnabot_scripts", | |
| 222 "type": "tar" | |
| 223 } | |
| 224 ], | |
| 225 "position": { | |
| 226 "bottom": 644.8000030517578, | |
| 227 "height": 194.8000030517578, | |
| 228 "left": 641.5, | |
| 229 "right": 841.5, | |
| 230 "top": 450, | |
| 231 "width": 200, | |
| 232 "x": 641.5, | |
| 233 "y": 450 | |
| 234 }, | |
| 235 "post_job_actions": {}, | |
| 236 "tool_id": "toolshed.g2.bx.psu.edu/repos/tduigou/dnabot/dnabot/3.0.0", | |
| 237 "tool_shed_repository": { | |
| 238 "changeset_revision": "6d55c77a17ab", | |
| 239 "name": "dnabot", | |
| 240 "owner": "tduigou", | |
| 241 "tool_shed": "toolshed.g2.bx.psu.edu" | |
| 242 }, | |
| 243 "tool_state": "{\"adv\": {\"default_settings_file\": {\"__class__\": \"RuntimeValue\"}, \"etoh_well\": \"A11\", \"soc_column\": \"1\"}, \"construct_file\": {\"__class__\": \"ConnectedValue\"}, \"plate_files\": {\"__class__\": \"ConnectedValue\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}", | |
| 244 "tool_version": "3.0.0", | |
| 245 "type": "tool", | |
| 246 "uuid": "d5a18d74-8189-48d7-83ca-a63f6f8e1d39", | |
| 247 "workflow_outputs": [ | |
| 248 { | |
| 249 "label": "DNA-Bot scripts", | |
| 250 "output_name": "dnabot_scripts", | |
| 251 "uuid": "e0eabfa3-2dbd-44bc-9471-f8589a1a1861" | |
| 252 } | |
| 253 ] | |
| 254 } | |
| 255 }, | |
| 256 "tags": [], | |
| 257 "uuid": "64390e96-9d57-441a-81cf-7544414ea50c", | |
| 258 "version": 4 | |
| 259 } |
