annotate Galaxy-Workflow-APOSTL_Workflow.ga @ 0:0b6e9cc279fc draft default tip

planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
author galaxyp
date Thu, 11 May 2017 14:52:17 -0400
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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1 {
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2 "a_galaxy_workflow": "true",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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3 "annotation": "",
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4 "format-version": "0.1",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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5 "name": "APOSTL Workflow",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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6 "steps": {
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8 "annotation": "",
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11 "input_connections": {},
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12 "inputs": [],
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14 "name": "Protein Database Downloader",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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15 "outputs": [
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16 {
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17 "name": "output_database",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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18 "type": "fasta"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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19 }
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20 ],
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24 },
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26 "HideDatasetActionoutput_database": {
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27 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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28 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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29 "output_name": "output_database"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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30 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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31 "RenameDatasetActionoutput_database": {
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32 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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33 "newname": "Human SwissProt dB April 12, 2017"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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34 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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35 "action_type": "RenameDatasetAction",
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36 "output_name": "output_database"
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37 }
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38 },
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43 "name": "dbbuilder",
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44 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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46 },
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48 "tool_version": "0.2.1",
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49 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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51 "workflow_outputs": []
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52 },
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53 "1": {
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54 "annotation": "",
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57 "input_connections": {},
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58 "inputs": [],
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59 "label": null,
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60 "name": "Protein Database Downloader",
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61 "outputs": [
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62 {
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63 "name": "output_database",
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64 "type": "fasta"
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65 }
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66 ],
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67 "position": {
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70 },
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71 "post_job_actions": {
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72 "RenameDatasetActionoutput_database": {
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73 "action_arguments": {
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74 "newname": "cRAP dB (common Repository of Adventitious Proteins database)"
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75 },
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76 "action_type": "RenameDatasetAction",
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77 "output_name": "output_database"
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78 }
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79 },
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80 "tool_errors": null,
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81 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/dbbuilder/dbbuilder/0.2.1",
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82 "tool_shed_repository": {
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84 "name": "dbbuilder",
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85 "owner": "galaxyp",
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87 },
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138 "name": "Input dataset",
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146 "tool_state": "{\"name\": \"04112012_JL_HCC827_EGFR_TAP_2_run1.MGF\"}",
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147 "tool_version": null,
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148 "type": "data_input",
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149 "uuid": "f47afc6b-3c68-46d2-a12b-5797abeb2301",
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150 "workflow_outputs": [
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162 "input_connections": {},
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163 "inputs": [
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166 "name": "04112012_JL_HCC827_GFP_TAP_1_run1.MGF"
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170 "name": "Input dataset",
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171 "outputs": [],
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260 "id": 0,
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261 "output_name": "output_database"
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262 },
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263 "inputs_1|input": {
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264 "id": 1,
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265 "output_name": "output_database"
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266 }
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267 },
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268 "inputs": [],
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269 "label": null,
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270 "name": "FASTA Merge Files and Filter Unique Sequences",
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271 "outputs": [
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272 {
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273 "name": "output",
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274 "type": "fasta"
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275 }
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276 ],
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277 "position": {
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278 "left": 530,
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280 },
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281 "post_job_actions": {
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282 "HideDatasetActionoutput": {
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283 "action_arguments": {},
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284 "action_type": "HideDatasetAction",
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285 "output_name": "output"
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286 }
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287 },
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288 "tool_errors": null,
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289 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/fasta_merge_files_and_filter_unique_sequences/fasta_merge_files_and_filter_unique_sequences/1.0",
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290 "tool_shed_repository": {
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291 "changeset_revision": "2904d46167da",
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292 "name": "fasta_merge_files_and_filter_unique_sequences",
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293 "owner": "galaxyp",
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294 "tool_shed": "toolshed.g2.bx.psu.edu"
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295 },
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296 "tool_state": "{\"inputs\": \"[{\\\"__index__\\\": 0, \\\"input\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"__index__\\\": 1, \\\"input\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}]\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}",
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297 "tool_version": "1.0",
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298 "type": "tool",
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299 "uuid": "51cd4b88-e1a1-4508-8379-45a60e22b407",
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300 "workflow_outputs": []
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301 },
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302 "8": {
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303 "annotation": "",
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304 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
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305 "id": 8,
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306 "input_connections": {
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307 "input_database": {
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308 "id": 7,
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309 "output_name": "output"
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310 },
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311 "peak_lists": {
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312 "id": 2,
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313 "output_name": "output"
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314 }
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315 },
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316 "inputs": [
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317 {
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318 "description": "runtime parameter for tool Search GUI",
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319 "name": "peak_lists"
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320 },
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321 {
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322 "description": "runtime parameter for tool Search GUI",
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323 "name": "input_database"
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324 }
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325 ],
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326 "label": null,
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327 "name": "Search GUI",
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328 "outputs": [
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329 {
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330 "name": "searchgui_results",
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331 "type": "searchgui_archive"
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332 }
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333 ],
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334 "position": {
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335 "left": 560,
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336 "top": 617
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337 },
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338 "post_job_actions": {
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339 "RenameDatasetActionsearchgui_results": {
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340 "action_arguments": {
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341 "newname": "04112012_JL_HCC827_EGFR_TAP_1_run1 (SearchGUI)"
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342 },
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343 "action_type": "RenameDatasetAction",
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344 "output_name": "searchgui_results"
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345 }
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346 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
347 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
348 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
349 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
350 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
351 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
352 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
353 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
354 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
355 "tool_state": "{\"__page__\": 0, \"peak_lists\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_database_options\": \"{\\\"update_gene_mapping\\\": \\\"false\\\", \\\"use_gene_mapping\\\": \\\"false\\\", \\\"create_decoy\\\": \\\"true\\\"}\", \"protein_digest_options\": \"{\\\"digestion\\\": {\\\"cleavage\\\": \\\"default\\\", \\\"missed_cleavages\\\": \\\"2\\\", \\\"__current_case__\\\": 0}}\", \"__rerun_remap_job_id__\": null, \"search_engines_options\": \"{\\\"engines\\\": [\\\"X!Tandem\\\", \\\"MSGF\\\", \\\"OMSSA\\\"]}\", \"precursor_options\": \"{\\\"forward_ion\\\": \\\"b\\\", \\\"max_charge\\\": \\\"6\\\", \\\"max_isotope\\\": \\\"1\\\", \\\"precursor_ion_tol_units\\\": \\\"1\\\", \\\"min_isotope\\\": \\\"0\\\", \\\"fragment_tol\\\": \\\"0.5\\\", \\\"min_charge\\\": \\\"2\\\", \\\"reverse_ion\\\": \\\"y\\\", \\\"precursor_ion_tol\\\": \\\"10.0\\\"}\", \"advanced_options\": \"{\\\"searchgui_advanced\\\": {\\\"searchgui_advanced_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}, \\\"xtandem\\\": {\\\"xtandem_quick_acetyl\\\": \\\"false\\\", \\\"xtandem_min_peaks\\\": \\\"15\\\", \\\"xtandem_quick_pyro\\\": \\\"false\\\", \\\"xtandem_stp_bias\\\": \\\"false\\\", \\\"xtandem_advanced\\\": \\\"yes\\\", \\\"xtandem_dynamic_range\\\": \\\"100\\\", \\\"xtandem_min_prec_mass\\\": \\\"200\\\", \\\"xtandem_output_sequences\\\": \\\"false\\\", \\\"__current_case__\\\": 1, \\\"xtandem_output_proteins\\\": \\\"false\\\", \\\"xtandem_output_spectra\\\": \\\"true\\\", \\\"xtandem_npeaks\\\": \\\"50\\\", \\\"xtandem_noise_suppr\\\": \\\"true\\\", \\\"xtandem_min_frag_mz\\\": \\\"200\\\", \\\"xtandem_evalue\\\": \\\"100.0\\\", \\\"xtandem_refine\\\": {\\\"xtandem_refine_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}, \\\"msgf\\\": {\\\"msgf_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"directtag\\\": {\\\"directtag_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"comet\\\": {\\\"comet_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"omssa\\\": {\\\"omssa_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"novor\\\": {\\\"novor_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}\", \"input_database\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_modification_options\": \"{\\\"variable_modifications\\\": [\\\"Acetylation of protein N-term\\\", \\\"Oxidation of M\\\"], \\\"fixed_modifications\\\": [\\\"Carbamidomethylation of C\\\"]}\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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356 "tool_version": "3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
357 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
358 "uuid": "d8caa9eb-db82-4010-af2b-051332a0a685",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
359 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
360 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
361 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
362 "output_name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
363 "uuid": "d60f276c-405e-4153-b582-4548d8362629"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
364 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
365 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
366 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
367 "9": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
368 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
369 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
370 "id": 9,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
371 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
372 "input_database": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
373 "id": 7,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
374 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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375 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
376 "peak_lists": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
377 "id": 3,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
378 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
379 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
380 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
381 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
382 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
383 "description": "runtime parameter for tool Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
384 "name": "peak_lists"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
385 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
386 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
387 "description": "runtime parameter for tool Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
388 "name": "input_database"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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389 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
390 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
391 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
392 "name": "Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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393 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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394 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
395 "name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
396 "type": "searchgui_archive"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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397 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
398 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
399 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
400 "left": 570,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
401 "top": 781
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
402 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
403 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
404 "RenameDatasetActionsearchgui_results": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
405 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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406 "newname": "04112012_JL_HCC827_EGFR_TAP_2_run1 (SearchGUI Results)"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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407 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
408 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
409 "output_name": "searchgui_results"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
410 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
411 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
412 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
413 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
414 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
415 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
416 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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417 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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418 "tool_shed": "toolshed.g2.bx.psu.edu"
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419 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
420 "tool_state": "{\"__page__\": 0, \"peak_lists\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_database_options\": \"{\\\"update_gene_mapping\\\": \\\"false\\\", \\\"use_gene_mapping\\\": \\\"false\\\", \\\"create_decoy\\\": \\\"true\\\"}\", \"protein_digest_options\": \"{\\\"digestion\\\": {\\\"cleavage\\\": \\\"default\\\", \\\"missed_cleavages\\\": \\\"2\\\", \\\"__current_case__\\\": 0}}\", \"__rerun_remap_job_id__\": null, \"search_engines_options\": \"{\\\"engines\\\": [\\\"X!Tandem\\\", \\\"MSGF\\\", \\\"OMSSA\\\"]}\", \"precursor_options\": \"{\\\"forward_ion\\\": \\\"b\\\", \\\"max_charge\\\": \\\"6\\\", \\\"max_isotope\\\": \\\"1\\\", \\\"precursor_ion_tol_units\\\": \\\"1\\\", \\\"min_isotope\\\": \\\"0\\\", \\\"fragment_tol\\\": \\\"0.5\\\", \\\"min_charge\\\": \\\"2\\\", \\\"reverse_ion\\\": \\\"y\\\", \\\"precursor_ion_tol\\\": \\\"10.0\\\"}\", \"advanced_options\": \"{\\\"searchgui_advanced\\\": {\\\"searchgui_advanced_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}, \\\"xtandem\\\": {\\\"xtandem_quick_acetyl\\\": \\\"false\\\", \\\"xtandem_min_peaks\\\": \\\"15\\\", \\\"xtandem_quick_pyro\\\": \\\"false\\\", \\\"xtandem_stp_bias\\\": \\\"false\\\", \\\"xtandem_advanced\\\": \\\"yes\\\", \\\"xtandem_dynamic_range\\\": \\\"100\\\", \\\"xtandem_min_prec_mass\\\": \\\"200\\\", \\\"xtandem_output_sequences\\\": \\\"false\\\", \\\"__current_case__\\\": 1, \\\"xtandem_output_proteins\\\": \\\"false\\\", \\\"xtandem_output_spectra\\\": \\\"true\\\", \\\"xtandem_npeaks\\\": \\\"50\\\", \\\"xtandem_noise_suppr\\\": \\\"true\\\", \\\"xtandem_min_frag_mz\\\": \\\"200\\\", \\\"xtandem_evalue\\\": \\\"100.0\\\", \\\"xtandem_refine\\\": {\\\"xtandem_refine_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}, \\\"msgf\\\": {\\\"msgf_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"directtag\\\": {\\\"directtag_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"comet\\\": {\\\"comet_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"omssa\\\": {\\\"omssa_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"novor\\\": {\\\"novor_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}\", \"input_database\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_modification_options\": \"{\\\"variable_modifications\\\": [\\\"Acetylation of protein N-term\\\", \\\"Oxidation of M\\\"], \\\"fixed_modifications\\\": [\\\"Carbamidomethylation of C\\\"]}\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
421 "tool_version": "3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
422 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
423 "uuid": "7c36f1c8-09db-46e5-beae-28fc17b82f4e",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
424 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
425 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
426 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
427 "output_name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
428 "uuid": "59c10d40-c56e-48a8-a65f-2a57a52f3d2d"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
429 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
430 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
431 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
432 "10": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
433 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
434 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
435 "id": 10,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
436 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
437 "input_database": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
438 "id": 7,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
439 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
440 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
441 "peak_lists": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
442 "id": 4,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
443 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
444 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
445 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
446 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
447 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
448 "description": "runtime parameter for tool Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
449 "name": "peak_lists"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
450 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
451 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
452 "description": "runtime parameter for tool Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
453 "name": "input_database"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
454 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
455 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
456 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
457 "name": "Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
458 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
459 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
460 "name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
461 "type": "searchgui_archive"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
462 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
463 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
464 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
465 "left": 577,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
466 "top": 954
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
467 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
468 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
469 "RenameDatasetActionsearchgui_results": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
470 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
471 "newname": "04112012_JL_HCC827_GFP_TAP_1_run1 (SearchGUI Results)"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
472 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
473 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
474 "output_name": "searchgui_results"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
475 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
476 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
477 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
478 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
479 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
480 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
481 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
482 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
483 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
484 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
485 "tool_state": "{\"__page__\": 0, \"peak_lists\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_database_options\": \"{\\\"update_gene_mapping\\\": \\\"false\\\", \\\"use_gene_mapping\\\": \\\"false\\\", \\\"create_decoy\\\": \\\"true\\\"}\", \"protein_digest_options\": \"{\\\"digestion\\\": {\\\"cleavage\\\": \\\"default\\\", \\\"missed_cleavages\\\": \\\"2\\\", \\\"__current_case__\\\": 0}}\", \"__rerun_remap_job_id__\": null, \"search_engines_options\": \"{\\\"engines\\\": [\\\"X!Tandem\\\", \\\"MSGF\\\", \\\"OMSSA\\\"]}\", \"precursor_options\": \"{\\\"forward_ion\\\": \\\"b\\\", \\\"max_charge\\\": \\\"6\\\", \\\"max_isotope\\\": \\\"1\\\", \\\"precursor_ion_tol_units\\\": \\\"1\\\", \\\"min_isotope\\\": \\\"0\\\", \\\"fragment_tol\\\": \\\"0.5\\\", \\\"min_charge\\\": \\\"2\\\", \\\"reverse_ion\\\": \\\"y\\\", \\\"precursor_ion_tol\\\": \\\"10.0\\\"}\", \"advanced_options\": \"{\\\"searchgui_advanced\\\": {\\\"searchgui_advanced_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}, \\\"xtandem\\\": {\\\"xtandem_quick_acetyl\\\": \\\"false\\\", \\\"xtandem_min_peaks\\\": \\\"15\\\", \\\"xtandem_quick_pyro\\\": \\\"false\\\", \\\"xtandem_stp_bias\\\": \\\"false\\\", \\\"xtandem_advanced\\\": \\\"yes\\\", \\\"xtandem_dynamic_range\\\": \\\"100\\\", \\\"xtandem_min_prec_mass\\\": \\\"200\\\", \\\"xtandem_output_sequences\\\": \\\"false\\\", \\\"__current_case__\\\": 1, \\\"xtandem_output_proteins\\\": \\\"false\\\", \\\"xtandem_output_spectra\\\": \\\"true\\\", \\\"xtandem_npeaks\\\": \\\"50\\\", \\\"xtandem_noise_suppr\\\": \\\"true\\\", \\\"xtandem_min_frag_mz\\\": \\\"200\\\", \\\"xtandem_evalue\\\": \\\"100.0\\\", \\\"xtandem_refine\\\": {\\\"xtandem_refine_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}, \\\"msgf\\\": {\\\"msgf_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"directtag\\\": {\\\"directtag_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"comet\\\": {\\\"comet_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"omssa\\\": {\\\"omssa_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"novor\\\": {\\\"novor_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}\", \"input_database\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_modification_options\": \"{\\\"variable_modifications\\\": [\\\"Acetylation of protein N-term\\\", \\\"Oxidation of M\\\"], \\\"fixed_modifications\\\": [\\\"Carbamidomethylation of C\\\"]}\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
486 "tool_version": "3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
487 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
488 "uuid": "cf449d43-a257-4f63-8a52-cccee9f7aa9c",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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489 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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490 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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491 "label": null,
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492 "output_name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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494 }
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495 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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496 },
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497 "11": {
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498 "annotation": "",
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500 "id": 11,
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501 "input_connections": {
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502 "input_database": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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503 "id": 7,
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504 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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505 },
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506 "peak_lists": {
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507 "id": 5,
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508 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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509 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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510 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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511 "inputs": [
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galaxyp
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diff changeset
512 {
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513 "description": "runtime parameter for tool Search GUI",
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514 "name": "peak_lists"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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515 },
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516 {
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517 "description": "runtime parameter for tool Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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518 "name": "input_database"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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519 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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520 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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521 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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522 "name": "Search GUI",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
523 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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524 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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525 "name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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526 "type": "searchgui_archive"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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527 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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528 ],
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529 "position": {
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530 "left": 583,
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531 "top": 1127
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532 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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533 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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534 "RenameDatasetActionsearchgui_results": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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535 "action_arguments": {
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diff changeset
536 "newname": "04112012_JL_HCC827_GFP_TAP_2_run1 (SearchGUI Results)"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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537 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
538 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
539 "output_name": "searchgui_results"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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540 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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541 },
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542 "tool_errors": null,
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543 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/search_gui/3.2.11",
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544 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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545 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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546 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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547 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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548 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
549 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
550 "tool_state": "{\"__page__\": 0, \"peak_lists\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_database_options\": \"{\\\"update_gene_mapping\\\": \\\"false\\\", \\\"use_gene_mapping\\\": \\\"false\\\", \\\"create_decoy\\\": \\\"true\\\"}\", \"protein_digest_options\": \"{\\\"digestion\\\": {\\\"cleavage\\\": \\\"default\\\", \\\"missed_cleavages\\\": \\\"2\\\", \\\"__current_case__\\\": 0}}\", \"__rerun_remap_job_id__\": null, \"search_engines_options\": \"{\\\"engines\\\": [\\\"X!Tandem\\\", \\\"MSGF\\\", \\\"OMSSA\\\"]}\", \"precursor_options\": \"{\\\"forward_ion\\\": \\\"b\\\", \\\"max_charge\\\": \\\"6\\\", \\\"max_isotope\\\": \\\"1\\\", \\\"precursor_ion_tol_units\\\": \\\"1\\\", \\\"min_isotope\\\": \\\"0\\\", \\\"fragment_tol\\\": \\\"0.5\\\", \\\"min_charge\\\": \\\"2\\\", \\\"reverse_ion\\\": \\\"y\\\", \\\"precursor_ion_tol\\\": \\\"10.0\\\"}\", \"advanced_options\": \"{\\\"searchgui_advanced\\\": {\\\"searchgui_advanced_selector\\\": \\\"basic\\\", \\\"__current_case__\\\": 0}, \\\"xtandem\\\": {\\\"xtandem_quick_acetyl\\\": \\\"false\\\", \\\"xtandem_min_peaks\\\": \\\"15\\\", \\\"xtandem_quick_pyro\\\": \\\"false\\\", \\\"xtandem_stp_bias\\\": \\\"false\\\", \\\"xtandem_advanced\\\": \\\"yes\\\", \\\"xtandem_dynamic_range\\\": \\\"100\\\", \\\"xtandem_min_prec_mass\\\": \\\"200\\\", \\\"xtandem_output_sequences\\\": \\\"false\\\", \\\"__current_case__\\\": 1, \\\"xtandem_output_proteins\\\": \\\"false\\\", \\\"xtandem_output_spectra\\\": \\\"true\\\", \\\"xtandem_npeaks\\\": \\\"50\\\", \\\"xtandem_noise_suppr\\\": \\\"true\\\", \\\"xtandem_min_frag_mz\\\": \\\"200\\\", \\\"xtandem_evalue\\\": \\\"100.0\\\", \\\"xtandem_refine\\\": {\\\"xtandem_refine_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}, \\\"msgf\\\": {\\\"msgf_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"directtag\\\": {\\\"directtag_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"comet\\\": {\\\"comet_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"omssa\\\": {\\\"omssa_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}, \\\"novor\\\": {\\\"novor_advanced\\\": \\\"no\\\", \\\"__current_case__\\\": 0}}\", \"input_database\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"protein_modification_options\": \"{\\\"variable_modifications\\\": [\\\"Acetylation of protein N-term\\\", \\\"Oxidation of M\\\"], \\\"fixed_modifications\\\": [\\\"Carbamidomethylation of C\\\"]}\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
551 "tool_version": "3.2.11",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
552 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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553 "uuid": "016a97dc-03c8-409d-8168-d13bd2923672",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
554 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
555 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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556 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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557 "output_name": "searchgui_results",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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558 "uuid": "38d8b5ae-bc12-4297-a3e4-0ada3dc20422"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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559 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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560 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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561 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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562 "12": {
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563 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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564 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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565 "id": 12,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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566 "input_connections": {
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galaxyp
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diff changeset
567 "searchgui_input": {
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diff changeset
568 "id": 8,
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diff changeset
569 "output_name": "searchgui_results"
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570 }
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571 },
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572 "inputs": [
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573 {
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diff changeset
574 "description": "runtime parameter for tool Peptide Shaker",
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575 "name": "searchgui_input"
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576 }
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577 ],
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578 "label": null,
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579 "name": "Peptide Shaker",
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580 "outputs": [
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diff changeset
581 {
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582 "name": "mzidentML",
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583 "type": "mzid"
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584 },
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585 {
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586 "name": "output_cps",
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587 "type": "peptideshaker_archive"
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588 },
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589 {
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590 "name": "output_zip",
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591 "type": "zip"
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592 },
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593 {
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594 "name": "output_certificate",
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595 "type": "txt"
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596 },
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597 {
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598 "name": "output_hierarchical",
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599 "type": "tabular"
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600 },
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601 {
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602 "name": "output_psm_phosphorylation",
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603 "type": "tabular"
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604 },
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605 {
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606 "name": "output_psm",
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607 "type": "tabular"
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608 },
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609 {
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610 "name": "output_extended_psm",
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611 "type": "tabular"
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612 },
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613 {
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614 "name": "output_peptides_phosphorylation",
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615 "type": "tabular"
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616 },
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diff changeset
617 {
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618 "name": "output_peptides",
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619 "type": "tabular"
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620 },
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diff changeset
621 {
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622 "name": "output_proteins_phosphorylation",
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623 "type": "tabular"
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624 },
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625 {
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626 "name": "output_proteins",
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627 "type": "tabular"
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628 }
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629 ],
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630 "position": {
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diff changeset
631 "left": 1015,
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632 "top": 187
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633 },
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634 "post_job_actions": {
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635 "HideDatasetActionmzidentML": {
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diff changeset
636 "action_arguments": {},
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diff changeset
637 "action_type": "HideDatasetAction",
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galaxyp
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diff changeset
638 "output_name": "mzidentML"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
639 },
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diff changeset
640 "HideDatasetActionoutput_cps": {
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galaxyp
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diff changeset
641 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
642 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
643 "output_name": "output_cps"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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644 },
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galaxyp
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diff changeset
645 "HideDatasetActionoutput_extended_psm": {
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galaxyp
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diff changeset
646 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
647 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
648 "output_name": "output_extended_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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649 },
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galaxyp
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diff changeset
650 "HideDatasetActionoutput_hierarchical": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
651 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
652 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
653 "output_name": "output_hierarchical"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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654 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
655 "HideDatasetActionoutput_peptides": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
656 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
657 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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658 "output_name": "output_peptides"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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659 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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660 "HideDatasetActionoutput_peptides_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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661 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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662 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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663 "output_name": "output_peptides_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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664 },
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galaxyp
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665 "HideDatasetActionoutput_proteins_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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666 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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667 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
668 "output_name": "output_proteins_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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669 },
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galaxyp
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670 "HideDatasetActionoutput_psm_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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671 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
672 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
673 "output_name": "output_psm_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
674 },
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galaxyp
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675 "HideDatasetActionoutput_zip": {
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galaxyp
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676 "action_arguments": {},
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galaxyp
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677 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
678 "output_name": "output_zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
679 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
680 "RenameDatasetActionoutput_certificate": {
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galaxyp
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diff changeset
681 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
682 "newname": "PeptideShaker Summary Report: 04112012_JL_HCC827_EGFR_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
683 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
684 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
685 "output_name": "output_certificate"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
686 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
687 "RenameDatasetActionoutput_proteins": {
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galaxyp
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diff changeset
688 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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689 "newname": "PeptideShaker Protein Report: 04112012_JL_HCC827_EGFR_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
690 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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691 "action_type": "RenameDatasetAction",
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galaxyp
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692 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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693 },
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694 "RenameDatasetActionoutput_psm": {
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galaxyp
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695 "action_arguments": {
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galaxyp
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696 "newname": "PeptideShaker PSM Report: 04112012_JL_HCC827_EGFR_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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697 },
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698 "action_type": "RenameDatasetAction",
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699 "output_name": "output_psm"
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700 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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701 },
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703 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
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704 "tool_shed_repository": {
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705 "changeset_revision": "7f2aeb19650f",
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706 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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707 "owner": "galaxyp",
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galaxyp
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708 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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709 },
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710 "tool_state": "{\"__page__\": 0, \"processing_options\": \"{\\\"peptide_fdr\\\": \\\"5.0\\\", \\\"protein_fdr\\\": \\\"5.0\\\", \\\"protein_fraction_mw_confidence\\\": \\\"95.0\\\", \\\"ptm_score\\\": {\\\"ptm_score_selector\\\": \\\"0\\\", \\\"__current_case__\\\": 0}, \\\"ptm_alignment\\\": \\\"true\\\", \\\"__current_case__\\\": 1, \\\"processing_options_selector\\\": \\\"yes\\\", \\\"psm_fdr\\\": \\\"5.0\\\"}\", \"__rerun_remap_job_id__\": null, \"filtering_options\": \"{\\\"max_precursor_error_type\\\": \\\"1\\\", \\\"filtering_options_selector\\\": \\\"yes\\\", \\\"__current_case__\\\": 1, \\\"max_precursor_error\\\": \\\"10.0\\\", \\\"exclude_unknown_ptms\\\": \\\"true\\\", \\\"max_peptide_length\\\": \\\"75\\\", \\\"min_peptide_length\\\": \\\"6\\\"}\", \"searchgui_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"contact_options\": \"{\\\"contact_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}\", \"outputs\": \"[\\\"3\\\", \\\"7\\\", \\\"0\\\"]\", \"include_sequences\": \"\\\"false\\\"\"}",
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galaxyp
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diff changeset
711 "tool_version": "1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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712 "type": "tool",
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713 "uuid": "6b56c797-782d-4f2f-b145-d752755cef44",
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galaxyp
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diff changeset
714 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
715 {
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galaxyp
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716 "label": null,
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galaxyp
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717 "output_name": "output_proteins",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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719 },
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720 {
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galaxyp
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722 "output_name": "output_psm",
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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724 },
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galaxyp
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727 "output_name": "output_certificate",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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728 "uuid": "98aa4a9c-3a06-4ddd-8fa4-3978102875ac"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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731 },
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galaxyp
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732 "13": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
733 "annotation": "",
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734 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
735 "id": 13,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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736 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
737 "searchgui_input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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739 "output_name": "searchgui_results"
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740 }
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745 "name": "searchgui_input"
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749 "name": "Peptide Shaker",
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750 "outputs": [
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756 "name": "output_cps",
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757 "type": "peptideshaker_archive"
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765 "type": "txt"
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768 "name": "output_hierarchical",
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769 "type": "tabular"
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772 "name": "output_psm_phosphorylation",
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773 "type": "tabular"
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776 "name": "output_psm",
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777 "type": "tabular"
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780 "name": "output_extended_psm",
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781 "type": "tabular"
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784 "name": "output_peptides_phosphorylation",
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785 "type": "tabular"
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786 },
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787 {
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788 "name": "output_peptides",
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789 "type": "tabular"
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791 {
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792 "name": "output_proteins_phosphorylation",
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793 "type": "tabular"
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795 {
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796 "name": "output_proteins",
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797 "type": "tabular"
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800 "position": {
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801 "left": 959,
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802 "top": 313
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804 "post_job_actions": {
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diff changeset
805 "HideDatasetActionmzidentML": {
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diff changeset
806 "action_arguments": {},
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diff changeset
807 "action_type": "HideDatasetAction",
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diff changeset
808 "output_name": "mzidentML"
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809 },
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diff changeset
810 "HideDatasetActionoutput_cps": {
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diff changeset
811 "action_arguments": {},
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diff changeset
812 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
813 "output_name": "output_cps"
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galaxyp
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diff changeset
814 },
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diff changeset
815 "HideDatasetActionoutput_extended_psm": {
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galaxyp
parents:
diff changeset
816 "action_arguments": {},
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galaxyp
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diff changeset
817 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
818 "output_name": "output_extended_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
819 },
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galaxyp
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diff changeset
820 "HideDatasetActionoutput_hierarchical": {
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galaxyp
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diff changeset
821 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
822 "action_type": "HideDatasetAction",
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galaxyp
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diff changeset
823 "output_name": "output_hierarchical"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
824 },
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galaxyp
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diff changeset
825 "HideDatasetActionoutput_peptides": {
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galaxyp
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diff changeset
826 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
827 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
828 "output_name": "output_peptides"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
829 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
830 "HideDatasetActionoutput_peptides_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
831 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
832 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
833 "output_name": "output_peptides_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
834 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
835 "HideDatasetActionoutput_proteins_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
836 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
837 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
838 "output_name": "output_proteins_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
839 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
840 "HideDatasetActionoutput_psm_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
841 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
842 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
843 "output_name": "output_psm_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
844 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
845 "HideDatasetActionoutput_zip": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
846 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
847 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
848 "output_name": "output_zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
849 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
850 "RenameDatasetActionoutput_certificate": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
851 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
852 "newname": "PeptideShaker Summary Report: 04112012_JL_HCC827_EGFR_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
853 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
854 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
855 "output_name": "output_certificate"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
856 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
857 "RenameDatasetActionoutput_proteins": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
858 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
859 "newname": "PeptideShaker Protein Report: 04112012_JL_HCC827_EGFR_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
860 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
861 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
862 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
863 },
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galaxyp
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diff changeset
864 "RenameDatasetActionoutput_psm": {
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galaxyp
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865 "action_arguments": {
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galaxyp
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866 "newname": "PeptideShaker PSM Report: 04112012_JL_HCC827_EGFR_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
867 },
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galaxyp
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868 "action_type": "RenameDatasetAction",
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galaxyp
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869 "output_name": "output_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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870 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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873 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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874 "tool_shed_repository": {
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876 "name": "peptideshaker",
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877 "owner": "galaxyp",
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galaxyp
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878 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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879 },
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galaxyp
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diff changeset
881 "tool_version": "1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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882 "type": "tool",
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883 "uuid": "ba7821bf-c567-4fb4-803e-84608b3e3caa",
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884 "workflow_outputs": [
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galaxyp
parents:
diff changeset
885 {
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galaxyp
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galaxyp
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887 "output_name": "output_proteins",
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892 "output_name": "output_psm",
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897 "output_name": "output_certificate",
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galaxyp
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902 "14": {
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0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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906 "input_connections": {
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907 "searchgui_input": {
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galaxyp
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908 "id": 10,
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diff changeset
909 "output_name": "searchgui_results"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
910 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
911 },
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diff changeset
912 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
913 {
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galaxyp
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diff changeset
914 "description": "runtime parameter for tool Peptide Shaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
915 "name": "searchgui_input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
916 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
917 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
918 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
919 "name": "Peptide Shaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
920 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
921 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
922 "name": "mzidentML",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
923 "type": "mzid"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
924 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
925 {
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galaxyp
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diff changeset
926 "name": "output_cps",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
927 "type": "peptideshaker_archive"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
928 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
929 {
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galaxyp
parents:
diff changeset
930 "name": "output_zip",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
931 "type": "zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
932 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
933 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
934 "name": "output_certificate",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
935 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
936 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
937 {
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galaxyp
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diff changeset
938 "name": "output_hierarchical",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
939 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
940 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
941 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
942 "name": "output_psm_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
943 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
944 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
945 {
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galaxyp
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diff changeset
946 "name": "output_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
947 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
948 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
949 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
950 "name": "output_extended_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
951 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
952 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
953 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
954 "name": "output_peptides_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
955 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
956 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
957 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
958 "name": "output_peptides",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
959 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
960 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
961 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
962 "name": "output_proteins_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
963 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
964 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
965 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
966 "name": "output_proteins",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
967 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
968 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
969 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
970 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
971 "left": 905,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
972 "top": 545
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
973 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
974 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
975 "HideDatasetActionmzidentML": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
976 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
977 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
978 "output_name": "mzidentML"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
979 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
980 "HideDatasetActionoutput_cps": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
981 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
982 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
983 "output_name": "output_cps"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
984 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
985 "HideDatasetActionoutput_extended_psm": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
986 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
987 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
988 "output_name": "output_extended_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
989 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
990 "HideDatasetActionoutput_hierarchical": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
991 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
992 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
993 "output_name": "output_hierarchical"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
994 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
995 "HideDatasetActionoutput_peptides": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
996 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
997 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
998 "output_name": "output_peptides"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
999 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1000 "HideDatasetActionoutput_peptides_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1001 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1002 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1003 "output_name": "output_peptides_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1004 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1005 "HideDatasetActionoutput_proteins_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1006 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1007 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1008 "output_name": "output_proteins_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1009 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1010 "HideDatasetActionoutput_psm_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1011 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1012 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1013 "output_name": "output_psm_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1014 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1015 "HideDatasetActionoutput_zip": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1016 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1017 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1018 "output_name": "output_zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1019 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1020 "RenameDatasetActionoutput_certificate": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1021 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1022 "newname": "PeptideShaker Summary Report: 04112012_JL_HCC827_GFP_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1023 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1024 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1025 "output_name": "output_certificate"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1026 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1027 "RenameDatasetActionoutput_proteins": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1028 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1029 "newname": "PeptideShaker Protein Report: 04112012_JL_HCC827_GFP_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1030 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1031 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1032 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1033 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1034 "RenameDatasetActionoutput_psm": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1035 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1036 "newname": "PeptideShaker PSM Report: 04112012_JL_HCC827_GFP_TAP_1_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1037 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1038 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1039 "output_name": "output_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1040 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1041 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1042 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1043 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1044 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1045 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1046 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1047 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1048 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1049 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1050 "tool_state": "{\"__page__\": 0, \"processing_options\": \"{\\\"peptide_fdr\\\": \\\"5.0\\\", \\\"protein_fdr\\\": \\\"5.0\\\", \\\"protein_fraction_mw_confidence\\\": \\\"95.0\\\", \\\"ptm_score\\\": {\\\"ptm_score_selector\\\": \\\"0\\\", \\\"__current_case__\\\": 0}, \\\"ptm_alignment\\\": \\\"true\\\", \\\"__current_case__\\\": 1, \\\"processing_options_selector\\\": \\\"yes\\\", \\\"psm_fdr\\\": \\\"5.0\\\"}\", \"__rerun_remap_job_id__\": null, \"filtering_options\": \"{\\\"max_precursor_error_type\\\": \\\"1\\\", \\\"filtering_options_selector\\\": \\\"yes\\\", \\\"__current_case__\\\": 1, \\\"max_precursor_error\\\": \\\"10.0\\\", \\\"exclude_unknown_ptms\\\": \\\"true\\\", \\\"max_peptide_length\\\": \\\"75\\\", \\\"min_peptide_length\\\": \\\"6\\\"}\", \"searchgui_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"contact_options\": \"{\\\"contact_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}\", \"outputs\": \"[\\\"3\\\", \\\"7\\\", \\\"0\\\"]\", \"include_sequences\": \"\\\"false\\\"\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1051 "tool_version": "1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1052 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1053 "uuid": "bb1a7289-73ec-4c0e-bb89-0f7547483867",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1054 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1055 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1056 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1057 "output_name": "output_certificate",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1058 "uuid": "e878162e-ddc9-4751-a8a0-d80394e675e4"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1059 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1060 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1061 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1062 "output_name": "output_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1063 "uuid": "c4d742d4-41f8-4855-82b3-a417af83c170"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1064 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1065 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1066 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1067 "output_name": "output_proteins",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1068 "uuid": "1c004ba8-4ae5-49c0-90d5-adc9262f16e9"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1069 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1070 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1071 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1072 "15": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1073 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1074 "content_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1075 "id": 15,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1076 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1077 "searchgui_input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1078 "id": 11,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1079 "output_name": "searchgui_results"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1080 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1081 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1082 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1083 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1084 "description": "runtime parameter for tool Peptide Shaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1085 "name": "searchgui_input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1086 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1087 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1088 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1089 "name": "Peptide Shaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1090 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1091 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1092 "name": "mzidentML",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1093 "type": "mzid"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1094 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1095 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1096 "name": "output_cps",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1097 "type": "peptideshaker_archive"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1098 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1099 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1100 "name": "output_zip",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1101 "type": "zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1102 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1103 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1104 "name": "output_certificate",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1105 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1106 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1107 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1108 "name": "output_hierarchical",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1109 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1110 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1111 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1112 "name": "output_psm_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1113 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1114 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1115 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1116 "name": "output_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1117 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1118 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1119 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1120 "name": "output_extended_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1121 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1122 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1123 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1124 "name": "output_peptides_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1125 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1126 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1127 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1128 "name": "output_peptides",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1129 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1130 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1131 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1132 "name": "output_proteins_phosphorylation",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1133 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1134 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1135 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1136 "name": "output_proteins",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1137 "type": "tabular"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1138 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1139 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1140 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1141 "left": 873,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1142 "top": 829
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1143 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1144 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1145 "HideDatasetActionmzidentML": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1146 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1147 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1148 "output_name": "mzidentML"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1149 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1150 "HideDatasetActionoutput_cps": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1151 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1152 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1153 "output_name": "output_cps"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1154 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1155 "HideDatasetActionoutput_extended_psm": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1156 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1157 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1158 "output_name": "output_extended_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1159 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1160 "HideDatasetActionoutput_hierarchical": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1161 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1162 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1163 "output_name": "output_hierarchical"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1164 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1165 "HideDatasetActionoutput_peptides": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1166 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1167 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1168 "output_name": "output_peptides"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1169 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1170 "HideDatasetActionoutput_peptides_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1171 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1172 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1173 "output_name": "output_peptides_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1174 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1175 "HideDatasetActionoutput_proteins_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1176 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1177 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1178 "output_name": "output_proteins_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1179 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1180 "HideDatasetActionoutput_psm_phosphorylation": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1181 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1182 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1183 "output_name": "output_psm_phosphorylation"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1184 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1185 "HideDatasetActionoutput_zip": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1186 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1187 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1188 "output_name": "output_zip"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1189 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1190 "RenameDatasetActionoutput_certificate": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1191 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1192 "newname": "PeptideShaker Summary Report: 04112012_JL_HCC827_GFP_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1193 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1194 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1195 "output_name": "output_certificate"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1196 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1197 "RenameDatasetActionoutput_proteins": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1198 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1199 "newname": "PeptideShaker Protein Report: 04112012_JL_HCC827_GFP_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1200 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1201 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1202 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1203 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1204 "RenameDatasetActionoutput_psm": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1205 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1206 "newname": "PeptideShaker PSM Report: 04112012_JL_HCC827_GFP_TAP_2_run1"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1207 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1208 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1209 "output_name": "output_psm"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1210 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1211 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1212 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1213 "tool_id": "toolshed.g2.bx.psu.edu/repos/galaxyp/peptideshaker/peptide_shaker/1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1214 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1215 "changeset_revision": "7f2aeb19650f",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1216 "name": "peptideshaker",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1217 "owner": "galaxyp",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1218 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1219 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1220 "tool_state": "{\"__page__\": 0, \"processing_options\": \"{\\\"peptide_fdr\\\": \\\"5.0\\\", \\\"protein_fdr\\\": \\\"5.0\\\", \\\"protein_fraction_mw_confidence\\\": \\\"95.0\\\", \\\"ptm_score\\\": {\\\"ptm_score_selector\\\": \\\"0\\\", \\\"__current_case__\\\": 0}, \\\"ptm_alignment\\\": \\\"true\\\", \\\"__current_case__\\\": 1, \\\"processing_options_selector\\\": \\\"yes\\\", \\\"psm_fdr\\\": \\\"5.0\\\"}\", \"__rerun_remap_job_id__\": null, \"filtering_options\": \"{\\\"max_precursor_error_type\\\": \\\"1\\\", \\\"filtering_options_selector\\\": \\\"yes\\\", \\\"__current_case__\\\": 1, \\\"max_precursor_error\\\": \\\"10.0\\\", \\\"exclude_unknown_ptms\\\": \\\"true\\\", \\\"max_peptide_length\\\": \\\"75\\\", \\\"min_peptide_length\\\": \\\"6\\\"}\", \"searchgui_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"contact_options\": \"{\\\"contact_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 0}\", \"outputs\": \"[\\\"3\\\", \\\"7\\\", \\\"0\\\"]\", \"include_sequences\": \"\\\"false\\\"\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1221 "tool_version": "1.16.3",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1222 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1223 "uuid": "54bba191-2325-4beb-b13b-fbfc54248145",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1224 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1225 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1226 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1227 "output_name": "output_certificate",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1228 "uuid": "fd4adacf-fc64-49b3-97fc-283eb89b6fd6"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1229 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1230 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1231 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1232 "output_name": "output_psm",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1233 "uuid": "20ffbbba-4caa-4ccd-8805-6e3183296ed9"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1234 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1235 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1236 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1237 "output_name": "output_proteins",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1238 "uuid": "7afcb5c6-2bcf-4d3e-a158-7eb9ac76cf1c"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1239 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1240 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1241 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1242 "16": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1243 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1244 "content_id": "toolshed.g2.bx.psu.edu/repos/bornea/saint_preprocessing/SAINT_preprocessing_v6/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1245 "id": 16,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1246 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1247 "type_select|bait_file_in": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1248 "id": 6,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1249 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1250 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1251 "type_select|fasta_db": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1252 "id": 7,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1253 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1254 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1255 "type_select|protein_inputs_0|protein_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1256 "id": 15,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1257 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1258 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1259 "type_select|protein_inputs_1|protein_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1260 "id": 14,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1261 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1262 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1263 "type_select|protein_inputs_2|protein_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1264 "id": 13,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1265 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1266 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1267 "type_select|protein_inputs_3|protein_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1268 "id": 12,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1269 "output_name": "output_proteins"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1270 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1271 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1272 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1273 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1274 "description": "runtime parameter for tool SAINT pre-processing",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1275 "name": "type_select"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1276 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1277 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1278 "description": "runtime parameter for tool SAINT pre-processing",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1279 "name": "type_select"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1280 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1281 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1282 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1283 "name": "SAINT pre-processing",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1284 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1285 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1286 "name": "Inter_file",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1287 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1288 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1289 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1290 "name": "Prey_file",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1291 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1292 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1293 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1294 "name": "Bait_file",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1295 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1296 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1297 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1298 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1299 "left": 1412.5,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1300 "top": 394
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1301 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1302 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1303 "HideDatasetActionBait_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1304 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1305 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1306 "output_name": "Bait_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1307 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1308 "HideDatasetActionInter_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1309 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1310 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1311 "output_name": "Inter_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1312 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1313 "HideDatasetActionPrey_file": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1314 "action_arguments": {},
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1315 "action_type": "HideDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1316 "output_name": "Prey_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1317 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1318 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1319 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1320 "tool_id": "toolshed.g2.bx.psu.edu/repos/bornea/saint_preprocessing/SAINT_preprocessing_v6/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1321 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1322 "changeset_revision": "6ad498eac0e2",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1323 "name": "saint_preprocessing",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1324 "owner": "bornea",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1325 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1326 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1327 "tool_state": "{\"bait\": \"[]\", \"__rerun_remap_job_id__\": null, \"type_select\": \"{\\\"protein_inputs\\\": [{\\\"__index__\\\": 0, \\\"protein_file\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"__index__\\\": 1, \\\"protein_file\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"__index__\\\": 2, \\\"protein_file\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}, {\\\"__index__\\\": 3, \\\"protein_file\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}}], \\\"preybool\\\": \\\"true\\\", \\\"fasta_db\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"bait_file_in\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"bait_bool\\\": \\\"true\\\", \\\"__current_case__\\\": 3, \\\"use_metric\\\": \\\"Validated_Peptides\\\", \\\"type\\\": \\\"Peptideshaker_ordered_input\\\"}\", \"__page__\": 0}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1328 "tool_version": "1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1329 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1330 "uuid": "7504f5ce-684d-46f6-bc00-d4b8eaf87b3a",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1331 "workflow_outputs": []
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1332 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1333 "17": {
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galaxyp
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diff changeset
1334 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1335 "content_id": "toolshed.g2.bx.psu.edu/repos/bornea/query_crapome/CRAPomeQuery/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1336 "id": 17,
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galaxyp
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diff changeset
1337 "input_connections": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1338 "fasta_db": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1339 "id": 7,
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galaxyp
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diff changeset
1340 "output_name": "output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1341 },
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galaxyp
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diff changeset
1342 "input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1343 "id": 16,
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galaxyp
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diff changeset
1344 "output_name": "Prey_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1345 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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1346 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1347 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1348 {
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galaxyp
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diff changeset
1349 "description": "runtime parameter for tool Query CRAPome",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1350 "name": "input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1351 },
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galaxyp
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diff changeset
1352 {
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galaxyp
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diff changeset
1353 "description": "runtime parameter for tool Query CRAPome",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1354 "name": "fasta_db"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1355 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1356 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1357 "label": null,
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galaxyp
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diff changeset
1358 "name": "Query CRAPome",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1359 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1360 {
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galaxyp
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diff changeset
1361 "name": "CrapomeFile",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1362 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1363 }
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galaxyp
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diff changeset
1364 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1365 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1366 "left": 1267,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1367 "top": 723
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galaxyp
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diff changeset
1368 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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diff changeset
1369 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1370 "RenameDatasetActionCrapomeFile": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1371 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1372 "newname": "CRAPome File Output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1373 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1374 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1375 "output_name": "CrapomeFile"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1376 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1377 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1378 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1379 "tool_id": "toolshed.g2.bx.psu.edu/repos/bornea/query_crapome/CRAPomeQuery/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1380 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1381 "changeset_revision": "f1459638e1bc",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1382 "name": "query_crapome",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1383 "owner": "bornea",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1384 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1385 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1386 "tool_state": "{\"input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"__rerun_remap_job_id__\": null, \"fasta_db\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"species\": \"\\\"HUMAN\\\"\", \"__page__\": 0}",
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galaxyp
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diff changeset
1387 "tool_version": "1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1388 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1389 "uuid": "16096e29-d534-4a6d-9627-e7e287798c71",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1390 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1391 {
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galaxyp
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diff changeset
1392 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1393 "output_name": "CrapomeFile",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1394 "uuid": "1f90a8ba-22ee-45c4-9018-98a153162583"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1395 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1396 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
1397 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1398 "18": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1399 "annotation": "",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1400 "content_id": "toolshed.g2.bx.psu.edu/repos/bornea/saintexpress/saint_wrapper/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1401 "id": 18,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1402 "input_connections": {
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galaxyp
parents:
diff changeset
1403 "bait_input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1404 "id": 16,
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galaxyp
parents:
diff changeset
1405 "output_name": "Bait_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1406 },
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galaxyp
parents:
diff changeset
1407 "inter_input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1408 "id": 16,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1409 "output_name": "Inter_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1410 },
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galaxyp
parents:
diff changeset
1411 "prey_input": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1412 "id": 16,
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galaxyp
parents:
diff changeset
1413 "output_name": "Prey_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1414 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
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diff changeset
1415 },
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galaxyp
parents:
diff changeset
1416 "inputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1417 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1418 "description": "runtime parameter for tool SAINTexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1419 "name": "go_file"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1420 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1421 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1422 "description": "runtime parameter for tool SAINTexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1423 "name": "bait_input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1424 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1425 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1426 "description": "runtime parameter for tool SAINTexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1427 "name": "inter_input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1428 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1429 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1430 "description": "runtime parameter for tool SAINTexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1431 "name": "prey_input"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1432 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1433 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1434 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1435 "name": "SAINTexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1436 "outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1437 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1438 "name": "SAINT_output",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1439 "type": "txt"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1440 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1441 ],
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1442 "position": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1443 "left": 1763.5,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1444 "top": 524
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1445 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1446 "post_job_actions": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1447 "RenameDatasetActionSAINT_output": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1448 "action_arguments": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1449 "newname": "SAINT Output File"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1450 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1451 "action_type": "RenameDatasetAction",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1452 "output_name": "SAINT_output"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1453 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1454 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1455 "tool_errors": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1456 "tool_id": "toolshed.g2.bx.psu.edu/repos/bornea/saintexpress/saint_wrapper/1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1457 "tool_shed_repository": {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1458 "changeset_revision": "67631a640534",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1459 "name": "saintexpress",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1460 "owner": "bornea",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1461 "tool_shed": "toolshed.g2.bx.psu.edu"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1462 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1463 "tool_state": "{\"rep_num\": \"\\\"100\\\"\", \"__page__\": 0, \"go_file\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"__rerun_remap_job_id__\": null, \"bait_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"vc_bool\": \"\\\"false\\\"\", \"inter_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"go_bool\": \"\\\"false\\\"\", \"prey_input\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"vc_num\": \"\\\"1\\\"\"}",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1464 "tool_version": "1.0.0",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1465 "type": "tool",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1466 "uuid": "86e2c9ce-be72-496b-84c2-7e3027d0187e",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1467 "workflow_outputs": [
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1468 {
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1469 "label": null,
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1470 "output_name": "SAINT_output",
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1471 "uuid": "f4c612f6-d132-444f-9474-f95f7b968382"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1472 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
1473 ]
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
1474 }
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1475 },
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
galaxyp
parents:
diff changeset
1476 "uuid": "4f118197-8eee-42d5-ba46-3abfcb3f127b"
0b6e9cc279fc planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/workflows/apostl commit 79aa418c07e54b5f152681452767f7c8a40379b6
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parents:
diff changeset
1477 }