Mercurial > repos > drosofff > metavisitor_workflows
annotate Galaxy-Workflow-Metavisitor__Workflow_for_remapping_in_Use_Cases_2-1,2.ga @ 4:46614c7dd247 draft
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit 3db1fee84ce9679a358ea55630cac47a16256a30
author | drosofff |
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date | Sun, 16 Apr 2017 19:14:41 -0400 |
parents | ba15c770fd40 |
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rev | line source |
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4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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1 { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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2 "a_galaxy_workflow": "true", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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3 "annotation": "", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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4 "format-version": "0.1", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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5 "name": "Metavisitor: Workflow for remapping in Use Cases 2-1,2", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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6 "steps": { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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7 "0": { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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8 "annotation": "", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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9 "content_id": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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10 "id": 0, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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11 "input_connections": {}, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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12 "inputs": [ |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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13 { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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14 "description": "", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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15 "name": "Small Read fastq files" |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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16 } |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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17 ], |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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18 "label": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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19 "name": "Input dataset collection", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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20 "outputs": [], |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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21 "position": { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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22 "left": 199.53128051757812, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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23 "top": 207.51737785339355 |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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24 }, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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25 "tool_errors": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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26 "tool_id": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
drosofff
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27 "tool_state": "{\"collection_type\": \"list\", \"name\": \"Small Read fastq files\"}", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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28 "tool_version": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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29 "type": "data_collection_input", |
2
48b020a0d2f7
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit d5feabb3309f2da09ba15b5fe818d0a7b30f3266
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30 "uuid": "35d6ef0f-98d0-439a-aef4-3d4d2c85e309", |
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4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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31 "workflow_outputs": [ |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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32 { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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33 "label": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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34 "output_name": "output", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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35 "uuid": "bb3f50ae-6b7e-413f-bc2f-e86b8df2296b" |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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36 } |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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37 ] |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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38 }, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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39 "1": { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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40 "annotation": "", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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41 "content_id": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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42 "id": 1, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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43 "input_connections": {}, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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44 "inputs": [ |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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45 { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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46 "description": "", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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47 "name": "AnCV genome" |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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48 } |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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49 ], |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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50 "label": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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51 "name": "Input dataset", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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52 "outputs": [], |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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53 "position": { |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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54 "left": 639.982666015625, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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55 "top": 510.98963737487793 |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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56 }, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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57 "tool_errors": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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58 "tool_id": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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59 "tool_state": "{\"name\": \"AnCV genome\"}", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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60 "tool_version": null, |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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61 "type": "data_input", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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62 "uuid": "5551b3da-5866-4474-8bc2-0f8dfea29902", |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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63 "workflow_outputs": [ |
4a47903bb4df
planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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64 { |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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65 "label": null, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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66 "output_name": "output", |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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67 "uuid": "b0f79ec9-f874-48d0-b665-2867dfbf76ac" |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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68 } |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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69 ] |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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70 }, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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71 "2": { |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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72 "annotation": "", |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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73 "content_id": "toolshed.g2.bx.psu.edu/repos/drosofff/yac_clipper/yac/1.3.6", |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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74 "id": 2, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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75 "input_connections": { |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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76 "input": { |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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77 "id": 0, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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78 "output_name": "output" |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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79 } |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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80 }, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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81 "inputs": [], |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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82 "label": null, |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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83 "name": "Clip adapter", |
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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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84 "outputs": [ |
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85 { |
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86 "name": "output", |
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87 "type": "fasta" |
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88 } |
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89 ], |
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90 "position": { |
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91 "left": 387.51739501953125, |
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92 "top": 324.53126335144043 |
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93 }, |
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94 "post_job_actions": { |
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95 "HideDatasetActionoutput": { |
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96 "action_arguments": {}, |
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97 "action_type": "HideDatasetAction", |
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98 "output_name": "output" |
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99 } |
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100 }, |
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101 "tool_errors": null, |
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102 "tool_id": "toolshed.g2.bx.psu.edu/repos/drosofff/yac_clipper/yac/1.3.6", |
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103 "tool_shed_repository": { |
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104 "changeset_revision": "91cce7c1436d", |
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105 "name": "yac_clipper", |
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106 "owner": "drosofff", |
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107 "tool_shed": "toolshed.g2.bx.psu.edu" |
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108 }, |
0
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109 "tool_state": "{\"out_format\": \"\\\"fasta\\\"\", \"__page__\": 0, \"min\": \"\\\"18\\\"\", \"max\": \"\\\"30\\\"\", \"__rerun_remap_job_id__\": null, \"clip_source\": \"{\\\"clip_source_list\\\": \\\"prebuilt\\\", \\\"clip_sequence\\\": \\\"TGGAATTCTCGGGTGCCAAG\\\", \\\"__current_case__\\\": 0}\", \"input\": \"null\", \"Nmode\": \"\\\"reject\\\"\"}", |
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110 "tool_version": "1.3.6", |
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111 "type": "tool", |
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112 "uuid": "4d773707-d5ed-48c2-b9d2-334f32e2e1f7", |
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113 "workflow_outputs": [] |
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114 }, |
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115 "3": { |
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116 "annotation": "", |
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117 "content_id": "toolshed.g2.bx.psu.edu/repos/mvdbeek/concatenate_multiple_datasets/cat_multiple/0.2", |
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118 "id": 3, |
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119 "input_connections": { |
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120 "input": { |
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121 "id": 2, |
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122 "output_name": "output" |
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123 } |
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124 }, |
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125 "inputs": [], |
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126 "label": null, |
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127 "name": "Concatenate multiple datasets", |
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128 "outputs": [ |
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129 { |
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130 "name": "out_file1", |
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131 "type": "input" |
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132 } |
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133 ], |
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134 "position": { |
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135 "left": 552.5173950195312, |
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136 "top": 226.5451488494873 |
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137 }, |
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138 "post_job_actions": { |
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139 "ChangeDatatypeActionout_file1": { |
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140 "action_arguments": { |
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141 "newtype": "fasta" |
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142 }, |
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143 "action_type": "ChangeDatatypeAction", |
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144 "output_name": "out_file1" |
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145 }, |
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146 "HideDatasetActionout_file1": { |
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147 "action_arguments": {}, |
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148 "action_type": "HideDatasetAction", |
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149 "output_name": "out_file1" |
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150 }, |
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151 "RenameDatasetActionout_file1": { |
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152 "action_arguments": { |
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153 "newname": "clipped Reads" |
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154 }, |
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155 "action_type": "RenameDatasetAction", |
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156 "output_name": "out_file1" |
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157 } |
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158 }, |
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159 "tool_errors": null, |
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160 "tool_id": "toolshed.g2.bx.psu.edu/repos/mvdbeek/concatenate_multiple_datasets/cat_multiple/0.2", |
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161 "tool_shed_repository": { |
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162 "changeset_revision": "201c568972c3", |
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163 "name": "concatenate_multiple_datasets", |
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164 "owner": "mvdbeek", |
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165 "tool_shed": "toolshed.g2.bx.psu.edu" |
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166 }, |
0
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167 "tool_state": "{\"input\": \"null\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", |
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168 "tool_version": "0.2", |
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169 "type": "tool", |
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170 "uuid": "c1d6a090-fc9b-4957-a952-4241216e082a", |
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171 "workflow_outputs": [] |
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172 }, |
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173 "4": { |
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174 "annotation": "", |
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175 "content_id": "toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_bowtie/bowtieForSmallRNA/1.1.2.1", |
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176 "id": 4, |
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177 "input_connections": { |
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178 "input": { |
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179 "id": 3, |
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180 "output_name": "out_file1" |
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181 }, |
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182 "refGenomeSource|ownFile": { |
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183 "id": 1, |
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184 "output_name": "output" |
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185 } |
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186 }, |
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187 "inputs": [], |
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188 "label": null, |
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189 "name": "sRbowtie", |
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190 "outputs": [ |
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191 { |
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192 "name": "output", |
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193 "type": "tabular" |
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194 }, |
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195 { |
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196 "name": "aligned", |
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197 "type": "fasta" |
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198 }, |
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199 { |
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200 "name": "unaligned", |
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201 "type": "fasta" |
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202 } |
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203 ], |
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204 "position": { |
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205 "left": 846.545166015625, |
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206 "top": 264.53126335144043 |
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207 }, |
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208 "post_job_actions": { |
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209 "HideDatasetActionaligned": { |
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210 "action_arguments": {}, |
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211 "action_type": "HideDatasetAction", |
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212 "output_name": "aligned" |
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213 }, |
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214 "HideDatasetActionoutput": { |
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215 "action_arguments": {}, |
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216 "action_type": "HideDatasetAction", |
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217 "output_name": "output" |
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218 }, |
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219 "HideDatasetActionunaligned": { |
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220 "action_arguments": {}, |
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221 "action_type": "HideDatasetAction", |
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222 "output_name": "unaligned" |
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223 } |
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224 }, |
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225 "tool_errors": null, |
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226 "tool_id": "toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_bowtie/bowtieForSmallRNA/1.1.2.1", |
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227 "tool_shed_repository": { |
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228 "changeset_revision": "615d2550977f", |
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229 "name": "msp_sr_bowtie", |
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230 "owner": "drosofff", |
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231 "tool_shed": "toolshed.g2.bx.psu.edu" |
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232 }, |
0
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233 "tool_state": "{\"__page__\": 0, \"output_format\": \"\\\"tabular\\\"\", \"additional_fasta\": \"\\\"No\\\"\", \"v_mismatches\": \"\\\"0\\\"\", \"__rerun_remap_job_id__\": null, \"input\": \"null\", \"refGenomeSource\": \"{\\\"genomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"method\": \"\\\"multiple\\\"\"}", |
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234 "tool_version": "1.1.2.1", |
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235 "type": "tool", |
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236 "uuid": "7c3b7910-0490-4b69-ad32-c4ab81d01046", |
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237 "workflow_outputs": [] |
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238 }, |
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239 "5": { |
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240 "annotation": "", |
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241 "content_id": "wc_gnu", |
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242 "id": 5, |
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243 "input_connections": { |
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244 "input1": { |
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245 "id": 4, |
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246 "output_name": "output" |
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247 } |
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248 }, |
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249 "inputs": [], |
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250 "label": null, |
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251 "name": "Line/Word/Character count", |
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252 "outputs": [ |
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253 { |
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254 "name": "out_file1", |
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255 "type": "tabular" |
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256 } |
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257 ], |
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258 "position": { |
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259 "left": 1215.5208740234375, |
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260 "top": 298.52430534362793 |
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261 }, |
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262 "post_job_actions": { |
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263 "RenameDatasetActionout_file1": { |
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264 "action_arguments": { |
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265 "newname": "nbre of remapped reads" |
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266 }, |
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267 "action_type": "RenameDatasetAction", |
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268 "output_name": "out_file1" |
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269 } |
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270 }, |
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271 "tool_errors": null, |
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272 "tool_id": "wc_gnu", |
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273 "tool_state": "{\"__page__\": 0, \"include_header\": \"\\\"true\\\"\", \"input1\": \"null\", \"options\": \"[\\\"lines\\\"]\", \"__rerun_remap_job_id__\": null}", |
0
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274 "tool_version": "1.0.0", |
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275 "type": "tool", |
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276 "uuid": "5967713a-0548-48b9-a675-227ad48b420c", |
0
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277 "workflow_outputs": [ |
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278 { |
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279 "label": null, |
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280 "output_name": "out_file1", |
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281 "uuid": "7545c393-0ac1-4c52-b1ba-b34c2ed5462f" |
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282 } |
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283 ] |
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284 }, |
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285 "6": { |
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286 "annotation": "", |
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287 "content_id": "toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_readmap_and_size_histograms/Readmap/1.2.0", |
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288 "id": 6, |
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289 "input_connections": { |
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290 "refGenomeSource|ownFile": { |
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291 "id": 1, |
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292 "output_name": "output" |
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293 }, |
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294 "refGenomeSource|series_0|input": { |
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295 "id": 4, |
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296 "output_name": "output" |
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297 } |
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298 }, |
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299 "inputs": [], |
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300 "label": null, |
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301 "name": "Generate readmap and histograms from alignment files", |
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302 "outputs": [ |
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303 { |
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304 "name": "readmap_dataframe", |
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305 "type": "tabular" |
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306 }, |
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307 { |
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308 "name": "size_distribution_dataframe", |
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309 "type": "tabular" |
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310 }, |
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311 { |
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312 "name": "readmap_PDF", |
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313 "type": "pdf" |
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314 }, |
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315 { |
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316 "name": "size_PDF", |
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317 "type": "pdf" |
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318 }, |
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319 { |
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320 "name": "combi_PDF", |
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321 "type": "pdf" |
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322 } |
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323 ], |
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324 "position": { |
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325 "left": 1204.49658203125, |
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326 "top": 412.98612785339355 |
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327 }, |
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328 "post_job_actions": { |
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329 "HideDatasetActionreadmap_dataframe": { |
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330 "action_arguments": {}, |
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331 "action_type": "HideDatasetAction", |
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332 "output_name": "readmap_dataframe" |
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333 }, |
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334 "HideDatasetActionsize_distribution_dataframe": { |
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335 "action_arguments": {}, |
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336 "action_type": "HideDatasetAction", |
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337 "output_name": "size_distribution_dataframe" |
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338 } |
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339 }, |
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340 "tool_errors": null, |
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341 "tool_id": "toolshed.g2.bx.psu.edu/repos/drosofff/msp_sr_readmap_and_size_histograms/Readmap/1.2.0", |
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342 "tool_shed_repository": { |
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343 "changeset_revision": "92898cc3ea19", |
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344 "name": "msp_sr_readmap_and_size_histograms", |
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345 "owner": "drosofff", |
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346 "tool_shed": "toolshed.g2.bx.psu.edu" |
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347 }, |
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348 "tool_state": "{\"minquery\": \"\\\"18\\\"\", \"__page__\": 0, \"rows_per_page\": \"\\\"8\\\"\", \"yrange\": \"\\\"0\\\"\", \"title\": \"\\\"Readmaps and size distributions\\\"\", \"refGenomeSource\": \"{\\\"genomeSource\\\": \\\"history\\\", \\\"series\\\": [{\\\"__index__\\\": 0, \\\"norm\\\": \\\"1.0\\\", \\\"input\\\": null}], \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__rerun_remap_job_id__\": null, \"maxquery\": \"\\\"30\\\"\", \"xlabel\": \"\\\"Coordinates/read size\\\"\", \"ylabel\": \"\\\"Number of reads\\\"\", \"gff\": \"null\"}", |
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349 "tool_version": "1.2.0", |
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350 "type": "tool", |
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351 "uuid": "ebaf90ab-b8ea-428f-876c-8f9fabd1fbf9", |
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352 "workflow_outputs": [ |
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353 { |
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354 "label": null, |
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355 "output_name": "size_PDF", |
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356 "uuid": "28a51c7e-58d9-4728-8ac0-04d252cd5943" |
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357 }, |
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358 { |
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359 "label": null, |
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360 "output_name": "combi_PDF", |
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361 "uuid": "f9aaace3-8bdb-4b83-a40b-d6d9a26fd345" |
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362 }, |
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363 { |
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364 "label": null, |
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365 "output_name": "readmap_PDF", |
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366 "uuid": "ad51fc18-9cdf-4068-bbee-269801cdbde3" |
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367 } |
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368 ] |
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369 } |
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370 }, |
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371 "uuid": "e670f707-78ad-4128-8549-8a210c7dcbf1" |
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372 } |