Jbrowse.ga

{
    "a_galaxy_workflow": "true",
    "annotation": "",
    "format-version": "0.1",
    "name": "Jbrowse",
    "steps": {
        "0": {
            "annotation": "",
            "content_id": null,
            "errors": null,
            "id": 0,
            "input_connections": {},
            "inputs": [],
            "label": null,
            "name": "Input dataset",
            "outputs": [],
            "position": {
                "left": 200,
                "top": 200
            },
            "tool_id": null,
            "tool_state": "{\"optional\": false}",
            "tool_version": null,
            "type": "data_input",
            "uuid": "751caac1-d015-4d77-8a68-2c3debae0caf",
            "workflow_outputs": [
                {
                    "label": null,
                    "output_name": "output",
                    "uuid": "c4a08da4-366c-4b48-b9e0-b382a5b3e6bc"
                }
            ]
        },
        "1": {
            "annotation": "",
            "content_id": null,
            "errors": null,
            "id": 1,
            "input_connections": {},
            "inputs": [],
            "label": null,
            "name": "Input dataset",
            "outputs": [],
            "position": {
                "left": 200,
                "top": 290
            },
            "tool_id": null,
            "tool_state": "{\"optional\": false}",
            "tool_version": null,
            "type": "data_input",
            "uuid": "5cb81c38-64fe-4bdc-9043-bd862bdefc6d",
            "workflow_outputs": [
                {
                    "label": null,
                    "output_name": "output",
                    "uuid": "a4dce244-cea0-4458-8f49-876762de565b"
                }
            ]
        },
        "2": {
            "annotation": "",
            "content_id": "toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.10+galaxy0",
            "errors": null,
            "id": 2,
            "input_connections": {
                "reference_genome|genome": {
                    "id": 0,
                    "output_name": "output"
                },
                "track_groups_0|data_tracks_0|data_format|annotation": {
                    "id": 1,
                    "output_name": "output"
                }
            },
            "inputs": [
                {
                    "description": "runtime parameter for tool JBrowse",
                    "name": "reference_genome"
                }
            ],
            "label": null,
            "name": "JBrowse",
            "outputs": [
                {
                    "name": "output",
                    "type": "html"
                }
            ],
            "position": {
                "left": 486,
                "top": 200
            },
            "post_job_actions": {},
            "tool_id": "toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.10+galaxy0",
            "tool_shed_repository": {
                "changeset_revision": "8774b28235bb",
                "name": "jbrowse",
                "owner": "iuc",
                "tool_shed": "toolshed.g2.bx.psu.edu"
            },
            "tool_state": "{\"action\": {\"action_select\": \"create\", \"__current_case__\": 0}, \"gencode\": \"1\", \"jbgen\": {\"defaultLocation\": \"test\", \"trackPadding\": \"20\", \"shareLink\": \"true\", \"aboutDescription\": \"test\", \"show_tracklist\": \"true\", \"show_nav\": \"true\", \"show_overview\": \"true\", \"show_menu\": \"true\", \"hideGenomeOptions\": \"false\"}, \"plugins\": {\"BlastView\": \"true\", \"ComboTrackSelector\": \"false\", \"GCContent\": \"false\"}, \"reference_genome\": {\"genome_type_select\": \"history\", \"__current_case__\": 1, \"genome\": {\"__class__\": \"RuntimeValue\"}}, \"standalone\": \"minimal\", \"track_groups\": [{\"__index__\": 0, \"category\": \"Annotation\", \"data_tracks\": [{\"__index__\": 0, \"data_format\": {\"data_format_select\": \"gene_calls\", \"__current_case__\": 2, \"annotation\": {\"__class__\": \"RuntimeValue\"}, \"match_part\": {\"match_part_select\": \"false\", \"__current_case__\": 1}, \"index\": \"false\", \"track_config\": {\"track_class\": \"NeatHTMLFeatures/View/Track/NeatFeatures\", \"__current_case__\": 3, \"html_options\": {\"topLevelFeatures\": \"mRNA\"}}, \"jbstyle\": {\"style_classname\": \"transcript\", \"style_label\": \"product,name,id\", \"style_description\": \"note,description\", \"style_height\": \"10px\", \"max_height\": \"600\"}, \"jbcolor_scale\": {\"color_score\": {\"color_score_select\": \"none\", \"__current_case__\": 0, \"color\": {\"color_select\": \"automatic\", \"__current_case__\": 0}}}, \"jb_custom_config\": {\"option\": []}, \"jbmenu\": {\"track_menu\": [{\"__index__\": 0, \"menu_action\": \"iframeDialog\", \"menu_label\": \"View transcript report\", \"menu_title\": \"Transcript {id}\", \"menu_url\": \"__MENU_URL__\", \"menu_icon\": \"dijitIconBookmark\"}]}, \"track_visibility\": \"default_off\", \"override_apollo_plugins\": \"False\", \"override_apollo_drag\": \"False\"}}]}], \"uglyTestingHack\": \"\", \"__page__\": null, \"__rerun_remap_job_id__\": null}",
            "tool_version": "1.16.10+galaxy0",
            "type": "tool",
            "uuid": "ba7d15fd-8ffd-407d-9a45-47cd4be68bd2",
            "workflow_outputs": [
                {
                    "label": null,
                    "output_name": "output",
                    "uuid": "519355d7-82cc-47f0-a96c-3ee0e39aa7df"
                }
            ]
        },
        "3": {
            "annotation": "",
            "content_id": "toolshed.g2.bx.psu.edu/repos/gga/jbrowse_to_container/jbrowse_to_container/0.5.1",
            "errors": null,
            "id": 3,
            "input_connections": {
                "organisms_0|jbrowse": {
                    "id": 2,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "label": null,
            "name": "Add organisms to JBrowse container",
            "outputs": [
                {
                    "name": "output",
                    "type": "html"
                }
            ],
            "position": {
                "left": 772,
                "top": 200
            },
            "post_job_actions": {},
            "tool_id": "toolshed.g2.bx.psu.edu/repos/gga/jbrowse_to_container/jbrowse_to_container/0.5.1",
            "tool_shed_repository": {
                "changeset_revision": "11033bdad2ca",
                "name": "jbrowse_to_container",
                "owner": "gga",
                "tool_shed": "toolshed.g2.bx.psu.edu"
            },
            "tool_state": "{\"organisms\": [{\"__index__\": 0, \"jbrowse\": {\"__class__\": \"RuntimeValue\"}, \"name\": \"__FULL_NAME__\", \"advanced\": {\"unique_id\": \"__UNIQUE_ID__\"}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}",
            "tool_version": "0.5.1",
            "type": "tool",
            "uuid": "1cf25ca3-2287-4b82-9e93-b8828eed70a2",
            "workflow_outputs": [
                {
                    "label": null,
                    "output_name": "output",
                    "uuid": "f78c7496-18a9-4c47-ad7f-a3ac31456749"
                }
            ]
        }
    },
    "tags": [],
    "uuid": "639ceed7-d4f9-456f-b5f3-5cd2cc65ddca",
    "version": 1
}