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Include toolshed tool in test workflow
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@mvdbeek
mvdbeek committed Feb 7, 2023
1 parent a91e572 commit 5362f82
Showing 1 changed file with 45 additions and 82 deletions.
127 changes: 45 additions & 82 deletions test/workflows/example4/tutorial.ga
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Original file line number Diff line number Diff line change
Expand Up @@ -2,7 +2,7 @@
"a_galaxy_workflow": "true",
"annotation": "",
"format-version": "0.1",
"name": "planemo run tutorial",
"name": "planemo run tutorial (imported from uploaded file)",
"steps": {
"0": {
"annotation": "",
Expand All @@ -20,27 +20,16 @@
"name": "Input dataset",
"outputs": [],
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"tool_id": null,
"tool_state": "{\"optional\": false}",
"tool_state": "{\"optional\": false, \"tag\": null}",
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"type": "data_input",
"uuid": "004a6ce7-a8f3-4a54-b513-e1456a3695e8",
"workflow_outputs": [
{
"label": "Dataset 2",
"output_name": "output",
"uuid": "05042d8c-8f06-4646-81ba-1f4ffb858ad3"
}
]
"when": null,
"workflow_outputs": []
},
"1": {
"annotation": "",
Expand All @@ -58,27 +47,16 @@
"name": "Input dataset",
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"tool_state": "{\"optional\": false}",
"tool_state": "{\"optional\": false, \"tag\": null}",
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"type": "data_input",
"uuid": "b42b2137-033e-4e7e-849e-21def05f4a70",
"workflow_outputs": [
{
"label": "Dataset 1",
"output_name": "output",
"uuid": "8c0a8c18-74d3-43c5-b3fa-8d1a3a4721b6"
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"2": {
"annotation": "",
Expand All @@ -96,38 +74,38 @@
"name": "Input parameter",
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"tool_state": "{\"parameter_type\": \"integer\", \"optional\": false}",
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"3": {
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"content_id": "cat1",
"content_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/0.1.1",
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"id": 3,
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"inputs": [],
"inputs": [
{
"description": "runtime parameter for tool Concatenate datasets",
"name": "inputs"
}
],
"label": null,
"name": "Concatenate datasets",
"outputs": [
Expand All @@ -137,28 +115,23 @@
}
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"tool_state": "{\"input1\": {\"__class__\": \"ConnectedValue\"}, \"queries\": [{\"__index__\": 0, \"input2\": {\"__class__\": \"ConnectedValue\"}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "1.0.0",
"tool_id": "toolshed.g2.bx.psu.edu/repos/bgruening/text_processing/tp_cat/0.1.1",
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"changeset_revision": "d698c222f354",
"name": "text_processing",
"owner": "bgruening",
"tool_shed": "toolshed.g2.bx.psu.edu"
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"tool_state": "{\"inputs\": {\"__class__\": \"RuntimeValue\"}, \"queries\": [{\"__index__\": 0, \"inputs2\": {\"__class__\": \"RuntimeValue\"}}], \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "0.1.1",
"type": "tool",
"uuid": "860edbb3-b1dd-42a0-8edd-d4d3838ca916",
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"label": "Concatenate datasets",
"output_name": "out_file1",
"uuid": "ca8c4181-931d-4ff2-98ae-19d9316f9fa4"
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"uuid": "b2504aa6-746c-495d-a164-fd23e7f9b609",
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"4": {
"annotation": "",
Expand All @@ -175,12 +148,7 @@
"output_name": "output"
}
},
"inputs": [
{
"description": "runtime parameter for tool Select random lines",
"name": "input"
}
],
"inputs": [],
"label": null,
"name": "Select random lines",
"outputs": [
Expand All @@ -190,14 +158,8 @@
}
],
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"RenameDatasetActionout_file1": {
Expand All @@ -209,10 +171,11 @@
}
},
"tool_id": "random_lines1",
"tool_state": "{\"input\": {\"__class__\": \"RuntimeValue\"}, \"num_lines\": {\"__class__\": \"ConnectedValue\"}, \"seed_source\": {\"seed_source_selector\": \"set_seed\", \"__current_case__\": 1, \"seed\": \"0\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_state": "{\"input\": {\"__class__\": \"ConnectedValue\"}, \"num_lines\": {\"__class__\": \"ConnectedValue\"}, \"seed_source\": {\"seed_source_selector\": \"set_seed\", \"__current_case__\": 1, \"seed\": \"0\"}, \"__page__\": null, \"__rerun_remap_job_id__\": null}",
"tool_version": "2.0.2",
"type": "tool",
"uuid": "2f32db91-1fdb-4a61-97e9-6aa3a63e45e2",
"when": null,
"workflow_outputs": [
{
"label": "output",
Expand All @@ -223,6 +186,6 @@
}
},
"tags": [],
"uuid": "9ef02c65-d5b0-4380-8eac-567585f21a07",
"version": 2
}
"uuid": "8283a9a1-aadb-475c-9c1b-4ec75efad5ee",
"version": 1
}

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