# HG changeset patch # User chrisd # Date 1468537472 14400 # Node ID 0eae27b15aa01b67a4bcd25803bd12acf472cc5c # Parent 0b7210ad9187321ef14ec4e629849e5cb7323ae7 planemo upload for repository https://github.com/cdeanj/galaxytools/tree/master/workflows/amrplusplus commit 5e58b41d1ef7243f07d32905bd822d0a13876344-dirty diff -r 0b7210ad9187 -r 0eae27b15aa0 amrplusplus_workflow.ga --- a/amrplusplus_workflow.ga Sat Jun 25 17:17:42 2016 -0400 +++ b/amrplusplus_workflow.ga Thu Jul 14 19:04:32 2016 -0400 @@ -2,7 +2,7 @@ "a_galaxy_workflow": "true", "annotation": "", "format-version": "0.1", - "name": "amrplusplus workflow", + "name": "amrplusplus workflow (imported from uploaded file)", "steps": { "0": { "annotation": "", @@ -237,8 +237,61 @@ }, "5": { "annotation": "", + "content_id": "toolshed.g2.bx.psu.edu/repos/chrisd/metasnp/metasnp/0.1.0", + "id": 5, + "input_connections": { + "reference": { + "id": 3, + "output_name": "output" + } + }, + "inputs": [ + { + "description": "runtime parameter for tool MetaSNP", + "name": "sam_type" + }, + { + "description": "runtime parameter for tool MetaSNP", + "name": "reference" + } + ], + "label": null, + "name": "MetaSNP", + "outputs": [ + { + "name": "output", + "type": "tabular" + } + ], + "position": { + "left": 1447, + "top": 543 + }, + "post_job_actions": {}, + "tool_errors": null, + "tool_id": "toolshed.g2.bx.psu.edu/repos/chrisd/metasnp/metasnp/0.1.0", + "tool_shed_repository": { + "changeset_revision": "a3d1f2a85806", + "name": "metasnp", + "owner": "chrisd", + "tool_shed": "toolshed.g2.bx.psu.edu" + }, + "tool_state": "{\"sam_type\": \"{\\\"best\\\": \\\"false\\\", \\\"sampe_input\\\": {\\\"__class__\\\": \\\"RuntimeValue\\\"}, \\\"mode\\\": \\\"paired_end\\\", \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"reference\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\"}", + "tool_version": "0.1.0", + "type": "tool", + "uuid": "f126b5ac-a201-4478-8336-cdc6d70c54ca", + "workflow_outputs": [ + { + "label": null, + "output_name": "output", + "uuid": "2a7f2c96-ce1d-4ce0-b8cb-ba31df13bdb6" + } + ] + }, + "6": { + "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.12.1", - "id": 5, + "id": 6, "input_connections": { "input_type|fastq_input1": { "id": 4, @@ -300,13 +353,13 @@ } ] }, - "6": { + "7": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/brenninc/samtools_flag_filter_1_2/samtools_flag_filter/0.1", - "id": 6, + "id": 7, "input_connections": { "input": { - "id": 5, + "id": 6, "output_name": "bam_output" } }, @@ -349,13 +402,13 @@ } ] }, - "7": { + "8": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa/0.7.12.1", - "id": 7, + "id": 8, "input_connections": { "input_type|bam_input": { - "id": 6, + "id": 7, "output_name": "output" }, "reference_source|ref_file": { @@ -406,13 +459,13 @@ } ] }, - "8": { + "9": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/samtools_sort/samtools_sort/2.0", - "id": 8, + "id": 9, "input_connections": { "input1": { - "id": 7, + "id": 8, "output_name": "bam_output" } }, @@ -455,13 +508,13 @@ } ] }, - "9": { + "10": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/bam_to_sam/bam_to_sam/2.0", - 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"uuid": "0907193f-3458-40a1-b0ba-beac3998da62", - "workflow_outputs": [] + "uuid": "a74c17eb-f115-40b3-847d-03b89c251bc7", + "workflow_outputs": [ + { + "label": null, + "output_name": "output", + "uuid": "57902fb4-a733-4429-8dfd-905ad0dd2f03" + } + ] } }, - "uuid": "5f790d55-b08b-45e8-8471-005678ec4eef" + "uuid": "9ed4d064-e299-406d-a56f-e7eec8120829" } \ No newline at end of file diff -r 0b7210ad9187 -r 0eae27b15aa0 repository_dependencies.xml --- a/repository_dependencies.xml Sat Jun 25 17:17:42 2016 -0400 +++ b/repository_dependencies.xml Thu Jul 14 19:04:32 2016 -0400 @@ -1,4 +1,4 @@ - +