Mercurial > repos > stemcellcommons > qualimap_bamqc_workflow
view Qualimap_BAM_QC.ga @ 0:064dbe5f3b2f draft default tip
planemo upload commit 96bf4e03fcbbbc1eb0e4b5af12c7da8aa4477fa8
author | scottx611x |
---|---|
date | Tue, 04 Sep 2018 13:53:32 -0400 |
parents | |
children |
line wrap: on
line source
{ "a_galaxy_workflow": "true", "annotation": "{ \n \"description\": \"Quality control of mapped reads\", \n \"file_relationship\": { \n \"file_relationship\": {}, \n \"value_type\": \"LIST\", \n \"name\": \"List of BAM Files\", \n \"input_files\": [ \n { \n \"allowed_filetypes\": [{\"name\": \"BAM\"}], \n \"name\": \"Input File\", \n \"description\": \"File to run Qualimap BAM QC on\" \n } \n ] \n } \n}", "format-version": "0.1", "name": "Qualimap Bam QC", "steps": { "0": { "annotation": "", "content_id": null, "errors": null, "id": 0, "input_connections": {}, "inputs": [], "label": null, "name": "Input dataset", "outputs": [], "position": { "left": 494, "top": 304.5 }, "tool_id": null, "tool_state": "{}", "tool_version": null, "type": "data_input", "uuid": "354d9a2d-aadd-4c58-886f-5cf9659df944", "workflow_outputs": [ { "label": null, "output_name": "output", "uuid": "6e6fd3a9-4d85-4095-9e25-e868020b97f7" } ] }, "1": { "annotation": "", "content_id": "toolshed.g2.bx.psu.edu/repos/refinery-platform/qualimap2_bamqc/qualimap_bamqc/2.2", "errors": null, "id": 1, "input_connections": { "input_realigned_bam_file": { "id": 0, "output_name": "output" } }, "inputs": [ { "description": "runtime parameter for tool QualiMap BamQC", "name": "input_realigned_bam_file" } ], "label": null, "name": "QualiMap BamQC", "outputs": [ { "name": "genome_results", "type": "txt" }, { "name": "raw_data_qualimapReport", "type": "zip" } ], "position": { "left": 872, "top": 359.5 }, "post_job_actions": { "RenameDatasetActiongenome_results": { "action_arguments": { "newname": "genome_results" }, "action_type": "RenameDatasetAction", "output_name": "genome_results" }, "RenameDatasetActionraw_data_qualimapReport": { "action_arguments": { "newname": "raw_data_qualimapReport" }, "action_type": "RenameDatasetAction", "output_name": "raw_data_qualimapReport" } }, "tool_id": "toolshed.g2.bx.psu.edu/repos/refinery-platform/qualimap2_bamqc/qualimap_bamqc/2.2", "tool_shed_repository": { "changeset_revision": "a2438e0f1bbf", "name": "qualimap2_bamqc", "owner": "refinery-platform", "tool_shed": "toolshed.g2.bx.psu.edu" }, "tool_state": "{\"mem_size\": \"\\\"8G\\\"\", \"__rerun_remap_job_id__\": null, \"input_realigned_bam_file\": \"{\\\"__class__\\\": \\\"RuntimeValue\\\"}\", \"__page__\": null}", "tool_version": "2.2", "type": "tool", "uuid": "8e63fbd9-22df-4b7b-a0d1-88e8be17bf16", "workflow_outputs": [ { "label": null, "output_name": "raw_data_qualimapReport", "uuid": "71d23433-f0ef-452d-9c4b-b4376e2665de" }, { "label": null, "output_name": "genome_results", "uuid": "d5f56231-b611-425a-b2e1-d2a9072111f9" } ] } }, "uuid": "27bccc25-073c-4061-b573-9cfe9ed47324" }