Mercurial > repos > bgruening > deeptools_workflows
view Add_chr_to_first_column_of_a_6_columns_BED_file.ga @ 1:6f95aecbcad1 draft default tip
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author | bgruening |
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date | Thu, 03 Apr 2014 11:02:03 -0400 |
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{ "a_galaxy_workflow": "true", "annotation": "", "format-version": "0.1", "name": "Add 'chr' to first column of a BED file (must have 6 columns)", "steps": { "0": { "annotation": "", "id": 0, "input_connections": {}, "inputs": [ { "description": "", "name": "BED file" } ], "name": "Input dataset", "outputs": [], "position": { "left": 200, "top": 193 }, "tool_errors": null, "tool_id": null, "tool_state": "{\"name\": \"BED file\"}", "tool_version": null, "type": "data_input", "user_outputs": [] }, "1": { "annotation": "", "id": 1, "input_connections": { "input": { "id": 0, "output_name": "output" } }, "inputs": [], "name": "Add column", "outputs": [ { "name": "out_file1", "type": "input" } ], "position": { "left": 423, "top": 200 }, "post_job_actions": { "HideDatasetActionout_file1": { "action_arguments": {}, "action_type": "HideDatasetAction", "output_name": "out_file1" } }, "tool_errors": null, "tool_id": "addValue", "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"exp\": \"\\\"chr\\\"\", \"iterate\": \"\\\"no\\\"\", \"input\": \"null\", \"chromInfo\": \"\\\"/data2/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/mm9.len\\\"\"}", "tool_version": "1.0.0", "type": "tool", "user_outputs": [] }, "2": { "annotation": "", "id": 2, "input_connections": { "input1": { "id": 1, "output_name": "out_file1" } }, "inputs": [], "name": "Merge Columns", "outputs": [ { "name": "out_file1", "type": "tabular" } ], "position": { "left": 657, "top": 211 }, "post_job_actions": { "HideDatasetActionout_file1": { "action_arguments": {}, "action_type": "HideDatasetAction", "output_name": "out_file1" } }, "tool_errors": null, "tool_id": "mergeCols1", "tool_state": "{\"__page__\": 0, \"input1\": \"null\", \"__rerun_remap_job_id__\": null, \"col2\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"1\\\"}\", \"col1\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"7\\\"}\", \"chromInfo\": \"\\\"/data2/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/mm9.len\\\"\", \"columns\": \"[]\"}", "tool_version": "1.0.1", "type": "tool", "user_outputs": [] }, "3": { "annotation": "", "id": 3, "input_connections": { "input": { "id": 2, "output_name": "out_file1" } }, "inputs": [], "name": "Cut", "outputs": [ { "name": "out_file1", "type": "tabular" } ], "position": { "left": 872, "top": 205 }, "post_job_actions": { "ChangeDatatypeActionout_file1": { "action_arguments": { "newtype": "interval" }, "action_type": "ChangeDatatypeAction", "output_name": "out_file1" }, "RenameDatasetActionout_file1": { "action_arguments": { "newname": "added \"chr\" to chromosome name" }, "action_type": "RenameDatasetAction", "output_name": "out_file1" } }, "tool_errors": null, "tool_id": "Cut1", "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"delimiter\": \"\\\"T\\\"\", \"columnList\": \"\\\"c8,c2,c3,c4,c5,c6\\\"\", \"input\": \"null\", \"chromInfo\": \"\\\"/data2/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/mm9.len\\\"\"}", "tool_version": "1.0.2", "type": "tool", "user_outputs": [] } } }