Mercurial > repos > arkarachai-fungtammasan > str_fm
diff Galaxy-Workflow-TR_genome_profiling.ga @ 0:07588b899c13 draft
Uploaded
author | arkarachai-fungtammasan |
---|---|
date | Wed, 01 Apr 2015 17:05:51 -0400 |
parents | |
children | 29924ae65c45 |
line wrap: on
line diff
--- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/Galaxy-Workflow-TR_genome_profiling.ga Wed Apr 01 17:05:51 2015 -0400 @@ -0,0 +1,191 @@ +{ + "a_galaxy_workflow": "true", + "annotation": "", + "format-version": "0.1", + "name": "TR genome profiling", + "steps": { + "0": { + "annotation": "", + "id": 0, + "input_connections": {}, + "inputs": [ + { + "description": "", + "name": "fasta reference file" + } + ], + "name": "Input dataset", + "outputs": [], + "position": { + "left": 200, + "top": 250 + }, + "tool_errors": null, + "tool_id": null, + "tool_state": "{\"name\": \"fasta reference file\"}", + "tool_version": null, + "type": "data_input", + "user_outputs": [] + }, + "1": { + "annotation": "", + "id": 1, + "input_connections": { + "filePath": { + "id": 0, + "output_name": "output" + } + }, + "inputs": [], + "name": "Microsatellite detection", + "outputs": [ + { + "name": "stdout", + "type": "tabular" + } + ], + "position": { + "left": 430, + "top": 250 + }, + "post_job_actions": { + "ChangeDatatypeActionstdout": { + "action_arguments": { + "newtype": "tabular" + }, + "action_type": "ChangeDatatypeAction", + "output_name": "stdout" + }, + "HideDatasetActionstdout": { + "action_arguments": {}, + "action_type": "HideDatasetAction", + "output_name": "stdout" + } + }, + "tool_errors": null, + "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/microsatellite/1.0.0", + "tool_state": "{\"__page__\": 0, \"flankSetting\": \"{\\\"noflankdisplay\\\": \\\"False\\\", \\\"flankdisplay\\\": \\\"0\\\", \\\"__current_case__\\\": 0}\", \"filePath\": \"null\", \"minlength\": \"\\\"5\\\"\", \"hammingThreshold\": \"\\\"0\\\"\", \"period\": \"\\\"1\\\"\", \"surfix\": \"\\\"0\\\"\", \"prefix\": \"\\\"0\\\"\", \"__rerun_remap_job_id__\": null, \"inputFileSource\": \"{\\\"inputFileType\\\": \\\"fasta\\\", \\\"__current_case__\\\": 2}\", \"partialmotifs\": \"\\\"True\\\"\", \"multipleruns\": \"\\\"True\\\"\"}", + "tool_version": "1.0.0", + "type": "tool", + "user_outputs": [] + }, + "2": { + "annotation": "", + "id": 2, + "input_connections": { + "input": { + "id": 1, + "output_name": "stdout" + } + }, + "inputs": [], + "name": "Compute", + "outputs": [ + { + "name": "out_file1", + "type": "input" + } + ], + "position": { + "left": 688, + "top": 250 + }, + "post_job_actions": { + "HideDatasetActionout_file1": { + "action_arguments": {}, + "action_type": "HideDatasetAction", + "output_name": "out_file1" + } + }, + "tool_errors": null, + "tool_id": "Add_a_column1", + "tool_state": "{\"input\": \"null\", \"__rerun_remap_job_id__\": null, \"cond\": \"\\\"int(c1+c2)\\\"\", \"round\": \"\\\"no\\\"\", \"__page__\": 0}", + "tool_version": "1.1.0", + "type": "tool", + "user_outputs": [] + }, + "3": { + "annotation": "", + "id": 3, + "input_connections": { + "input": { + "id": 2, + "output_name": "out_file1" + } + }, + "inputs": [], + "name": "Compute", + "outputs": [ + { + "name": "out_file1", + "type": "input" + } + ], + "position": { + "left": 916, + "top": 250 + }, + "post_job_actions": { + "HideDatasetActionout_file1": { + "action_arguments": {}, + "action_type": "HideDatasetAction", + "output_name": "out_file1" + } + }, + "tool_errors": null, + "tool_id": "Add_a_column1", + "tool_state": "{\"input\": \"null\", \"__rerun_remap_job_id__\": null, \"cond\": \"\\\"len(c4)\\\"\", \"round\": \"\\\"no\\\"\", \"__page__\": 0}", + "tool_version": "1.1.0", + "type": "tool", + "user_outputs": [] + }, + "4": { + "annotation": "", + "id": 4, + "input_connections": { + "input": { + "id": 3, + "output_name": "out_file1" + } + }, + "inputs": [], + "name": "Cut", + "outputs": [ + { + "name": "out_file1", + "type": "tabular" + } + ], + "position": { + "left": 1144, + "top": 250 + }, + "post_job_actions": { + "ChangeDatatypeActionout_file1": { + "action_arguments": { + "newtype": "interval" + }, + "action_type": "ChangeDatatypeAction", + "output_name": "out_file1" + }, + "ColumnSetActionout_file1": { + "action_arguments": { + "chromCol": "1", + "endCol": "3", + "nameCol": "", + "startCol": "2", + "strandCol": "" + }, + "action_type": "ColumnSetAction", + "output_name": "out_file1" + } + }, + "tool_errors": null, + "tool_id": "Cut1", + "tool_state": "{\"columnList\": \"\\\"c6,c2,c9,c4,c1,c10\\\"\", \"input\": \"null\", \"delimiter\": \"\\\"T\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}", + "tool_version": "1.0.2", + "type": "tool", + "user_outputs": [] + } + } +} \ No newline at end of file