Mercurial > repos > arkarachai-fungtammasan > fakename

{
    "a_galaxy_workflow": "true",
    "annotation": "Profile length of microsatellites or short tandem repeats from short read data",
    "format-version": "0.1",
    "name": "microsatellite_profiling",
    "steps": {
        "0": {
            "annotation": "input raw read that you want to detect Tandem reepats (TRs)/microsatellites",
            "id": 0,
            "input_connections": {},
            "inputs": [
                {
                    "description": "input raw read that you want to detect Tandem reepats (TRs)/microsatellites",
                    "name": "single end fastq"
                }
            ],
            "name": "Input dataset",
            "outputs": [],
            "position": {
                "left": 200,
                "top": 274.765625
            },
            "tool_errors": null,
            "tool_id": null,
            "tool_state": "{\"name\": \"single end fastq\"}",
            "tool_version": null,
            "type": "data_input",
            "user_outputs": []
        },
        "1": {
            "annotation": "need to be prepared by user using TR genome profiling",
            "id": 1,
            "input_connections": {},
            "inputs": [
                {
                    "description": "need to be prepared by user using TR genome profiling",
                    "name": "TR in genome"
                }
            ],
            "name": "Input dataset",
            "outputs": [],
            "position": {
                "left": 177,
                "top": 412.953125
            },
            "tool_errors": null,
            "tool_id": null,
            "tool_state": "{\"name\": \"TR in genome\"}",
            "tool_version": null,
            "type": "data_input",
            "user_outputs": []
        },
        "2": {
            "annotation": "https://usegalaxy.org/u/guru%40psu.edu/h/error-rates-files",
            "id": 2,
            "input_connections": {},
            "inputs": [
                {
                    "description": "https://usegalaxy.org/u/guru%40psu.edu/h/error-rates-files",
                    "name": "error rate file"
                }
            ],
            "name": "Input dataset",
            "outputs": [],
            "position": {
                "left": 1412.875,
                "top": 384.671875
            },
            "tool_errors": null,
            "tool_id": null,
            "tool_state": "{\"name\": \"error rate file\"}",
            "tool_version": null,
            "type": "data_input",
            "user_outputs": []
        },
        "3": {
            "annotation": "",
            "id": 3,
            "input_connections": {
                "filePath": {
                    "id": 0,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Microsatellite detection",
            "outputs": [
                {
                    "name": "stdout",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 441.953125,
                "top": 252
            },
            "post_job_actions": {
                "ChangeDatatypeActionstdout": {
                    "action_arguments": {
                        "newtype": "tabular"
                    },
                    "action_type": "ChangeDatatypeAction",
                    "output_name": "stdout"
                },
                "RenameDatasetActionstdout": {
                    "action_arguments": {
                        "newname": "TR in raw reads"
                    },
                    "action_type": "RenameDatasetAction",
                    "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\\\": \\\"True\\\", \\\"__current_case__\\\": 1}\", \"filePath\": \"null\", \"minlength\": \"\\\"5\\\"\", \"hammingThreshold\": \"\\\"0\\\"\", \"period\": \"\\\"1\\\"\", \"surfix\": \"\\\"20\\\"\", \"prefix\": \"\\\"20\\\"\", \"__rerun_remap_job_id__\": null, \"inputFileSource\": \"{\\\"inputFileType\\\": \\\"fastq\\\", \\\"__current_case__\\\": 3}\", \"partialmotifs\": \"\\\"True\\\"\", \"multipleruns\": \"\\\"True\\\"\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "4": {
            "annotation": "",
            "id": 4,
            "input_connections": {
                "input": {
                    "id": 3,
                    "output_name": "stdout"
                }
            },
            "inputs": [],
            "name": "Read name modifier",
            "outputs": [
                {
                    "name": "output",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 418.484375,
                "top": 385.03125
            },
            "post_job_actions": {},
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/space2underscore_readname/1.0.0",
            "tool_state": "{\"__page__\": 0, \"column_n\": \"\\\"6\\\"\", \"__rerun_remap_job_id__\": null, \"input\": \"null\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "5": {
            "annotation": "",
            "id": 5,
            "input_connections": {
                "microsat_in_read": {
                    "id": 4,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Fetch flanking bases",
            "outputs": [
                {
                    "name": "Leftflanking",
                    "type": "fastq"
                },
                {
                    "name": "Rightflanking",
                    "type": "fastq"
                }
            ],
            "position": {
                "left": 390.9375,
                "top": 509.046875
            },
            "post_job_actions": {
                "ChangeDatatypeActionLeftflanking": {
                    "action_arguments": {
                        "newtype": "fastqsanger"
                    },
                    "action_type": "ChangeDatatypeAction",
                    "output_name": "Leftflanking"
                },
                "ChangeDatatypeActionRightflanking": {
                    "action_arguments": {
                        "newtype": "fastqsanger"
                    },
                    "action_type": "ChangeDatatypeAction",
                    "output_name": "Rightflanking"
                },
                "HideDatasetActionLeftflanking": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "Leftflanking"
                },
                "HideDatasetActionRightflanking": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "Rightflanking"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/fetchflank/1.0.0",
            "tool_state": "{\"qualitycutoff\": \"\\\"20\\\"\", \"lengthofbasetocheckquality\": \"\\\"20\\\"\", \"__rerun_remap_job_id__\": null, \"microsat_in_read\": \"null\", \"__page__\": 0}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "6": {
            "annotation": "this tool has problems with parameter setting when you run it from pipeline. If you want different parameter, it's recommend that you clone pipleline and modify it.",
            "id": 6,
            "input_connections": {
                "paired|input1": {
                    "id": 5,
                    "output_name": "Leftflanking"
                },
                "paired|input2": {
                    "id": 5,
                    "output_name": "Rightflanking"
                }
            },
            "inputs": [],
            "name": "Map with BWA for Illumina",
            "outputs": [
                {
                    "name": "output",
                    "type": "sam"
                }
            ],
            "position": {
                "left": 403,
                "top": 686
            },
            "post_job_actions": {
                "HideDatasetActionoutput": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "output"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bwa_wrappers/bwa_wrapper/1.2.3",
            "tool_state": "{\"genomeSource\": \"{\\\"refGenomeSource\\\": \\\"history\\\", \\\"ownFile\\\": null, \\\"__current_case__\\\": 1}\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"paired\": \"{\\\"input2\\\": null, \\\"sPaired\\\": \\\"paired\\\", \\\"input1\\\": null, \\\"__current_case__\\\": 1}\", \"params\": \"{\\\"outputTopN\\\": \\\"3\\\", \\\"suboptAlign\\\": \\\"\\\", \\\"gapOpenPenalty\\\": \\\"11\\\", \\\"maxGapOpens\\\": \\\"1\\\", \\\"mismatchPenalty\\\": \\\"3\\\", \\\"fracMissingAligns\\\": \\\"0.04\\\", \\\"disallowIndel\\\": \\\"5\\\", \\\"outputTopNDisc\\\": \\\"10\\\", \\\"disallowLongDel\\\": \\\"16\\\", \\\"readGroup\\\": {\\\"__current_case__\\\": 1, \\\"specReadGroup\\\": \\\"no\\\"}, \\\"maxInsertSize\\\": \\\"500\\\", \\\"__current_case__\\\": 1, \\\"maxEditDist\\\": \\\"0\\\", \\\"gapExtensPenalty\\\": \\\"4\\\", \\\"maxGapExtens\\\": \\\"-1\\\", \\\"maxEditDistSeed\\\": \\\"2\\\", \\\"noIterSearch\\\": \\\"False\\\", \\\"seed\\\": \\\"-1\\\", \\\"maxOccurPairing\\\": \\\"100000\\\", \\\"source_select\\\": \\\"full\\\"}\", \"suppressHeader\": \"\\\"False\\\"\"}",
            "tool_version": "1.2.3",
            "type": "tool",
            "user_outputs": []
        },
        "7": {
            "annotation": "",
            "id": 7,
            "input_connections": {
                "input1": {
                    "id": 6,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Filter SAM",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "sam"
                }
            ],
            "position": {
                "left": 778,
                "top": 489.953125
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/sam_bitwise_flag_filter/sam_bw_filter/1.0.0",
            "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"input1\": \"null\", \"bits\": \"[{\\\"states\\\": \\\"0\\\", \\\"__index__\\\": 0, \\\"flags\\\": \\\"--0x0004\\\"}]\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "8": {
            "annotation": "remove all mapped read with soft mask",
            "id": 8,
            "input_connections": {
                "input": {
                    "id": 7,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Filter",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "input"
                }
            ],
            "position": {
                "left": 781.5,
                "top": 602
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "Filter1",
            "tool_state": "{\"input\": \"null\", \"__rerun_remap_job_id__\": null, \"header_lines\": \"\\\"0\\\"\", \"cond\": \"\\\"c6.count('S')==0\\\"\", \"__page__\": 0}",
            "tool_version": "1.1.0",
            "type": "tool",
            "user_outputs": []
        },
        "9": {
            "annotation": "",
            "id": 9,
            "input_connections": {
                "input": {
                    "id": 8,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Sort",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "input"
                }
            ],
            "position": {
                "left": 777.5,
                "top": 739
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "sort1",
            "tool_state": "{\"__page__\": 0, \"style\": \"\\\"alpha\\\"\", \"column\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"1\\\"}\", \"__rerun_remap_job_id__\": null, \"order\": \"\\\"ASC\\\"\", \"input\": \"null\", \"column_set\": \"[]\"}",
            "tool_version": "1.0.3",
            "type": "tool",
            "user_outputs": []
        },
        "10": {
            "annotation": "",
            "id": 10,
            "input_connections": {
                "flankedbasesSAM": {
                    "id": 9,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Combine mapped flaked bases",
            "outputs": [
                {
                    "name": "output",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 723.328125,
                "top": 887.828125
            },
            "post_job_actions": {
                "HideDatasetActionoutput": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "output"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/PEsortedSAM2readprofile/1.0.0",
            "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"maxoriginalreadlength\": \"\\\"101\\\"\", \"maxTRlength\": \"\\\"100\\\"\", \"flankedbasesSAM\": \"null\", \"twobitref\": \"null\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "11": {
            "annotation": "",
            "id": 11,
            "input_connections": {
                "input1": {
                    "id": 4,
                    "output_name": "output"
                },
                "input2": {
                    "id": 10,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Join two Datasets",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "input"
                }
            ],
            "position": {
                "left": 1116.375,
                "top": 431.84375
            },
            "post_job_actions": {
                "ColumnSetActionout_file1": {
                    "action_arguments": {
                        "chromCol": "10",
                        "endCol": "14",
                        "nameCol": "",
                        "startCol": "13",
                        "strandCol": ""
                    },
                    "action_type": "ColumnSetAction",
                    "output_name": "out_file1"
                },
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "join1",
            "tool_state": "{\"input2\": \"null\", \"__page__\": 0, \"field1\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"6\\\"}\", \"partial\": \"\\\"\\\"\", \"field2\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"1\\\"}\", \"__rerun_remap_job_id__\": null, \"fill_empty_columns\": \"{\\\"fill_empty_columns_switch\\\": \\\"no_fill\\\", \\\"__current_case__\\\": 0}\", \"unmatched\": \"\\\"\\\"\", \"input1\": \"null\"}",
            "tool_version": "2.0.2",
            "type": "tool",
            "user_outputs": []
        },
        "12": {
            "annotation": "",
            "id": 12,
            "input_connections": {
                "input1": {
                    "id": 1,
                    "output_name": "output"
                },
                "input2": {
                    "id": 11,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Join",
            "outputs": [
                {
                    "name": "output",
                    "type": "interval"
                }
            ],
            "position": {
                "left": 1113.96875,
                "top": 560.296875
            },
            "post_job_actions": {
                "HideDatasetActionoutput": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "output"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/join/gops_join_1/1.0.0",
            "tool_state": "{\"input2\": \"null\", \"__page__\": 0, \"input1\": \"null\", \"min\": \"\\\"1\\\"\", \"__rerun_remap_job_id__\": null, \"fill\": \"\\\"none\\\"\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "13": {
            "annotation": "",
            "id": 13,
            "input_connections": {
                "input": {
                    "id": 12,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Check microsatellites motif compatibility",
            "outputs": [
                {
                    "name": "output",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1122.328125,
                "top": 710.84375
            },
            "post_job_actions": {
                "HideDatasetActionoutput": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "output"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/microsatcompat/1.0.0",
            "tool_state": "{\"__page__\": 0, \"input\": \"null\", \"__rerun_remap_job_id__\": null, \"column1\": \"\\\"4\\\"\", \"column2\": \"\\\"10\\\"\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "14": {
            "annotation": "",
            "id": 14,
            "input_connections": {
                "input": {
                    "id": 13,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Select uninterrupted microsatellites",
            "outputs": [
                {
                    "name": "output",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1131.21875,
                "top": 852.90625
            },
            "post_job_actions": {
                "HideDatasetActionoutput": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "output"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/microsatpurity/1.0.0",
            "tool_state": "{\"__page__\": 0, \"column_n\": \"\\\"0\\\"\", \"__rerun_remap_job_id__\": null, \"period\": \"\\\"1\\\"\", \"input\": \"null\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "15": {
            "annotation": "",
            "id": 15,
            "input_connections": {
                "input": {
                    "id": 14,
                    "output_name": "output"
                }
            },
            "inputs": [],
            "name": "Cut",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1161,
                "top": 963.953125
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "Cut1",
            "tool_state": "{\"columnList\": \"\\\"c1,c2,c3,c4,c5,c7\\\"\", \"input\": \"null\", \"delimiter\": \"\\\"T\\\"\", \"__rerun_remap_job_id__\": null, \"__page__\": 0}",
            "tool_version": "1.0.2",
            "type": "tool",
            "user_outputs": []
        },
        "16": {
            "annotation": "",
            "id": 16,
            "input_connections": {
                "input": {
                    "id": 15,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Add column",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "input"
                }
            ],
            "position": {
                "left": 1168,
                "top": 1069.953125
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "addValue",
            "tool_state": "{\"__page__\": 0, \"input\": \"null\", \"__rerun_remap_job_id__\": null, \"exp\": \"\\\"_\\\"\", \"iterate\": \"\\\"no\\\"\"}",
            "tool_version": "1.0.0",
            "type": "tool",
            "user_outputs": []
        },
        "17": {
            "annotation": "",
            "id": 17,
            "input_connections": {
                "input1": {
                    "id": 16,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Merge Columns",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1175,
                "top": 1184.953125
            },
            "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\\\": \\\"7\\\"}\", \"col1\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"1\\\"}\", \"columns\": \"[{\\\"__index__\\\": 0, \\\"datacol\\\": {\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"2\\\"}}, {\\\"__index__\\\": 1, \\\"datacol\\\": {\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"7\\\"}}, {\\\"__index__\\\": 2, \\\"datacol\\\": {\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"3\\\"}}]\"}",
            "tool_version": "1.0.1",
            "type": "tool",
            "user_outputs": []
        },
        "18": {
            "annotation": "",
            "id": 18,
            "input_connections": {
                "input1": {
                    "id": 17,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Group",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1175,
                "top": 1297.953125
            },
            "post_job_actions": {
                "HideDatasetActionout_file1": {
                    "action_arguments": {},
                    "action_type": "HideDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "Grouping1",
            "tool_state": "{\"operations\": \"[{\\\"opcol\\\": {\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"6\\\"}, \\\"__index__\\\": 0, \\\"optype\\\": \\\"cat\\\", \\\"opround\\\": \\\"no\\\"}, {\\\"opcol\\\": {\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"4\\\"}, \\\"__index__\\\": 1, \\\"optype\\\": \\\"cat_uniq\\\", \\\"opround\\\": \\\"no\\\"}]\", \"__page__\": 0, \"input1\": \"null\", \"ignorelines\": \"null\", \"groupcol\": \"{\\\"__class__\\\": \\\"UnvalidatedValue\\\", \\\"value\\\": \\\"8\\\"}\", \"__rerun_remap_job_id__\": null, \"ignorecase\": \"\\\"False\\\"\"}",
            "tool_version": "2.1.0",
            "type": "tool",
            "user_outputs": []
        },
        "19": {
            "annotation": "",
            "id": 19,
            "input_connections": {
                "input": {
                    "id": 18,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Filter",
            "outputs": [
                {
                    "name": "out_file1",
                    "type": "input"
                }
            ],
            "position": {
                "left": 1186,
                "top": 1405.953125
            },
            "post_job_actions": {
                "RenameDatasetActionout_file1": {
                    "action_arguments": {
                        "newname": "TR profile"
                    },
                    "action_type": "RenameDatasetAction",
                    "output_name": "out_file1"
                }
            },
            "tool_errors": null,
            "tool_id": "Filter1",
            "tool_state": "{\"input\": \"null\", \"__rerun_remap_job_id__\": null, \"header_lines\": \"\\\"0\\\"\", \"cond\": \"\\\"c2.count(\\\\\\\",\\\\\\\")>=4\\\"\", \"__page__\": 0}",
            "tool_version": "1.1.0",
            "type": "tool",
            "user_outputs": []
        },
        "20": {
            "annotation": "",
            "id": 20,
            "input_connections": {
                "microsat_error_profile": {
                    "id": 2,
                    "output_name": "output"
                },
                "microsat_raw": {
                    "id": 19,
                    "output_name": "out_file1"
                }
            },
            "inputs": [],
            "name": "Correct genotype for microsatellite errors",
            "outputs": [
                {
                    "name": "microsat_corrected",
                    "type": "tabular"
                }
            ],
            "position": {
                "left": 1591.328125,
                "top": 456.8125
            },
            "post_job_actions": {
                "RenameDatasetActionmicrosat_corrected": {
                    "action_arguments": {
                        "newname": "Genotype file"
                    },
                    "action_type": "RenameDatasetAction",
                    "output_name": "microsat_corrected"
                }
            },
            "tool_errors": null,
            "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/GenotypeSTR/2.0.0",
            "tool_state": "{\"microsat_raw\": \"null\", \"__page__\": 0, \"__rerun_remap_job_id__\": null, \"microsat_error_profile\": \"null\", \"expectedminorallele\": \"\\\"0.5\\\"\"}",
            "tool_version": "2.0.0",
            "type": "tool",
            "user_outputs": []
        }
    }
}
author	arkarachai-fungtammasan
date	Wed, 01 Apr 2015 16:48:58 -0400
parents
children