annotate Galaxy-Workflow-microsatellite_profiling.ga @ 7:3c05abb4452e default tip

add missing files
author devteam@galaxyproject.org
date Wed, 22 Apr 2015 12:22:50 -0400
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1 {
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2 "a_galaxy_workflow": "true",
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3 "annotation": "Profile length of microsatellites or short tandem repeats from short read data",
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4 "format-version": "0.1",
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5 "name": "microsatellite_profiling",
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6 "steps": {
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7 "0": {
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8 "annotation": "input raw read that you want to detect Tandem reepats (TRs)/microsatellites",
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9 "id": 0,
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12 {
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13 "description": "input raw read that you want to detect Tandem reepats (TRs)/microsatellites",
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14 "name": "single end fastq"
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15 }
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16 ],
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17 "name": "Input dataset",
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18 "outputs": [],
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25 "tool_state": "{\"name\": \"single end fastq\"}",
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26 "tool_version": null,
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27 "type": "data_input",
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28 "user_outputs": []
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29 },
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30 "1": {
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31 "annotation": "need to be prepared by user using TR genome profiling",
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32 "id": 1,
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33 "input_connections": {},
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35 {
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36 "description": "need to be prepared by user using TR genome profiling",
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37 "name": "TR in genome"
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38 }
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39 ],
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40 "name": "Input dataset",
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41 "outputs": [],
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48 "tool_state": "{\"name\": \"TR in genome\"}",
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49 "tool_version": null,
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50 "type": "data_input",
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51 "user_outputs": []
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52 },
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53 "2": {
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54 "annotation": "https://usegalaxy.org/u/guru%40psu.edu/h/error-rates-files",
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55 "id": 2,
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58 {
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59 "description": "https://usegalaxy.org/u/guru%40psu.edu/h/error-rates-files",
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60 "name": "error rate file"
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61 }
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62 ],
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63 "name": "Input dataset",
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64 "outputs": [],
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73 "type": "data_input",
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74 "user_outputs": []
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75 },
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76 "3": {
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77 "annotation": "",
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82 "output_name": "output"
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83 }
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84 },
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85 "inputs": [],
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86 "name": "Microsatellite detection",
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87 "outputs": [
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88 {
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89 "name": "stdout",
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90 "type": "tabular"
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91 }
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98 "ChangeDatatypeActionstdout": {
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99 "action_arguments": {
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100 "newtype": "tabular"
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102 "action_type": "ChangeDatatypeAction",
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103 "output_name": "stdout"
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104 },
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105 "RenameDatasetActionstdout": {
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106 "action_arguments": {
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107 "newname": "TR in raw reads"
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108 },
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109 "action_type": "RenameDatasetAction",
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110 "output_name": "stdout"
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111 }
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112 },
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113 "tool_errors": null,
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114 "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/microsatellite/1.0.0",
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115 "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\\\"\"}",
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116 "tool_version": "1.0.0",
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117 "type": "tool",
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118 "user_outputs": []
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119 },
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120 "4": {
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121 "annotation": "",
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123 "input_connections": {
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126 "output_name": "stdout"
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127 }
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128 },
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129 "inputs": [],
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130 "name": "Read name modifier",
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131 "outputs": [
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132 {
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133 "name": "output",
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134 "type": "tabular"
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135 }
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142 "tool_errors": null,
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143 "tool_id": "toolshed.g2.bx.psu.edu/repos/arkarachai-fungtammasan/microsatellite_ngs/space2underscore_readname/1.0.0",
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145 "tool_version": "1.0.0",
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146 "type": "tool",
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147 "user_outputs": []
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148 },
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149 "5": {
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150 "annotation": "",
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152 "input_connections": {
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153 "microsat_in_read": {
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154 "id": 4,
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155 "output_name": "output"
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156 }
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157 },
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158 "inputs": [],
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159 "name": "Fetch flanking bases",
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160 "outputs": [
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161 {
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162 "name": "Leftflanking",
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163 "type": "fastq"
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164 },
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165 {
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166 "name": "Rightflanking",
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167 "type": "fastq"
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168 }
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169 ],
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186 "action_type": "ChangeDatatypeAction",
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192 "output_name": "Leftflanking"
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193 },
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diff changeset
761 "user_outputs": []
3c05abb4452e add missing files
devteam@galaxyproject.org
parents:
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762 }
3c05abb4452e add missing files
devteam@galaxyproject.org
parents:
diff changeset
763 }
3c05abb4452e add missing files
devteam@galaxyproject.org
parents:
diff changeset
764 }