Mercurial > repos > vimalkumarvelayudhan > riboseqr_wrapper

annotate Workflow-riboSeqR_chlamydomonas_test_data.ga @ 6:5a242f289347 default tip

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Merge
author Vimalkumar Velayudhan <vimalkumarvelayudhan@gmail.com>
date Tue, 27 Oct 2015 12:29:39 +0000
parents 423ad61697c4
children
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5
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1 {
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2 "a_galaxy_workflow": "true",
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3 "annotation": "",
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4 "format-version": "0.1",
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5 "name": "riboSeqR chlamydomonas test data",
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6 "steps": {
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7 "0": {
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8 "annotation": "",
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9 "id": 0,
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10 "input_connections": {},
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11 "inputs": [
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12 {
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13 "description": "",
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14 "name": "Input Dataset"
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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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19 "position": {
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20 "left": 10,
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21 "top": 10
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22 },
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23 "tool_errors": null,
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24 "tool_id": null,
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25 "tool_state": "{\"name\": \"Input Dataset\"}",
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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": "",
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32 "id": 1,
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33 "input_connections": {
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34 "rdata_load": {
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35 "id": 0,
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36 "output_name": "output"
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37 }
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38 },
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39 "inputs": [],
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40 "name": "Triplet Periodicity",
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41 "outputs": [
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42 {
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43 "name": "rdata_save",
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44 "type": "rda"
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45 },
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46 {
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47 "name": "html_file",
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48 "type": "html"
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49 }
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50 ],
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51 "position": {
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52 "left": 230,
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53 "top": 10
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54 },
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55 "post_job_actions": {},
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56 "tool_errors": null,
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57 "tool_id": "toolshed.g2.bx.psu.edu/repos/vimalkumarvelayudhan/riboseqr_wrapper/riboseqr_triplet_periodicity/0.4.0",
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58 "tool_state": "{\"__page__\": 0, \"analyze_plot_lengths\": \"\\\"26:30\\\"\", \"include_lengths\": \"\\\"25:30\\\"\", \"fasta_file\": \"null\", \"stop_codons\": \"\\\"TAG, TAA, TGA\\\"\", \"start_codons\": \"\\\"ATG\\\"\", \"rdata_load\": \"null\", \"text_legend\": \"\\\"Frame 0, Frame 1, Frame 2\\\"\", \"chromInfo\": \"\\\"/mnt/workspace/DATA/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"__rerun_remap_job_id__\": null}",
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59 "tool_version": null,
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60 "type": "tool",
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61 "user_outputs": []
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62 },
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63 "2": {
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64 "annotation": "",
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65 "id": 2,
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66 "input_connections": {
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67 "rdata_load": {
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68 "id": 1,
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69 "output_name": "rdata_save"
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70 }
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71 },
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72 "inputs": [],
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73 "name": "Metagene Analysis",
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74 "outputs": [
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75 {
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76 "name": "rdata_save",
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77 "type": "rda"
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78 },
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79 {
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80 "name": "html_file",
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81 "type": "html"
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82 }
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83 ],
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84 "position": {
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85 "left": 450,
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86 "top": 10
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87 },
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88 "post_job_actions": {},
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89 "tool_errors": null,
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90 "tool_id": "toolshed.g2.bx.psu.edu/repos/vimalkumarvelayudhan/riboseqr_wrapper/riboseqr_metagene/0.4.0",
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91 "tool_state": "{\"__page__\": 0, \"rdata_load\": \"null\", \"unique_hit_mean\": \"\\\"10\\\"\", \"min3p\": \"\\\"-200\\\"\", \"__rerun_remap_job_id__\": null, \"cap\": \"\\\"\\\"\", \"ratio_check\": \"\\\"True\\\"\", \"max3p\": \"\\\"20\\\"\", \"plot_lengths\": \"\\\"27,28\\\"\", \"max5p\": \"\\\"200\\\"\", \"selected_lengths\": \"\\\"27,28\\\"\", \"plot_title\": \"\\\"\\\"\", \"hit_mean\": \"\\\"50\\\"\", \"selected_frames\": \"\\\"1,0\\\"\", \"chromInfo\": \"\\\"/mnt/workspace/DATA/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\", \"min5p\": \"\\\"-20\\\"\"}",
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92 "tool_version": null,
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93 "type": "tool",
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94 "user_outputs": []
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95 },
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96 "3": {
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97 "annotation": "",
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98 "id": 3,
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99 "input_connections": {
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100 "rdata_load": {
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101 "id": 2,
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102 "output_name": "rdata_save"
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103 }
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104 },
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105 "inputs": [],
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106 "name": "Plot Ribosome Profile",
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107 "outputs": [
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108 {
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109 "name": "html_file",
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110 "type": "html"
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111 }
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112 ],
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113 "position": {
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114 "left": 670,
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115 "top": 10
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116 },
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117 "post_job_actions": {},
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118 "tool_errors": null,
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119 "tool_id": "toolshed.g2.bx.psu.edu/repos/vimalkumarvelayudhan/riboseqr_wrapper/riboseqr_ribosome_profile/0.4.0",
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120 "tool_state": "{\"__page__\": 0, \"transcript_cap\": \"\\\"200\\\"\", \"__rerun_remap_job_id__\": null, \"transcript_length\": \"\\\"27\\\"\", \"rdata_load\": \"null\", \"transcript_name\": \"\\\"CUFF.37930.1\\\"\", \"chromInfo\": \"\\\"/mnt/workspace/DATA/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\"}",
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121 "tool_version": null,
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122 "type": "tool",
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123 "user_outputs": []
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124 },
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125 "4": {
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126 "annotation": "",
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127 "id": 4,
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128 "input_connections": {
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129 "rdata_load": {
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130 "id": 2,
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131 "output_name": "rdata_save"
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132 }
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133 },
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134 "inputs": [],
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135 "name": "Differential Translation Analysis",
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136 "outputs": [
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137 {
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138 "name": "html_file",
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139 "type": "html"
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140 }
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141 ],
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142 "position": {
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143 "left": 670,
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144 "top": 130
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145 },
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146 "post_job_actions": {},
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147 "tool_errors": null,
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148 "tool_id": "toolshed.g2.bx.psu.edu/repos/vimalkumarvelayudhan/riboseqr_wrapper/difftrans/0.1.0",
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149 "tool_state": "{\"normalize\": \"\\\"True\\\"\", \"__page__\": 0, \"num_counts\": \"\\\"10\\\"\", \"__rerun_remap_job_id__\": null, \"rdata_load\": \"null\", \"group1\": \"\\\"1,1,1,1\\\"\", \"frames_type\": \"{\\\"select_frames\\\": \\\"each\\\", \\\"frames_each\\\": \\\"0,2\\\", \\\"__current_case__\\\": 1}\", \"group2\": \"\\\"WT,WT,M,M\\\"\", \"frames\": \"\\\"0,2\\\"\", \"slice_lengths\": \"\\\"27,28\\\"\", \"chromInfo\": \"\\\"/mnt/workspace/DATA/galaxy/galaxy-dist/tool-data/shared/ucsc/chrom/?.len\\\"\"}",
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150 "tool_version": null,
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151 "type": "tool",
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152 "user_outputs": []
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153 }
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154 }
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155 }