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planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
author drosofff
date Tue, 05 Apr 2016 06:42:47 -0400
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4a47903bb4df planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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93 {
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94 "name": "output_aligned_reads_r",
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95 "type": "fastqsanger"
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96 },
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97 {
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98 "name": "output_unaligned_reads_r",
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99 "type": "fastqsanger"
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100 },
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101 {
4a47903bb4df planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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102 "name": "output",
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103 "type": "bam"
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104 },
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105 {
4a47903bb4df planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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106 "name": "output_sam",
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107 "type": "sam"
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108 },
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109 {
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110 "name": "mapping_stats",
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111 "type": "txt"
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112 }
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113 ],
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114 "position": {
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115 "left": 433.48956298828125,
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117 },
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118 "post_job_actions": {
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119 "DeleteIntermediatesActionoutput_unaligned_reads_l": {
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120 "action_arguments": {},
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121 "action_type": "DeleteIntermediatesAction",
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122 "output_name": "output_unaligned_reads_l"
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123 },
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124 "HideDatasetActionmapping_stats": {
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125 "action_arguments": {},
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126 "action_type": "HideDatasetAction",
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127 "output_name": "mapping_stats"
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128 },
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129 "HideDatasetActionoutput": {
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130 "action_arguments": {},
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131 "action_type": "HideDatasetAction",
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132 "output_name": "output"
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133 },
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134 "HideDatasetActionoutput_aligned_reads_l": {
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135 "action_arguments": {},
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136 "action_type": "HideDatasetAction",
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137 "output_name": "output_aligned_reads_l"
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138 },
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139 "HideDatasetActionoutput_aligned_reads_r": {
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140 "action_arguments": {},
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141 "action_type": "HideDatasetAction",
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142 "output_name": "output_aligned_reads_r"
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143 },
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144 "HideDatasetActionoutput_sam": {
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145 "action_arguments": {},
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146 "action_type": "HideDatasetAction",
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147 "output_name": "output_sam"
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148 },
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149 "HideDatasetActionoutput_unaligned_reads_l": {
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150 "action_arguments": {},
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151 "action_type": "HideDatasetAction",
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152 "output_name": "output_unaligned_reads_l"
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153 },
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154 "HideDatasetActionoutput_unaligned_reads_r": {
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155 "action_arguments": {},
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156 "action_type": "HideDatasetAction",
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157 "output_name": "output_unaligned_reads_r"
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158 }
4a47903bb4df planemo upload for repository https://github.com/ARTbio/tools-artbio/tree/master/workflows commit f6fa4bd2f176e3f4ae4b9c887113557d3c4ff209
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159 },
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160 "tool_errors": null,
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161 "tool_id": "toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/2.2.6.2",
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162 "tool_state": "{\"__page__\": 0, \"__rerun_remap_job_id__\": null, \"library\": \"{\\\"aligned_file\\\": \\\"False\\\", \\\"unaligned_file\\\": \\\"True\\\", \\\"type\\\": \\\"single\\\", \\\"__current_case__\\\": 0, \\\"input_1\\\": null}\", \"reference_genome\": \"{\\\"source\\\": \\\"indexed\\\", \\\"__current_case__\\\": 0, \\\"index\\\": \\\"AgamP4\\\"}\", \"rg\": \"{\\\"rg_selector\\\": \\\"do_not_set\\\", \\\"__current_case__\\\": 3}\", \"save_mapping_stats\": \"\\\"False\\\"\", \"analysis_type\": \"{\\\"alignment_options\\\": {\\\"alignment_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 1}, \\\"effort_options\\\": {\\\"effort_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 1}, \\\"sam_options\\\": {\\\"sam_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 1}, \\\"other_options\\\": {\\\"other_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 1}, \\\"scoring_options\\\": {\\\"scoring_options_selector\\\": \\\"no\\\", \\\"__current_case__\\\": 1}, \\\"analysis_type_selector\\\": \\\"full\\\", \\\"reporting_options\\\": {\\\"k\\\": \\\"1\\\", \\\"reporting_options_selector\\\": \\\"k\\\", \\\"__current_case__\\\": 1}, \\\"__current_case__\\\": 1, \\\"sam_opt\\\": \\\"True\\\", \\\"input_options\\\": {\\\"int_quals\\\": \\\"False\\\", \\\"solexa_quals\\\": \\\"False\\\", \\\"skip\\\": \\\"0\\\", \\\"input_options_selector\\\": \\\"yes\\\", \\\"qv_encoding\\\": \\\"--phred33\\\", \\\"__current_case__\\\": 0, \\\"trim3\\\": \\\"20\\\", \\\"qupto\\\": \\\"100000000\\\", \\\"trim5\\\": \\\"0\\\"}}\"}",
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163 "tool_version": "2.2.6.2",
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164 "type": "tool",
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165 "uuid": "15edcf5f-9b38-4b7e-ad04-f816d1d4d126",
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166 "workflow_outputs": []
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167 },
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168 "3": {
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169 "annotation": "",
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170 "content_id": "toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_fasta/cshl_fastq_to_fasta/1.0.0",
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171 "id": 3,
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172 "input_connections": {
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173 "input": {
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174 "id": 2,
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175 "output_name": "output_unaligned_reads_l"
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176 }
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177 },
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