Mercurial > repos > proteore > proteore_data_manager

annotate data_manager_conf.xml @ 25:6e36dd9abcb5 draft

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planemo upload commit 3e8aad84b7fe9218370364b1aef3ea5779475f9f-dirty
author proteore
date Fri, 10 May 2019 04:50:22 -0400
parents 6cbb76823b7b
children bf6940ff60a8
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1 <?xml version="1.0"?>
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2 <data_managers>
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3 <data_manager tool_file="data_manager/resource_building.xml" id="resource_building">
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4 <data_table name="proteore_peptide_atlas">
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5 <output>
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6 <column name="id"/>
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7 <column name="name" />
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8 <column name="tissue" />
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9 <column name="value" output_ref="output" >
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10 <move type="file">
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11 <!--source>${path}/${value}.tsv</source-->
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12 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">peptide_atlas/</target>
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13 </move>
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14 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/peptide_atlas/${id}.tsv</value_translation>
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15 <value_translation type="function">abspath</value_translation>
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16 </column>
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17 </output>
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18 </data_table>
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19 <data_table name="proteore_protein_atlas_normal_tissue">
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20 <output>
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21 <column name="id"/>
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22 <column name="name" />
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23 <column name="tissue" />
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24 <column name="value" output_ref="output" >
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25 <move type="file">
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26 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
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27 </move>
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28 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation>
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29 <value_translation type="function">abspath</value_translation>
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30 </column>
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31 </output>
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32 </data_table>
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33 <data_table name="proteore_protein_atlas_tumor_tissue">
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34 <output>
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35 <column name="id"/>
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36 <column name="name" />
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37 <column name="tissue" />
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38 <column name="value" output_ref="output" >
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39 <move type="file">
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40 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
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41 </move>
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42 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation>
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43 <value_translation type="function">abspath</value_translation>
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44 </column>
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45 </output>
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46 </data_table>
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47 <data_table name="proteore_id_mapping_Human">
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48 <output>
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49 <column name="id" />
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50 <column name="release"/>
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51 <column name="name" />
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52 <column name="species" />
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53 <column name="value" output_ref="output" >
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54 <move type="file">
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55 <!--source>${path}</source-->
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56 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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57 </move>
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58 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
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59 <value_translation type="function">abspath</value_translation>
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60 </column>
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61 </output>
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62 </data_table>
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63 <data_table name="proteore_id_mapping_Mouse">
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64 <output>
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65 <column name="id" />
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66 <column name="release"/>
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67 <column name="name" />
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68 <column name="species" />
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69 <column name="value" output_ref="output" >
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70 <move type="file">
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71 <!--source>${path}</source-->
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72 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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73 </move>
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74 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
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75 <value_translation type="function">abspath</value_translation>
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76 </column>
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77 </output>
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78 </data_table>
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79 <data_table name="proteore_id_mapping_Rat">
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80 <output>
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81 <column name="id" />
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82 <column name="release"/>
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83 <column name="name" />
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84 <column name="species" />
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85 <column name="value" output_ref="output" >
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86 <move type="file">
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87 <!--source>${path}</source-->
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88 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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89 </move>
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90 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation>
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91 <value_translation type="function">abspath</value_translation>
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92 </column>
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93 </output>
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94 </data_table>
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95 <data_table name="proteore_biogrid_dictionaries">
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96 <output>
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97 <column name="id" />
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98 <column name="name" />
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99 <column name="species" />
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100 <column name="value" output_ref="output" >
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101 <move type="file">
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102 <!--source>${path}</source-->
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103 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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104 </move>
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105 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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106 <value_translation type="function">abspath</value_translation>
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107 </column>
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108 </output>
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109 </data_table>
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110 <data_table name="proteore_bioplex_dictionaries">
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111 <output>
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112 <column name="id" />
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113 <column name="name" />
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114 <column name="species" />
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115 <column name="value" output_ref="output" >
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116 <move type="file">
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117 <!--source>${path}</source-->
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118 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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119 </move>
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120 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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121 <value_translation type="function">abspath</value_translation>
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122 </column>
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123 </output>
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124 </data_table>
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125 <data_table name="proteore_humap_dictionaries">
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126 <output>
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127 <column name="id" />
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128 <column name="name" />
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129 <column name="species" />
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130 <column name="value" output_ref="output" >
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131 <move type="file">
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132 <!--source>${path}</source-->
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133 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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134 </move>
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135 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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136 <value_translation type="function">abspath</value_translation>
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137 </column>
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138 </output>
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139 </data_table>
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140 <data_table name="proteore_nextprot_ref">
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141 <output>
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142 <column name="id" />
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143 <column name="release"/>
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144 <column name="name" />
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145 <column name="value" output_ref="output" >
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146 <move type="file">
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147 <!--source>${path}</source-->
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148 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">proteore_nextprot_ref/</target>
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149 </move>
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150 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/proteore_nextprot_ref/${release}.tsv</value_translation>
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151 <value_translation type="function">abspath</value_translation>
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152 </column>
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153 </output>
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154 </data_table>
0
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155 </data_manager>
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156 </data_managers>