Mercurial > repos > proteore > proteore_data_manager

annotate data_manager_conf.xml @ 0:9e31ea9fc7ea draft

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planemo upload commit 567ba7934c0ca55529dfeb5e7ca0935ace260ad7-dirty
author proteore
date Wed, 13 Mar 2019 06:30:42 -0400
parents
children 9ec42cb35abd
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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/${id}.tsv</value_translation>
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43 <value_translation type="function">abspath</value_translation>
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44 </column>
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45 </output>
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46 </data_table>
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47 <data_table name="proteore_id_mapping_Human">
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48 <output>
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49 <column name="id" />
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50 <column name="name" />
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51 <column name="species" />
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52 <column name="value" output_ref="output" >
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53 <move type="file">
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54 <!--source>${path}</source-->
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55 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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56 </move>
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57 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation>
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58 <value_translation type="function">abspath</value_translation>
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59 </column>
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60 </output>
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61 </data_table>
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62 <data_table name="proteore_id_mapping_Mouse">
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63 <output>
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64 <column name="id" />
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65 <column name="name" />
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66 <column name="species" />
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67 <column name="value" output_ref="output" >
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68 <move type="file">
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69 <!--source>${path}</source-->
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70 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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71 </move>
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72 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation>
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73 <value_translation type="function">abspath</value_translation>
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74 </column>
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75 </output>
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76 </data_table>
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77 <data_table name="proteore_id_mapping_Rat">
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78 <output>
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79 <column name="id" />
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80 <column name="name" />
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81 <column name="species" />
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82 <column name="value" output_ref="output" >
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83 <move type="file">
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84 <!--source>${path}</source-->
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85 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target>
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86 </move>
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87 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation>
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88 <value_translation type="function">abspath</value_translation>
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89 </column>
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90 </output>
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91 </data_table>
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92 <data_table name="proteore_biogrid_dictionaries">
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93 <output>
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94 <column name="id" />
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95 <column name="name" />
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96 <column name="species" />
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97 <column name="value" output_ref="output" >
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98 <move type="file">
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99 <!--source>${path}</source-->
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100 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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101 </move>
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102 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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103 <value_translation type="function">abspath</value_translation>
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104 </column>
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105 </output>
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106 </data_table>
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107 <data_table name="proteore_bioplex_dictionaries">
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108 <output>
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109 <column name="id" />
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110 <column name="name" />
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111 <column name="species" />
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112 <column name="value" output_ref="output" >
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113 <move type="file">
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114 <!--source>${path}</source-->
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115 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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116 </move>
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117 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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118 <value_translation type="function">abspath</value_translation>
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119 </column>
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120 </output>
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121 </data_table>
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122 <data_table name="proteore_humap_dictionaries">
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123 <output>
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124 <column name="id" />
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125 <column name="name" />
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126 <column name="species" />
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127 <column name="value" output_ref="output" >
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128 <move type="file">
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129 <!--source>${path}</source-->
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130 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
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131 </move>
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132 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation>
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133 <value_translation type="function">abspath</value_translation>
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134 </column>
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135 </output>
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136 </data_table>
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137 <data_table name="proteore_nextprot_ref">
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138 <output>
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139 <column name="id" />
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140 <column name="name" />
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141 <column name="value" output_ref="output" >
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142 <move type="file">
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143 <!--source>${path}</source-->
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144 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">proteore_nextprot_ref/</target>
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145 </move>
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146 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/proteore_nextprot_ref/${id}.tsv</value_translation>
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147 <value_translation type="function">abspath</value_translation>
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148 </column>
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149 </output>
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150 </data_table>
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151 </data_manager>
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152 </data_managers>