Mercurial > repos > proteore > proteore_data_manager

comparison data_manager_conf.xml @ 26:bf6940ff60a8 draft

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planemo upload commit 0290724216a2c445b4e28842153b84a1b28f4e9a-dirty
author proteore
date Thu, 16 May 2019 07:29:01 -0400
parents 6e36dd9abcb5
children e09edc8b1c90
comparison
equal deleted inserted replaced
25:6e36dd9abcb5 26:bf6940ff60a8
17 </output> 17 </output>
18 </data_table> 18 </data_table>
19 <data_table name="proteore_protein_atlas_normal_tissue"> 19 <data_table name="proteore_protein_atlas_normal_tissue">
20 <output> 20 <output>
21 <column name="id"/> 21 <column name="id"/>
22 <column name="release"/>
22 <column name="name" /> 23 <column name="name" />
23 <column name="tissue" /> 24 <column name="tissue" />
24 <column name="value" output_ref="output" > 25 <column name="value" output_ref="output" >
25 <move type="file"> 26 <move type="file">
26 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target> 27 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
27 </move> 28 </move>
28 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation> 29 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation>
29 <value_translation type="function">abspath</value_translation> 30 <value_translation type="function">abspath</value_translation>
30 </column> 31 </column>
31 </output> 32 </output>
32 </data_table> 33 </data_table>
33 <data_table name="proteore_protein_atlas_tumor_tissue"> 34 <data_table name="proteore_protein_atlas_tumor_tissue">
34 <output> 35 <output>
35 <column name="id"/> 36 <column name="id"/>
37 <column name="release"/>
36 <column name="name" /> 38 <column name="name" />
37 <column name="tissue" /> 39 <column name="tissue" />
38 <column name="value" output_ref="output" > 40 <column name="value" output_ref="output" >
39 <move type="file"> 41 <move type="file">
40 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target> 42 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target>
41 </move> 43 </move>
42 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation> 44 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation>
43 <value_translation type="function">abspath</value_translation> 45 <value_translation type="function">abspath</value_translation>
44 </column> 46 </column>
45 </output> 47 </output>
46 </data_table> 48 </data_table>
47 <data_table name="proteore_id_mapping_Human"> 49 <data_table name="proteore_id_mapping_Human">
93 </output> 95 </output>
94 </data_table> 96 </data_table>
95 <data_table name="proteore_biogrid_dictionaries"> 97 <data_table name="proteore_biogrid_dictionaries">
96 <output> 98 <output>
97 <column name="id" /> 99 <column name="id" />
100 <column name="release"/>
98 <column name="name" /> 101 <column name="name" />
99 <column name="species" /> 102 <column name="species" />
100 <column name="value" output_ref="output" > 103 <column name="value" output_ref="output" >
101 <move type="file"> 104 <move type="file">
102 <!--source>${path}</source--> 105 <!--source>${path}</source-->
103 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> 106 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
104 </move> 107 </move>
105 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> 108 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
106 <value_translation type="function">abspath</value_translation> 109 <value_translation type="function">abspath</value_translation>
107 </column> 110 </column>
108 </output> 111 </output>
109 </data_table> 112 </data_table>
110 <data_table name="proteore_bioplex_dictionaries"> 113 <data_table name="proteore_bioplex_dictionaries">
111 <output> 114 <output>
112 <column name="id" /> 115 <column name="id" />
116 <column name="release"/>
113 <column name="name" /> 117 <column name="name" />
114 <column name="species" /> 118 <column name="species" />
115 <column name="value" output_ref="output" > 119 <column name="value" output_ref="output" >
116 <move type="file"> 120 <move type="file">
117 <!--source>${path}</source--> 121 <!--source>${path}</source-->
118 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> 122 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
119 </move> 123 </move>
120 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> 124 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
121 <value_translation type="function">abspath</value_translation> 125 <value_translation type="function">abspath</value_translation>
122 </column> 126 </column>
123 </output> 127 </output>
124 </data_table> 128 </data_table>
125 <data_table name="proteore_humap_dictionaries"> 129 <data_table name="proteore_humap_dictionaries">
126 <output> 130 <output>
127 <column name="id" /> 131 <column name="id" />
132 <column name="release"/>
128 <column name="name" /> 133 <column name="name" />
129 <column name="species" /> 134 <column name="species" />
130 <column name="value" output_ref="output" > 135 <column name="value" output_ref="output" >
131 <move type="file"> 136 <move type="file">
132 <!--source>${path}</source--> 137 <!--source>${path}</source-->
133 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> 138 <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target>
134 </move> 139 </move>
135 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> 140 <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation>
136 <value_translation type="function">abspath</value_translation> 141 <value_translation type="function">abspath</value_translation>
137 </column> 142 </column>
138 </output> 143 </output>
139 </data_table> 144 </data_table>
140 <data_table name="proteore_nextprot_ref"> 145 <data_table name="proteore_nextprot_ref">