Mercurial > repos > proteore > proteore_data_manager
diff data_manager_conf.xml @ 2:9ec42cb35abd draft
planemo upload commit 339ab77a83db03409c8001324f10b36ff5b13a39-dirty
| author | proteore |
|---|---|
| date | Wed, 19 Jun 2019 04:42:03 -0400 |
| parents | 9e31ea9fc7ea |
| children | e967a99d66b3 |
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--- a/data_manager_conf.xml Tue Apr 16 07:46:59 2019 -0400 +++ b/data_manager_conf.xml Wed Jun 19 04:42:03 2019 -0400 @@ -19,13 +19,14 @@ <data_table name="proteore_protein_atlas_normal_tissue"> <output> <column name="id"/> + <column name="release"/> <column name="name" /> <column name="tissue" /> <column name="value" output_ref="output" > <move type="file"> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -33,13 +34,14 @@ <data_table name="proteore_protein_atlas_tumor_tissue"> <output> <column name="id"/> + <column name="release"/> <column name="name" /> <column name="tissue" /> <column name="value" output_ref="output" > <move type="file"> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">protein_atlas/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/protein_atlas/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -47,6 +49,7 @@ <data_table name="proteore_id_mapping_Human"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -54,7 +57,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -62,6 +65,7 @@ <data_table name="proteore_id_mapping_Mouse"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -69,7 +73,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -77,6 +81,7 @@ <data_table name="proteore_id_mapping_Rat"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -84,7 +89,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">id_mapping/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/id_mapping/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -92,6 +97,7 @@ <data_table name="proteore_biogrid_dictionaries"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -99,7 +105,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -107,6 +113,7 @@ <data_table name="proteore_bioplex_dictionaries"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -114,7 +121,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -122,6 +129,7 @@ <data_table name="proteore_humap_dictionaries"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="species" /> <column name="value" output_ref="output" > @@ -129,7 +137,7 @@ <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">PPI_dictionaries/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${id}.json</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/PPI_dictionaries/${release}.json</value_translation> <value_translation type="function">abspath</value_translation> </column> </output> @@ -137,13 +145,14 @@ <data_table name="proteore_nextprot_ref"> <output> <column name="id" /> + <column name="release"/> <column name="name" /> <column name="value" output_ref="output" > <move type="file"> <!--source>${path}</source--> <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">proteore_nextprot_ref/</target> </move> - <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/proteore_nextprot_ref/${id}.tsv</value_translation> + <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/proteore_nextprot_ref/${release}.tsv</value_translation> <value_translation type="function">abspath</value_translation> </column> </output>