Mercurial > repos > devteam > data_manager_fetch_ncbi_taxonomy

diff data_manager_conf.xml @ 6:6dd9e00dea95 draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_fetch_ncbi_taxonomy/ commit 3d78021971b83d585c432830cee0488ada7bd257"
author iuc
date Fri, 19 Mar 2021 21:43:42 +0000
parents fafcd2f5db36
children
line wrap: on
line diff
--- a/data_manager_conf.xml	Sun Nov 22 12:48:48 2020 +0000
+++ b/data_manager_conf.xml	Fri Mar 19 21:43:42 2021 +0000
@@ -1,12 +1,13 @@
 <?xml version="1.0"?>
 <data_managers>
-    <data_manager tool_file="data_manager/ncbi_taxonomy_fetcher.xml" id="ncbi_taxonomy_fetcher" version="1.0.0">
+    <data_manager tool_file="data_manager/ncbi_taxonomy_fetcher.xml" id="ncbi_taxonomy_fetcher" version="1.0.3">
         <data_table name="ncbi_taxonomy">
             <output>
                 <column name="value" />
                 <column name="name" />
                 <column name="path" output_ref="out_file">
                     <move type="directory" relativize_symlinks="True">
+                        <source>${path}/taxonomy</source>
                         <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">ncbi_taxonomy/${value}</target>
                     </move>
                     <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/ncbi_taxonomy/${value}</value_translation>
@@ -14,5 +15,19 @@
                 </column>
             </output>
         </data_table>
+        <data_table name="ncbi_accession2taxid">
+            <output>
+                <column name="value" />
+                <column name="name" />
+                <column name="path" output_ref="out_file">
+                    <move type="directory" relativize_symlinks="True">
+                        <source>${path}/accession2taxid</source>
+                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">ncbi_accession2taxid/${value}</target>
+                    </move>
+                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/ncbi_accession2taxid/${value}</value_translation>
+                    <value_translation type="function">abspath</value_translation>
+                </column>
+            </output>
+        </data_table>
     </data_manager>
 </data_managers>