Mercurial > repos > dpryan79 > data_manager_star_index_builder

changeset 0:2c818c851713 draft

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Uploaded
author dpryan79
date Tue, 18 Apr 2017 10:47:33 -0400
parents
children 608029af725e
files data_manager_conf.xml
diffstat 1 files changed, 24 insertions(+), 0 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/data_manager_conf.xml	Tue Apr 18 10:47:33 2017 -0400
@@ -0,0 +1,24 @@
+<?xml version="1.0"?>
+<data_managers>
+    <data_manager tool_file="data_manager/rna_star_index_builder.xml" id="rna_star_index_builder" version="0.0.3">
+        <data_table name="rnastar_index2">
+            <output>
+                <column name="value" />
+                <column name="dbkey" />
+                <column name="name" />
+                <column name="path" output_ref="out_file" >
+                    <move type="directory" relativize_symlinks="True">
+                        <!-- <source>${path}</source>
+                            out_file.extra_files_path is used as base by default
+                            if no source, eg for type=directory, then refers to base 
+                        -->
+                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">${dbkey}/rnastar_index2/${value}</target>
+                    </move>
+                    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/${dbkey}/rnastar_index2/${value}/${path}</value_translation>
+                    <value_translation type="function">abspath</value_translation>
+                </column>
+                <column name="withGTF" />
+            </output>
+        </data_table>
+    </data_manager>
+</data_managers>