# HG changeset patch
# User sanbi-uwc
# Date 1536410918 14400
# Node ID 0347d4d8b436034ed13ce46fe7b6c9dd8e430d0d
# Parent  d10b5e0ed486c260465db75d8468f020694c8334
planemo upload for repository https://github.com/pvanheus/refseq_fasta_data_manager commit 687fed3e6ffed745baf5d6241ee82f2bd9671256-dirty

diff -r d10b5e0ed486 -r 0347d4d8b436 data_manager/fetch_refseq.xml
--- a/data_manager/fetch_refseq.xml	Sat Sep 08 04:19:52 2018 -0400
+++ b/data_manager/fetch_refseq.xml	Sat Sep 08 08:48:38 2018 -0400
@@ -1,4 +1,4 @@
-<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.17" tool_type="manage_data">
+<tool id="data_manager_fetch_refseq" name="RefSeq data manager" version="0.0.18" tool_type="manage_data">
     <description>Fetch FASTA data from NCBI RefSeq and update all_fasta data table</description>
     <requirements>
         <requirement type="package" version="3">python</requirement>
diff -r d10b5e0ed486 -r 0347d4d8b436 data_manager_conf.xml
--- a/data_manager_conf.xml	Sat Sep 08 04:19:52 2018 -0400
+++ b/data_manager_conf.xml	Sat Sep 08 08:48:38 2018 -0400
@@ -9,25 +9,9 @@
                 <column name="path" output_ref="output_file" >
                     <move type="file">
                         <source>${path}</source>
-                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}"><![CDATA[
-                        #set name_parts = str($dbkey).split('.')
-                        #if len($name_parts) == 3:
-                            #set release_num = $name_parts[1]
-                        #else
-                            #set release_num = 'UNKNOWN_RELEASE'
-                        #end if                        
-                        refseq/${release_num}/${value}.fasta
-                        ]]></target>
+                        <target base="${GALAXY_DATA_MANAGER_DATA_PATH}">refseq/#echo str($dbkey).split('.')[1]#/${value}.fasta</target>
                     </move>
-                    <value_translation><![CDATA[
-                        #set name_parts = str($dbkey).split('.')
-                        #if len($name_parts) == 3:
-                            #set release_num = $name_parts[1]
-                        #else
-                            #set release_num = 'UNKNOWN_RELEASE'
-                        #end if                        
-                        refseq/${release_num}/${value}.fasta
-                        ]]></value_translation>
+                    <value_translation>refseq/#echo str($dbkey).split('.')[1]#/${value}.fasta</value_translation>
                     <value_translation type="function">abspath</value_translation>
                 </column>
             </output>