# HG changeset patch
# User dfornika
# Date 1551398104 18000
# Node ID b03007bc0f0564bb264c52b968d44b18c6201262
# Parent  cf0cda80b659394ffd4ffc633a5f6ae1cf724d66
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_kraken2_database/ commit f05f93ee024df8b38efa1c92db9785d52c726f85-dirty

diff -r cf0cda80b659 -r b03007bc0f05 data_manager/kraken2_build_custom.py
--- a/data_manager/kraken2_build_custom.py	Thu Feb 28 18:18:01 2019 -0500
+++ b/data_manager/kraken2_build_custom.py	Thu Feb 28 18:55:04 2019 -0500
@@ -76,6 +76,7 @@
     parser.add_argument( '-k', '--kmer-len', dest='kmer_len', type=int, default=35, help='kmer length' )
     parser.add_argument( '-m', '--minimizer-len', dest='minimizer_len', type=int, default=31, help='minimizer length' )
     parser.add_argument( '-s', '--minimizer-spaces', dest='minimizer_spaces', default=6, help='minimizer spaces' )
+    parser.add_argument( '-f', '--fasta', dest='fasta', help='fasta' )
     parser.add_argument( '-t', '--threads', dest='threads', default=1, help='threads' )
     args = parser.parse_args()
 
diff -r cf0cda80b659 -r b03007bc0f05 data_manager_conf.xml
--- a/data_manager_conf.xml	Thu Feb 28 18:18:01 2019 -0500
+++ b/data_manager_conf.xml	Thu Feb 28 18:55:04 2019 -0500
@@ -44,4 +44,19 @@
 	    </output>
 	</data_table>
     </data_manager>
+    <data_manager tool_file="data_manager/kraken2_build_custom.xml" id="kraken2_build_custom" version="1.0">
+	<data_table name="kraken2_databases">
+	    <output>
+		<column name="value"/>
+		<column name="name"/>
+		<column name="path" output_ref="out_file">
+		    <move type="directory" relativize_symlinks="True">
+			<target base="${GALAXY_DATA_MANAGER_DATA_PATH}">kraken2_database/${value}</target>
+		    </move>
+		    <value_translation>${GALAXY_DATA_MANAGER_DATA_PATH}/kraken2_database/${value}</value_translation>
+		    <value_translation type="function">abspath</value_translation>
+		</column>
+	    </output>
+	</data_table>
+    </data_manager>
 </data_managers>