# HG changeset patch
# User dfornika
# Date 1551319422 18000
# Node ID 18523fd8bec919c6662bd060ae070c789855b3ed
# Parent  f9a7275b1cad7108188f70e54922672198faf37a
planemo upload for repository https://github.com/dfornika/galaxytools/tree/master/data_managers/data_manager_build_kraken2_database/ commit 9b4d704c147761201fa9f1450fcf5ba6871104d8-dirty

diff -r f9a7275b1cad -r 18523fd8bec9 data_manager/kraken2_standard_database_builder.xml
--- a/data_manager/kraken2_standard_database_builder.xml	Wed Feb 27 20:48:06 2019 -0500
+++ b/data_manager/kraken2_standard_database_builder.xml	Wed Feb 27 21:03:42 2019 -0500
@@ -7,16 +7,17 @@
     <version_command>kraken2 -version | head -n 1 | awk '{print $NF}'</version_command>
     <command detect_errors="exit_code">
     <![CDATA[
-        #set $library_list = str($libraries).split(',')
-        mkdir kraken2-database && cd kraken2-database &&
+	export KRAKEN2_DB_NAME="`date --iso-8601`_standard" &&
+        mkdir kraken2_database && cd kraken2_database &&
         kraken2-build \
           --standard \
+          --db ${KRAKEN2_DB_NAME} \
           --threads ${GALAXY_SLOTS:-1} \
           --kmer-len ${kmer_len} \
           --minimizer-len ${minimizer_len} \
           --minimizer-spaces ${minimizer_spaces} &&
         cd .. &&
-        python '$__tool_directory__/make_json.py' --db `date --iso-8601`_standard --out '${out_file}'
+        python '$__tool_directory__/make_json.py' --db ${KRAKEN2_DB_NAME} --out '${out_file}'
     ]]>
     </command>
     <inputs>