# HG changeset patch
# User devteam
# Date 1430424965 14400
# Node ID 404ba485ec01ee8c09d4feedb63c0574c36a93a6
# Parent  cdef63d8a1411f8bd772ab002308882fa3f655e7
Uploaded

diff -r cdef63d8a141 -r 404ba485ec01 data_manager/kraken_database_builder.xml
--- a/data_manager/kraken_database_builder.xml	Mon Apr 27 16:13:06 2015 -0400
+++ b/data_manager/kraken_database_builder.xml	Thu Apr 30 16:16:05 2015 -0400
@@ -21,7 +21,9 @@
             #end if
         #end for
         #for $fasta in $input_fasta:
-            kraken-build --threads \${GALAXY_SLOTS:-1} --db "${database_name}" --add-to-library "$fasta"  &&
+            #if str($fasta) != 'None':
+                kraken-build --threads \${GALAXY_SLOTS:-1} --db "${database_name}" --add-to-library "$fasta"  &&
+            #end if
         #end for
         kraken-build --threads \${GALAXY_SLOTS:-1} --db "${database_name}" --build --kmer-len ${kmer_len} --minimizer-len ${minimizer_len}  &&
         cd .. && python \$KRAKEN_SCRIPT_PATH/data_manager/make_json.py --db "${database_name}" --out "${out_file}"
@@ -45,4 +47,4 @@
     <citations>
         <citation type="doi">10.1186/gb-2014-15-3-r46</citation>
     </citations>
-</tool>
\ No newline at end of file
+</tool>
diff -r cdef63d8a141 -r 404ba485ec01 tool_dependencies.xml
--- a/tool_dependencies.xml	Mon Apr 27 16:13:06 2015 -0400
+++ b/tool_dependencies.xml	Thu Apr 30 16:16:05 2015 -0400
@@ -4,7 +4,7 @@
         <environment_variable action="set_to" name="KRAKEN_SCRIPT_PATH">$REPOSITORY_INSTALL_DIR</environment_variable>
     </set_environment>
     <package name="kraken" version="0.10.5">
-        <repository changeset_revision="c949a8bd92ec" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+        <repository changeset_revision="a3189c292911" name="package_kraken_0_10_5" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
     <package name="jellyfish" version="1.1.11">
         <repository changeset_revision="9529f5e46f4e" name="package_jellyfish_1_1_11" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />