# HG changeset patch
# User iuc
# Date 1473923754 14400
# Node ID de991e82646aaabccd807cb68d70f3da3506a709
# Parent  ddd44c79a0655804a4a78648a974e0b89d1d6e40
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_bowtie_index_builder commit e31f6e2900ebbde6f3679882994c761209aeb9e2-dirty

diff -r ddd44c79a065 -r de991e82646a data_manager/bowtie_color_space_index_builder.xml
--- a/data_manager/bowtie_color_space_index_builder.xml	Thu Sep 15 03:13:57 2016 -0400
+++ b/data_manager/bowtie_color_space_index_builder.xml	Thu Sep 15 03:15:54 2016 -0400
@@ -1,7 +1,7 @@
-<tool id="bowtie_color_space_index_builder_data_manager" name="Bowtie Color index" tool_type="manage_data" version="0.0.2">
+<tool id="bowtie_color_space_index_builder_data_manager" name="Bowtie Color index" tool_type="manage_data" version="0.0.3">
     <description>builder</description>
     <requirements>
-        <requirement type="package" version="0.12.7">bowtie</requirement>
+        <requirement type="package" version="1.1.2">bowtie</requirement>
     </requirements>
     <command interpreter="python">
         bowtie_index_builder.py
diff -r ddd44c79a065 -r de991e82646a data_manager/bowtie_index_builder.py
--- a/data_manager/bowtie_index_builder.py	Thu Sep 15 03:13:57 2016 -0400
+++ b/data_manager/bowtie_index_builder.py	Thu Sep 15 03:15:54 2016 -0400
@@ -32,7 +32,7 @@
     os.symlink( fasta_filename, sym_linked_fasta_filename )
     args = [ 'bowtie-build' ]
     if color_space:
-        args.append( '-c' )
+        args.append( '-C' )
     args.append( sym_linked_fasta_filename)
     args.append( fasta_base_name )
     args.append( sym_linked_fasta_filename )
diff -r ddd44c79a065 -r de991e82646a data_manager/bowtie_index_builder.xml
--- a/data_manager/bowtie_index_builder.xml	Thu Sep 15 03:13:57 2016 -0400
+++ b/data_manager/bowtie_index_builder.xml	Thu Sep 15 03:15:54 2016 -0400
@@ -1,7 +1,7 @@
-<tool id="bowtie_index_builder_data_manager" name="Bowtie index" tool_type="manage_data" version="0.0.2">
+<tool id="bowtie_index_builder_data_manager" name="Bowtie index" tool_type="manage_data" version="0.0.3">
     <description>builder</description>
     <requirements>
-        <requirement type="package" version="0.12.7">bowtie</requirement>
+        <requirement type="package" version="1.1.2">bowtie</requirement>
     </requirements>
     <command interpreter="python">
         bowtie_index_builder.py
diff -r ddd44c79a065 -r de991e82646a data_manager_conf.xml
--- a/data_manager_conf.xml	Thu Sep 15 03:13:57 2016 -0400
+++ b/data_manager_conf.xml	Thu Sep 15 03:15:54 2016 -0400
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <data_managers>
-    <data_manager tool_file="data_manager/bowtie_index_builder.xml" id="bowtie_index_builder" version="0.0.1">
+    <data_manager tool_file="data_manager/bowtie_index_builder.xml" id="bowtie_index_builder" version="0.0.3">
         <data_table name="bowtie_indexes">
             <output>
                 <column name="value" />
@@ -17,7 +17,7 @@
             </output>
         </data_table>
     </data_manager>
-    <data_manager tool_file="data_manager/bowtie_color_space_index_builder.xml" id="bowtie_color_space_index_builder" version="0.0.1">
+    <data_manager tool_file="data_manager/bowtie_color_space_index_builder.xml" id="bowtie_color_space_index_builder" version="0.0.3">
         <data_table name="bowtie_indexes_color">
             <output>
                 <column name="value" />
diff -r ddd44c79a065 -r de991e82646a tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Sep 15 03:13:57 2016 -0400
+++ b/tool_dependencies.xml	Thu Sep 15 03:15:54 2016 -0400
@@ -1,6 +1,6 @@
 <?xml version="1.0"?>
 <tool_dependency>
-    <package name="bowtie" version="0.12.7">
-        <repository changeset_revision="f0faa5eea2eb" name="package_bowtie_0_12_7" owner="devteam" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    <package name="bowtie" version="1.1.2">
+        <repository changeset_revision="8584a4574ab1" name="package_bowtie_1_1_2" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
     </package>
 </tool_dependency>