# HG changeset patch
# User iuc
# Date 1601197406 0
# Node ID 6437fc47878f5cfc589a703ad7c62bdf99b0093e
# Parent  57274fe5e01a2c21aabcb85c1a9d6ed183ad0398
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/data_managers/data_manager_salmon_index_builder commit 5f199df1a4ce3c569c3778e3eb67019fc1b0c8db"

diff -r 57274fe5e01a -r 6437fc47878f data_manager/salmon_index_builder.py
--- a/data_manager/salmon_index_builder.py	Thu Nov 28 15:48:04 2019 -0500
+++ b/data_manager/salmon_index_builder.py	Sun Sep 27 09:03:26 2020 +0000
@@ -27,7 +27,7 @@
 
 def build_salmon_index(data_manager_dict, options, params, sequence_id, sequence_name):
     data_table_name = options.data_table_name or DEFAULT_DATA_TABLE_NAME
-    target_directory = params['output_data' ][0]['extra_files_path']
+    target_directory = params['output_data'][0]['extra_files_path']
     if not os.path.exists(target_directory):
         os.mkdir(target_directory)
     args = ['salmon', 'index']
diff -r 57274fe5e01a -r 6437fc47878f data_manager/salmon_index_builder.xml
--- a/data_manager/salmon_index_builder.xml	Thu Nov 28 15:48:04 2019 -0500
+++ b/data_manager/salmon_index_builder.xml	Sun Sep 27 09:03:26 2020 +0000
@@ -1,11 +1,11 @@
-<tool id="salmon_index_builder_data_manager" name="Salmon" tool_type="manage_data" version="0.14.1" profile="19.01">
+<tool id="salmon_index_builder_data_manager" name="Salmon" tool_type="manage_data" version="1.3.0" profile="19.01">
     <description>index builder</description>
     <requirements>
-        <requirement type="package" version="0.14.1">salmon</requirement>
+        <requirement type="package" version="1.3.0">salmon</requirement>
         <requirement type="package" version="3.7">python</requirement>
     </requirements>
    <macros>
-       <token name="@IDX_VERSION@">q6</token>
+       <token name="@IDX_VERSION@">q7</token>
    </macros>
     <command detect_errors="exit_code"><![CDATA[
         python '$__tool_directory__/salmon_index_builder.py' --output '${out_file}'
@@ -36,7 +36,7 @@
             <param name="sequence_id" value="sequence_id"/>
             <output name="out_file">
                 <assert_contents>
-                    <has_line line='{"data_tables": {"salmon_indexes_versioned": [{"dbkey": "phiX174", "name": "sequence_name", "path": "sequence_id", "value": "sequence_id", "version": "q6"}]}}' />
+                    <has_line line='{"data_tables": {"salmon_indexes_versioned": [{"dbkey": "phiX174", "name": "sequence_name", "path": "sequence_id", "value": "sequence_id", "version": "q7"}]}}' />
                 </assert_contents>
             </output>
         </test>