# HG changeset patch
# User peterjc
# Date 1495125862 14400
# Node ID 5737e2e7179a6ac5a8e9989a7110b6eebcbb1c88
# Parent  ccf0a59e8537e512b36a5489907423f2c564bb93
planemo upload for repository https://github.com/peterjc/galaxy_blast/tree/master/tools/blastxml_to_top_descr commit 21f6d9932d322034e4cea5fee23b24bf0b1e1e85-dirty

diff -r ccf0a59e8537 -r 5737e2e7179a tools/blastxml_to_top_descr/README.rst
--- a/tools/blastxml_to_top_descr/README.rst	Thu May 18 07:40:03 2017 -0400
+++ b/tools/blastxml_to_top_descr/README.rst	Thu May 18 12:44:22 2017 -0400
@@ -73,6 +73,8 @@
 v0.1.1  - Embed citation information in the tool XML (new Galaxy feature).
 v0.1.2  - Reorder XML elements (internal change only).
         - Planemo for Tool Shed upload (``.shed.yml``, internal change only).
+        - Use ``<command detect_errors="aggressive">`` (internal change only).
+        - Single quote command line arguments (internal change only).
 ======= ======================================================================
 
 
diff -r ccf0a59e8537 -r 5737e2e7179a tools/blastxml_to_top_descr/blastxml_to_top_descr.xml
--- a/tools/blastxml_to_top_descr/blastxml_to_top_descr.xml	Thu May 18 07:40:03 2017 -0400
+++ b/tools/blastxml_to_top_descr/blastxml_to_top_descr.xml	Thu May 18 12:44:22 2017 -0400
@@ -1,22 +1,19 @@
 <tool id="blastxml_to_top_descr" name="BLAST top hit descriptions" version="0.1.2">
     <description>Make a table from BLAST output</description>
-    <stdio>
-        <!-- Assume anything other than zero is an error -->
-        <exit_code range="1:" />
-        <exit_code range=":-1" />
-    </stdio>
-    <version_command interpreter="python">blastxml_to_top_descr.py --version</version_command>
-    <command interpreter="python">
-blastxml_to_top_descr.py
--f "$input.in_format"
+    <version_command>
+python $__tool_directory__/blastxml_to_top_descr.py --version
+    </version_command>
+    <command detect_errors="aggressive">
+python $__tool_directory__/blastxml_to_top_descr.py
+-f '$input.in_format'
 #if $input.in_format == "tabular":
     --qseqid $input.qseqid
     --sseqid $input.sseqid
     --salltitles $input.salltitles
 #end if
--o "${tabular_file}"
+-o '${tabular_file}'
 -t ${topN}
-"${in_file}"
+'${in_file}'
     </command>
     <inputs>
         <conditional name="input">