# HG changeset patch
# User peterjc
# Date 1494519659 14400
# Node ID 86710edcec02137a2f81bb98253184aeaccffc3b
# Parent  31f5701cd2e95c2f62d82068c6e37f8b56527bed
v0.2.5 use <command detect_errors="aggressive"> and other internal changes

diff -r 31f5701cd2e9 -r 86710edcec02 tools/sample_seqs/README.rst
--- a/tools/sample_seqs/README.rst	Thu May 11 07:24:38 2017 -0400
+++ b/tools/sample_seqs/README.rst	Thu May 11 12:20:59 2017 -0400
@@ -73,6 +73,8 @@
         - Clarify paired read example in help text.
 v0.2.4  - Depends on Biopython 1.67 via legacy Tool Shed package or bioconda.
         - Style changes to Python code (internal change only).
+v0.2.5  - Use ``<command detect_errors="aggressive">`` (internal change only).
+        - Single quote command line arguments (internal change only).
 ======= ======================================================================
 
 
diff -r 31f5701cd2e9 -r 86710edcec02 tools/sample_seqs/sample_seqs.xml
--- a/tools/sample_seqs/sample_seqs.xml	Thu May 11 07:24:38 2017 -0400
+++ b/tools/sample_seqs/sample_seqs.xml	Thu May 11 12:20:59 2017 -0400
@@ -1,22 +1,19 @@
-<tool id="sample_seqs" name="Sub-sample sequences files" version="0.2.4">
+<tool id="sample_seqs" name="Sub-sample sequences files" version="0.2.5">
     <description>e.g. to reduce coverage</description>
     <requirements>
         <requirement type="package" version="1.67">biopython</requirement>
     </requirements>
-    <stdio>
-        <!-- Anything other than zero is an error -->
-        <exit_code range="1:" />
-        <exit_code range=":-1" />
-    </stdio>
-    <version_command interpreter="python">sample_seqs.py --version</version_command>
-    <command interpreter="python">
-sample_seqs.py -f "$input_file.ext" -i "$input_file" -o "$output_file"
+    <version_command>
+python $__tool_directory__/sample_seqs.py --version
+    </version_command>
+    <command detect_errors="aggressive">
+python $__tool_directory__/sample_seqs.py -f '$input_file.ext' -i '$input_file' -o '$output_file'
 #if str($sampling.type) == "everyNth":
--n "${sampling.every_n}"
+-n '${sampling.every_n}'
 #elif str($sampling.type) == "percentage":
--p "${sampling.percent}"
+-p '${sampling.percent}'
 #else
--c "${sampling.count}"
+-c '${sampling.count}'
 #end if
 #if $interleaved
 --interleaved