# HG changeset patch
# User Matthew Shirley <mdshw5@gmail.com>
# Date 1352930135 18000
# Node ID 39dab3a4578b8517c8b59c6ee302b3bad33c62bb
# Parent  d1dc85d3e490348c0a26f28e8c0117590859e3db
bug fixes

diff -r d1dc85d3e490 -r 39dab3a4578b sam_dump.xml
--- a/sam_dump.xml	Tue Nov 13 16:31:44 2012 -0500
+++ b/sam_dump.xml	Wed Nov 14 16:55:35 2012 -0500
@@ -1,6 +1,6 @@
 <tool id="sam_dump" name="Extract SAM" version="1.0.0">
   <description> format reads from NCBI SRA.</description>
-  <command>sam-dump $header $aligned $primary $input > $output</command>
+  <command>sam-dump $header $aligned $primary '$input' > $output</command>
   <version_string>sam-dump --version</version_string>
   <inputs>
     <param format="sra" name="input" type="data" label="sra archive"/>