# HG changeset patch
# User Matt Shirley <mdshw5@gmail.com>
# Date 1371493600 14400
# Node ID cdba74ec9eca4b00de81a4fa0183092864655a0c
# Parent  3b814b721838c42cad347f5c2d6d1d40dd6d8a6b
updated sra_toolkit dependency in <requirements>

diff -r 3b814b721838 -r cdba74ec9eca fastq_dump.xml
--- a/fastq_dump.xml	Mon Jun 17 14:22:57 2013 -0400
+++ b/fastq_dump.xml	Mon Jun 17 14:26:40 2013 -0400
@@ -23,7 +23,7 @@
     <exit_code range="127" level="fatal" description="Cannot find fastq-dump binary"/>
   </stdio>
   <requirements>
-    <requirement type="binary">fastq-dump</requirement>
+    <requirement type="package" version="2.3.2-4">sra_toolkit</requirement>
   </requirements>
   <help>
     This tool extracts fastqsanger reads from SRA archives using fastq-dump. The fastq-dump program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software.
diff -r 3b814b721838 -r cdba74ec9eca sam_dump.xml
--- a/sam_dump.xml	Mon Jun 17 14:22:57 2013 -0400
+++ b/sam_dump.xml	Mon Jun 17 14:26:40 2013 -0400
@@ -10,7 +10,7 @@
       <option value="--no-header">No</option>
     </param>
     <param format="text" name="aligned" type="select" value="">
-      <label>Output unaligned reads</label>
+      <label>Output unaligned reads as well as aligned reads</label>
       <option value="">No</option>
       <option value="--unaligned">Yes</option>
     </param>
@@ -24,7 +24,7 @@
     <data format="sam" name="output"/>
   </outputs>
   <requirements>
-    <requirement type="binary">sam-dump</requirement>
+    <requirement type="package" version="2.3.2-4">sra_toolkit</requirement>
   </requirements>
   <help>
     This tool extracts SAM format reads from SRA archives using sam-dump. The sam-dump program is developed at NCBI, and is available at: http://www.ncbi.nlm.nih.gov/Traces/sra/sra.cgi?view=software.