# HG changeset patch
# User crs4
# Date 1394124608 18000
# Node ID f20db7280f890022d0e04a2edad14f526acad1ec
# Parent  38616601977232f684239179a6a12f32dad973e8
Fix SSAKE download URL (thanks to Graham Etherington for reporting this). Update Orione citation.

diff -r 386166019772 -r f20db7280f89 readme.rst
--- a/readme.rst	Tue Jan 07 04:48:50 2014 -0500
+++ b/readme.rst	Thu Mar 06 11:50:08 2014 -0500
@@ -4,6 +4,7 @@
 Version history
 ---------------
 
+- Release 2: Fix SSAKE download URL (thanks to Graham Etherington for reporting this). Update Orione citation.
 - Release 1: Update to SSAKE 3.8.1. Add <version_command>. Make pylint happier. Simplify code. Add readme.rst .
 - Release 0: Initial release in the Tool Shed.
 
diff -r 386166019772 -r f20db7280f89 ssake.xml
--- a/ssake.xml	Tue Jan 07 04:48:50 2014 -0500
+++ b/ssake.xml	Thu Mar 06 11:50:08 2014 -0500
@@ -88,7 +88,7 @@
 
 If you use this tool in Galaxy, please cite |Cuccuru2013|_.
 
-.. |Cuccuru2013| replace:: Cuccuru, G., Orsini, M., Pinna, A., Sbardellati, A., Soranzo, N., Travaglione, A., Uva, P., Zanetti, G., Fotia, G. (2013) Orione, a web-based framework for NGS analysis in microbiology. *Submitted*
+.. |Cuccuru2013| replace:: Cuccuru, G., Orsini, M., Pinna, A., Sbardellati, A., Soranzo, N., Travaglione, A., Uva, P., Zanetti, G., Fotia, G. (2014) Orione, a web-based framework for NGS analysis in microbiology. *Bioinformatics*, accepted
 .. _Cuccuru2013: http://orione.crs4.it/
 
 This tool uses `SSAKE`_, which is licensed separately. Please cite |Warren2007|_.
diff -r 386166019772 -r f20db7280f89 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Jan 07 04:48:50 2014 -0500
+++ b/tool_dependencies.xml	Thu Mar 06 11:50:08 2014 -0500
@@ -3,7 +3,7 @@
   <package name="ssake" version="3.8.1">
     <install version="1.0">
       <actions>
-        <action type="download_by_url" target_filename="ssake_v3-8-1.tar.gz">http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/3.8.1/ssake_v3.8.1-tar.gz</action>
+        <action type="download_by_url" target_filename="ssake_v3-8-1.tar.gz">http://www.bcgsc.ca/platform/bioinfo/software/ssake/releases/3.8.1/ssake_v3-8-1-tar.gz</action>
         <action type="move_directory_files">
           <source_directory>.</source_directory>
           <destination_directory>$INSTALL_DIR</destination_directory>