# HG changeset patch
# User devteam
# Date 1450482471 18000
# Node ID 1a4a826405421a6b0f9748cf3939c394c91fb622
# Parent  765982facf05825662bf28ae3fa2822bc93ef11e
planemo upload for repository https://github.com/galaxyproject/tools-devteam/tree/master/packages/package_tophat_1_4_0 commit de7140295cce07e1bc1697e51dab4271c8d7a8a6

diff -r 765982facf05 -r 1a4a82640542 tool_dependencies.xml
--- a/tool_dependencies.xml	Thu Jan 23 12:30:36 2014 -0500
+++ b/tool_dependencies.xml	Fri Dec 18 18:47:51 2015 -0500
@@ -19,11 +19,11 @@
                 </actions>
                 <actions>
                   <package name="samtools" version="0.1.18">
-                      <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+                      <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </package>
-                    <action type="download_by_url">http://tophat.cbcb.umd.edu/downloads/tophat-1.4.0.tar.gz</action>
+                    <action type="download_by_url">http://ccb.jhu.edu/software/tophat/downloads/tophat-1.4.0.tar.gz</action>
                     <action type="set_environment_for_install">
-                      <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="http://testtoolshed.g2.bx.psu.edu" />
+                      <repository changeset_revision="c0f72bdba484" name="package_samtools_0_1_18" owner="devteam" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
                     </action>
                     <action type="shell_command">./configure --prefix=$INSTALL_DIR --with-bam=$BAM_ROOT</action>
                     <action type="shell_command">make &amp;&amp; make install</action>