Mercurial > repos > brenninc > package_pairedbamtobed12

changeset 0:82c063a00753 draft default tip

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Uploaded first version
author brenninc
date Tue, 10 May 2016 12:32:13 -0400
parents
children
files tool_dependencies.xml
diffstat 1 files changed, 30 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Tue May 10 12:32:13 2016 -0400
@@ -0,0 +1,30 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="ncurses" version="5.9">
+        <repository changeset_revision="a6cbb3aaecf6" name="package_ncurses_5_9" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="zlib" version="1.2.8">
+        <repository changeset_revision="63a4a902cda2" name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="samtools" version="1.2">
+        <repository changeset_revision="f6ae3ba3f3c1" name="package_samtools_1_2" owner="iuc" prior_installation_required="True" toolshed="https://toolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="pairedbamtobed12" version="1.0">
+        <install version="1.0">
+            <actions>
+                <!-- Original source https://github.com/Population-Transcriptomics/pairedBamToBed12  commit/8716972653757dbe828a4cff2e11337c12eaf75c -->
+                <action type="download_by_url">https://raw.githubusercontent.com/Christian-B/galaxy_shedtools/master/package_pairedBamToBed12/pairedBamToBed12.tar.gz</action>
+                <action type="shell_command">make</action>
+                <action type="move_directory_files">
+                    <source_directory>bin</source_directory>
+                    <destination_directory>$INSTALL_DIR/bin</destination_directory>
+                </action>
+                <action type="set_environment">
+                  <environment_variable action="prepend_to" name="PATH">$INSTALL_DIR/bin</environment_variable>
+                  <environment_variable action="set_to" name="PAIREDBAMTODEB12_ROOT">$INSTALL_DIR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme />
+    </package>
+</tool_dependency>