Mercurial > repos > rnateam > blockclust

diff tool_dependencies.xml @ 4:4882bc140680 draft

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author bgruening
date Mon, 21 Oct 2013 12:34:11 -0400
parents
children 49b72f1013b3
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Mon Oct 21 12:34:11 2013 -0400
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+<?xml version="1.0"?>
+<tool_dependency>
+   <package name="blockclust" version="1.0">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-1.0.tar.gz</action>
+                <action type="shell_command">make</action>
+                <action type="move_file">
+                    <source>BlockClust</source>
+                    <destination>$INSTALL_DIR/bin</destination>
+                </action>
+                <action type="move_file">
+                    <source>BlockClustPipeLine.pl</source>
+                    <destination>$INSTALL_DIR/bin</destination>
+                </action>
+                <action type="move_file">
+                    <source>blockclust.config</source>
+                    <destination>$INSTALL_DIR/data/</destination>
+                </action>
+                <action type="make_directory">$INSTALL_DIR/data/annotations</action>
+                <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/dm3.tar.gz</action>
+                <action type="shell_command">tar xfvz dm3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/hg19.tar.gz</action>
+                <action type="shell_command">tar xfvz hg19.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/mm10.tar.gz</action>
+                <action type="shell_command">tar xfvz mm10.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/panTro4.tar.gz</action>
+                <action type="shell_command">tar xfvz panTro4.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="download_file">https://github.com/bgruening/download_store/raw/master/blockclust/blockclust-data-1.0/annotations/rheMac3.tar.gz</action>
+                <action type="shell_command">tar xfvz rheMac3.tar.gz -C $INSTALL_DIR/data/annotations/</action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR/bin</environment_variable>
+                    <environment_variable name="BLOCKCLUST_DATA_PATH" action="prepend_to">$INSTALL_DIR/data</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+	
+        </readme>
+    </package>
+</tool_dependency>