Mercurial > repos > biomonika > package_samtools_0_1_19_custom

changeset 0:a6c82a5d0b51 draft default tip

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author biomonika
date Tue, 17 Feb 2015 21:40:19 -0500
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files tool_dependencies.xml
diffstat 1 files changed, 17 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Tue Feb 17 21:40:19 2015 -0500
@@ -0,0 +1,17 @@
+<?xml version="1.0"?>
+<tool_dependency>
+  <package name="samtools-fpic" version="0.1.19">
+        <install version="1.0">
+            <actions>
+                <action type="download_by_url">http://sourceforge.net/projects/samtools/files/samtools/0.1.19/samtools-0.1.19.tar.bz2</action>
+                <action type="shell_command">sed -i 's/O2/O2 -fPIC/' Makefile</action>
+                <action type="shell_command">make</action>
+                <action type="set_environment">
+                    <environment_variable name="PATH" action="prepend_to">$INSTALL_DIR</environment_variable>
+                    <environment_variable name="SAMTOOLS" action="set_to">$INSTALL_DIR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>Compiling samtools with fPIC in order to create bam.h and compiled libbam.a files</readme>
+    </package>
+</tool_dependency>