Mercurial > repos > bgruening > package_htslib_1_2_1

changeset 0:cf5989482513 draft default tip

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author bgruening
date Thu, 26 Feb 2015 15:16:38 -0500
parents
children
files tool_dependencies.xml
diffstat 1 files changed, 34 insertions(+), 0 deletions(-) [+]
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--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml	Thu Feb 26 15:16:38 2015 -0500
@@ -0,0 +1,34 @@
+<?xml version="1.0"?>
+<tool_dependency>
+    <package name="zlib" version="1.2.8">
+        <repository changeset_revision="03abe628fbe8" name="package_zlib_1_2_8" owner="iuc" prior_installation_required="True" toolshed="https://testtoolshed.g2.bx.psu.edu" />
+    </package>
+    <package name="htslib" version="1.2.1">
+        <install version="1.0">
+            <actions>
+                <action target_filename="htslib-1.2.1" type="download_by_url">https://github.com/samtools/htslib/archive/1.2.1.tar.gz</action>
+
+                <action type="set_environment_for_install">
+                    <repository changeset_revision="03abe628fbe8" name="package_zlib_1_2_8" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu">
+                        <package name="zlib" version="1.2.8" />
+                    </repository>
+                </action>
+
+                <action type="shell_command">make</action>
+                <action type="move_directory_files">
+                    <source_directory>htslib</source_directory>
+                    <destination_directory>$INSTALL_DIR/lib</destination_directory>
+                </action>
+                <action type="set_environment">
+                    <environment_variable action="prepend_to" name="LD_LIBRARY_PATH">$INSTALL_DIR/lib/htslib</environment_variable>
+                    <environment_variable action="prepend_to" name="HTSLIB_LIB_DIR">$INSTALL_DIR/lib</environment_variable>
+                    <environment_variable action="prepend_to" name="HTSLIB_ROOT_PATH">$INSTALL_DIR</environment_variable>
+                </action>
+            </actions>
+        </install>
+        <readme>
+        C library for high-throughput sequencing data formats
+        https://github.com/samtools/htslib
+        </readme>
+    </package>
+</tool_dependency>