gatk-3.8/public/c/bwa/build_mac.sh

#!/bin/sh
export BWA_HOME="${PWD}/bwasvn47"
export JAVA_INCLUDE="${JAVA_HOME}/include"
export JAVA_PLATFORM_INCLUDE="${JAVA_HOME}/include/darwin"
export TARGET_LIB="libbwa.dylib"
export EXTRA_LIBS="-lc -lz -lstdc++"
export LIBTOOL_COMMAND="libtool -dynamic"
make
BWA bindings and tests moved to public (was required for ValidationAmplicons) Integration tests for ValidationAmplicons. New argument to disable BWA, lowercase letters only for repetitiveness instead. 2011-07-20 08:11:31 +08:00			`#!/bin/sh`
Refactored maven directories and java packages replacing "sting" with "gatk". To reduce merge conflicts, this commit modifies contents of files, while file renamings are in previous commit. See previous commit message for list of changes. 2014-03-05 00:10:36 +08:00			`export BWA_HOME="${PWD}/bwasvn47"`
			`export JAVA_INCLUDE="${JAVA_HOME}/include"`
			`export JAVA_PLATFORM_INCLUDE="${JAVA_HOME}/include/darwin"`
BWA bindings and tests moved to public (was required for ValidationAmplicons) Integration tests for ValidationAmplicons. New argument to disable BWA, lowercase letters only for repetitiveness instead. 2011-07-20 08:11:31 +08:00			`export TARGET_LIB="libbwa.dylib"`
Refactored maven directories and java packages replacing "sting" with "gatk". To reduce merge conflicts, this commit modifies contents of files, while file renamings are in previous commit. See previous commit message for list of changes. 2014-03-05 00:10:36 +08:00			`export EXTRA_LIBS="-lc -lz -lstdc++"`
BWA bindings and tests moved to public (was required for ValidationAmplicons) Integration tests for ValidationAmplicons. New argument to disable BWA, lowercase letters only for repetitiveness instead. 2011-07-20 08:11:31 +08:00			`export LIBTOOL_COMMAND="libtool -dynamic"`
			`make`