--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/pyPRADA_1.2/tools/bwa-0.5.7-mh/configure.in	Thu Feb 20 00:44:58 2014 -0500
@@ -0,0 +1,49 @@
+#                                               -*- Autoconf -*-
+# Process this file with autoconf to produce a configure script.
+
+AC_PREREQ(2.61)
+AC_INIT([bwa], [0.5.5])
+AC_CONFIG_SRCDIR([bntseq.c])
+AC_CONFIG_HEADER([config.h])
+AC_CONFIG_MACRO_DIR([m4])
+AM_INIT_AUTOMAKE()
+
+# Checks for programs.
+AC_PROG_CC([gcc])
+AC_PROG_CXX([g++])
+AC_PROG_INSTALL
+AC_PROG_AWK
+AC_PROG_MKDIR_P
+AC_PROG_RANLIB
+
+# Checks for libraries.
+
+# Checks for header files.
+AC_HEADER_STDC
+AC_CHECK_HEADERS([limits.h stdint.h stdlib.h string.h unistd.h])
+
+# Checks for typedefs, structures, and compiler characteristics.
+AC_C_CONST
+AC_C_INLINE
+AC_TYPE_INT32_T
+AC_TYPE_INT64_T
+AC_TYPE_SIZE_T
+AC_TYPE_UINT16_T
+AC_TYPE_UINT32_T
+AC_TYPE_UINT64_T
+AC_TYPE_UINT8_T
+
+# Checks for library functions.
+AC_FUNC_MALLOC
+AC_FUNC_REALLOC
+AC_FUNC_VPRINTF
+AC_CHECK_FUNCS([memmove memset sqrt strdup strstr])
+AC_CHECK_LIB([m],[log])
+AC_CHECK_LIB([z],[gzopen])
+AC_CHECK_LIB([pthread],[pthread_create])
+
+ACX_PTHREAD
+
+AC_CONFIG_FILES([Makefile
+                 bwt_gen/Makefile])
+AC_OUTPUT