--- SnoReport-1.3/configure.in	2014-12-04 11:51:17.000000000 +0100
+++ SnoReport-1.3a/configure.in	2015-09-19 14:12:20.588476347 +0200
@@ -14,29 +14,24 @@
 
 AC_CANONICAL_HOST
 
-AC_ARG_WITH(ViennaRNA-include,
-  [ --with-ViennaRNA-include    where to search for ViennaRNA header files],
-  ac_VRNA_includes="$withval",
-  )
-
-AC_ARG_WITH(ViennaRNA-lib,
-  [ --with-ViennaRNA-lib        where to search for libRNA.a],
-  ac_VRNA_lib="$withval",
-  )
-
-AC_PATH_VRNA
-
 dnl Checks for programs.
 AC_PROG_INSTALL
 AC_PROG_CC
 AC_PROG_CXX
 
+dnl Check for functions
+AC_FUNC_MALLOC
+AC_FUNC_REALLOC
+AC_FUNC_STRTOD
+AC_CHECK_FUNCS([floor strdup strstr strchr strrchr strstr strtol strtoul pow rint sqrt erand48 memset memmove erand48])
+
 dnl Checks for libraries.
 
-dnl checking for -lRNA will fail if both are built simultaneously
-dnl LIBS=["-lRNA ${LIBS}"]
-dnl AC_CHECK_LIB(m, exp)
-dnl AC_CHECK_LIB(RNA, fold)
+PKG_CHECK_MODULES([RNALIB], [RNAlib2],
+                  [ AC_SUBST([RNALIB_CFLAGS])
+                    AC_SUBST([RNALIB_LIBS])
+                  ],
+                  [])
 
 dnl Checks for header files.
 AC_HEADER_STDC
diff -urN SnoReport-1.3/Makefile.am SnoReport-1.3a/Makefile.am
--- SnoReport-1.3/Makefile.am	2014-12-04 11:40:34.000000000 +0100
+++ SnoReport-1.3a/Makefile.am	2015-09-19 14:24:17.017484372 +0200
@@ -10,6 +10,10 @@
 
 EXTRA_DIST = $(pkgdata_DATA) $(man_MANS)
 
+LDADD = $(RNALIB_LIBS)
+
+AM_CPPFLAGS = $(RNALIB_CFLAGS)
+
 #  install the man pages
 man_MANS = snoReport.1