Hi all, I encountered the following difficulty to install affy on our alpha installation: configure did not find zlib because the include is not located in /usr/includes. We have fixed this by adding /usr/local/includes as CFLAGS to the aclocal.m4 file (see below). I am not sure whether this is the proper way of dealing with this. If yes, the authors may consider to include the attached aclocal.m4 to the distribution. Cheers Claudio aclocal.m4: ## ## Try finding zlib library and headers ## ## R_ZLIB() ## AC_DEFUN([R_ZLIB], [ CPPFLAGS=-I/usr/local/include CFLAGS=-I/usr/local/include have_zlib=no AC_CHECK_LIB(z, main, [ AC_CHECK_HEADER(zlib.h, [ AC_MSG_CHECKING([if zlib version >= 1.1.3]) AC_TRY_RUN([ #include "confdefs.h" #include <string.h> #include <zlib.h> int main() { #ifdef ZLIB_VERSION return(strcmp(ZLIB_VERSION, "1.1.3") < 0); #else return(1); #endif }], [AC_MSG_RESULT([yes]) have_zlib=yes], AC_MSG_RESULT([no]), AC_MSG_RESULT([no])) ]) ]) if test "${have_zlib}" = yes; then AC_DEFINE(HAVE_ZLIB) LIBS='-lz '$LIBS fi ])