In building your program on Cygwin using the stock gcc compiler, the configure step fails with an error
"config.setup : could not find Makefile
.in"
The reason is because there is a newline between Makefile and .in, probably because your AC_CONFIG_FILES has newlines. Editing the config.status script to remove the newlines fixes the problem and the sw compiles fine.
In building your program on Cygwin using the stock gcc compiler, the configure step fails with an error
"config.setup : could not find Makefile .in"
The reason is because there is a newline between Makefile and .in, probably because your AC_CONFIG_FILES has newlines. Editing the config.status script to remove the newlines fixes the problem and the sw compiles fine.