Hi all,
Thanks to you all for your time to read this message. Your help will be greatly appreciated. I desperately need Bioperl module, so I have to install the prerequisite module bioperl-ext, which requires staden io_lib_1.8.12. So I installed MinGW and MSYS in my PC with Windows XP 2002 system, and used MSYS to install io_lib_1.8.12. Prior to that, I installed Staden-windows-1-7-0 in C:\languages\staden. So before installing io_lib_1.8.12 under MSYS shell, I changed the line "ac_default_prefix=/usr/local" in the file "configure" to "ac_default_prefix=/C/languages/staden". Then I ran "./configure", "make", "make install". The first command looks to run through, but the "make" and "make install" returns error messages (the run log is attached below with the commands hightlighted). I am stucked here. Would somebody please help me out? my email: guoho...@princeton.edu. Thank you in advance. guoh...@lenovo-1a8d9427 /c/downloads/io_lib-1.8.12 $ ./configure checking for a BSD-compatible install... /bin/install -c checking whether build environment is sane... yes checking for gawk... gawk checking whether make sets $(MAKE)... yes checking for gcc... gcc checking for C compiler default output... a.exe checking whether the C compiler works... yes checking whether we are cross compiling... no checking for suffix of executables... .exe checking for suffix of object files... o checking whether we are using the GNU C compiler... yes checking whether gcc accepts -g... yes checking for gcc option to accept ANSI C... none needed checking for style of include used by make... GNU checking dependency style of gcc... gcc3 checking for ranlib... ranlib checking for a BSD-compatible install... /bin/install -c checking build system type... i686-pc-mingw32 checking host system type... i686-pc-mingw32 checking for ld used by GCC... C:/languages/minGW/mingw32/bin/ld.exe checking if the linker (C:/languages/minGW/mingw32/bin/ld.exe) is GNU ld... yes checking for C:/languages/minGW/mingw32/bin/ld.exe option to reload object files... -r checking for BSD-compatible nm... /mingw/bin/nm checking for a sed that does not truncate output... /bin/sed checking whether ln -s works... yes checking how to recognise dependent libraries... file_magic file format pei*-i386(.*architecture: i386)? checking command to parse /mingw/bin/nm output... ok checking how to run the C preprocessor... gcc -E checking for egrep... grep -E checking for ANSI C header files... yes checking for sys/types.h... yes checking for sys/stat.h... yes checking for stdlib.h... yes checking for string.h... yes checking for memory.h... yes checking for strings.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for unistd.h... yes checking dlfcn.h usability... no checking dlfcn.h presence... no checking for dlfcn.h... no checking for ranlib... (cached) ranlib checking for strip... strip checking for objdir... .libs checking for gcc option to produce PIC... -DDLL_EXPORT checking if gcc PIC flag -DDLL_EXPORT works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.lo... yes checking if gcc supports -fno-rtti -fno-exceptions... yes checking whether the linker (C:/languages/minGW/mingw32/bin/ld.exe) supports shared libraries... yes checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking dynamic linker characteristics... Win32 ld.exe checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... yes creating libtool ./configure: SC_ENABLE_SHARED: command not found ./configure: SC_CONFIG_SHLIB_FLAGS: command not found checking for main in -lz... no configure: WARNING: *** zlib not found; hence no ZTR support checking for ANSI C header files... (cached) yes checking fcntl.h usability... yes checking fcntl.h presence... yes checking for fcntl.h... yes checking limits.h usability... yes checking limits.h presence... yes checking for limits.h... yes checking for unistd.h... (cached) yes checking zlib.h usability... no checking zlib.h presence... no checking for zlib.h... no checking whether byte ordering is bigendian... no checking for short... yes checking size of short... 2 checking for int... yes checking size of int... 4 checking for long... yes checking size of long... 4 checking for inline... inline checking for mode_t... yes checking for main in -lm... yes checking for strdup... yes configure: creating ./config.status config.status: creating Makefile config.status: creating utils/Makefile config.status: creating abi/Makefile config.status: creating alf/Makefile config.status: creating ctf/Makefile config.status: creating exp_file/Makefile config.status: creating plain/Makefile config.status: creating scf/Makefile config.status: creating ztr/Makefile config.status: creating read/Makefile config.status: creating progs/Makefile config.status: creating config.h config.status: config.h is unchanged config.status: executing depfiles commands guoh...@lenovo-1a8d9427 /c/downloads/io_lib-1.8.12 $ make make all-recursive make[1]: Entering directory `/c/downloads/io_lib-1.8.12' Making all in utils make[2]: Entering directory `/c/downloads/io_lib-1.8.12/utils' source='open_trace_file.c' object='open_trace_file.lo' libtool=yes \ depfile='.deps/open_trace_file.Plo' tmpdepfile='.deps/open_trace_file.TPlo' \ depmode=gcc3 /bin/sh ../depcomp \ /bin/sh ../libtool --mode=compile gcc -DHAVE_CONFIG_H -I. -I. -I.. -I.. -I../include -I../read -I../alf -I../abi -I../ctf -I../ztr -I../plain -I../scf -I../exp_file -I../utils -I/usr/local/include -g -O2 -c -o open_trace_file.lo `test -f 'open_trace_file.c' || echo './'`open_trace_file.c rm -f .libs/open_trace_file.lo gcc -DHAVE_CONFIG_H -I. -I. -I.. -I.. -I../include -I../read -I../alf -I../abi -I../ctf -I../ztr -I../plain -I../scf -I../exp_file -I../utils -I/usr/local/include -g -O2 -c open_trace_file.c -MT open_trace_file.lo -MD -MP -MF .deps/open_trace_file.TPlo -DDLL_EXPORT -DPIC -o .libs/open_trace_file.lo open_trace_file.c:11:26: sys/socket.h: No such file or directory open_trace_file.c:12:26: netinet/in.h: No such file or directory open_trace_file.c:13:21: netdb.h: No such file or directory open_trace_file.c:18:24: sys/wait.h: No such file or directory open_trace_file.c: In function `find_file_archive': open_trace_file.c:227: error: storage size of 'saddr' isn't known open_trace_file.c:244: warning: assignment makes pointer from integer without a cast open_trace_file.c:249: error: dereferencing pointer to incomplete type open_trace_file.c:250: error: dereferencing pointer to incomplete type open_trace_file.c:250: error: dereferencing pointer to incomplete type open_trace_file.c:251: error: `AF_INET' undeclared (first use in this function) open_trace_file.c:251: error: (Each undeclared identifier is reported only once open_trace_file.c:251: error: for each function it appears in.) open_trace_file.c:251: error: `SOCK_STREAM' undeclared (first use in this function) open_trace_file.c:251: error: `IPPROTO_TCP' undeclared (first use in this function) open_trace_file.c:295: error: `SOL_SOCKET' undeclared (first use in this function) open_trace_file.c:295: error: `SO_RCVTIMEO' undeclared (first use in this function) open_trace_file.c:300: error: `EWOULDBLOCK' undeclared (first use in this function) make[2]: *** [open_trace_file.lo] Error 1 make[2]: Leaving directory `/c/downloads/io_lib-1.8.12/utils' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/c/downloads/io_lib-1.8.12' make: *** [all] Error 2 guoh...@lenovo-1a8d9427 /c/downloads/io_lib-1.8.12 $ make install Making install in utils make[1]: Entering directory `/c/downloads/io_lib-1.8.12/utils' source='open_trace_file.c' object='open_trace_file.lo' libtool=yes \ depfile='.deps/open_trace_file.Plo' tmpdepfile='.deps/open_trace_file.TPlo' \ depmode=gcc3 /bin/sh ../depcomp \ /bin/sh ../libtool --mode=compile gcc -DHAVE_CONFIG_H -I. -I. -I.. -I.. -I../include -I../read -I../alf -I../abi -I../ctf -I../ztr -I../plain -I../scf -I../exp_file -I../utils -I/usr/local/include -g -O2 -c -o open_trace_file.lo `test -f 'open_trace_file.c' || echo './'`open_trace_file.c rm -f .libs/open_trace_file.lo gcc -DHAVE_CONFIG_H -I. -I. -I.. -I.. -I../include -I../read -I../alf -I../abi -I../ctf -I../ztr -I../plain -I../scf -I../exp_file -I../utils -I/usr/local/include -g -O2 -c open_trace_file.c -MT open_trace_file.lo -MD -MP -MF .deps/open_trace_file.TPlo -DDLL_EXPORT -DPIC -o .libs/open_trace_file.lo open_trace_file.c:11:26: sys/socket.h: No such file or directory open_trace_file.c:12:26: netinet/in.h: No such file or directory open_trace_file.c:13:21: netdb.h: No such file or directory open_trace_file.c:18:24: sys/wait.h: No such file or directory open_trace_file.c: In function `find_file_archive': open_trace_file.c:227: error: storage size of 'saddr' isn't known open_trace_file.c:244: warning: assignment makes pointer from integer without a cast open_trace_file.c:249: error: dereferencing pointer to incomplete type open_trace_file.c:250: error: dereferencing pointer to incomplete type open_trace_file.c:250: error: dereferencing pointer to incomplete type open_trace_file.c:251: error: `AF_INET' undeclared (first use in this function) open_trace_file.c:251: error: (Each undeclared identifier is reported only once open_trace_file.c:251: error: for each function it appears in.) open_trace_file.c:251: error: `SOCK_STREAM' undeclared (first use in this function) open_trace_file.c:251: error: `IPPROTO_TCP' undeclared (first use in this function) open_trace_file.c:295: error: `SOL_SOCKET' undeclared (first use in this function) open_trace_file.c:295: error: `SO_RCVTIMEO' undeclared (first use in this function) open_trace_file.c:300: error: `EWOULDBLOCK' undeclared (first use in this function) make[1]: *** [open_trace_file.lo] Error 1 make[1]: Leaving directory `/c/downloads/io_lib-1.8.12/utils' make: *** [install-recursive] Error 1
