[R-sig-Geo] cannot install rgeos
Martin Ivanov
martin.ivanov at ifg.uni-tuebingen.de
Sat Aug 18 16:06:09 CEST 2012
Dear R users,
I am having immense trouble trying to install the rgeos package on a
Linux cluster. I have installed geos locally in the directory
/home-link/epaiv01/system.
The command
install.packages(pkgs="rgeos",
configure.args=c("LDFLAGS=-L/home-link/epaiv01/system/usr/lib64","PKG_CPPFLAGS=-I/home-link/epaiv01/system/usr/include",
"PKG_LIBS=-L/home-link/epaiv01/system/usr/lib64",
"--with-geos-config=/home-link/epaiv01/system/usr/bin/geos-config"))
fails with the complaint:
checking for C compiler default output file name... configure: error: C
compiler cannot create executables
See `config.log' for more details.
ERROR: configuration failed for package ârgeosâ
* removing
â/lustre/home/zdv/ep/epaiv01/R/x86_64-unknown-linux-gnu-library/2.15/rgeosâ
Oddly, if I get *into* the rgeos directory after unpacking it, and run:
LDFLAGS=-L/home-link/epaiv01/system/usr/lib64
PKG_CPPFLAGS=-I/home-link/epaiv01/system/usr/include
PKG_LIBS=-L/home-link/epaiv01/system/usr/lib64 ./configure
--with-geos-config=/home-link/epaiv01/system/usr/bin/geos-config
the configure phase passes normally. I am attaching the two log files,
which are identical until the command :
configure:1761: gcc -std=gnu99 -march=core2 -O3 -I/usr/local/include
-I/home-link/epaiv01/system/usr/include
-I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/syste
m/usr/lib64 conftest.c -L/home-link/epaiv01/system/usr/lib64
-L/home-link/epaiv01/system/usr/lib64 -lgeos
-L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
which in the failed configure complains that:
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::basic_ostream<char, std::char_traits<char> >&
std::__ostream_insert<char, std::char_traits<char> >
(std::basic_ostream<char, std::char_traits<char> >&, char const*,
long)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::_List_node_base::_M_unhook()@GLIBCXX_3.4.14'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::basic_ostream<char, std::char_traits<char> >&
std::basic_ostream<char, std::char_traits<char> >::_
M_insert<void const*>(void const*)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::ctype<char>::_M_widen_init() const at GLIBCXX_3.4.11'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::basic_ostream<char, std::char_traits<char> >&
std::basic_ostream<char, std::char_traits<char> >::_
M_insert<unsigned long>(unsigned long)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::basic_ostream<char, std::char_traits<char> >&
std::basic_ostream<char, std::char_traits<char> >::_
M_insert<double>(double)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to
`std::_List_node_base::_M_hook(std::_List_node_base*)@GLIBCXX_3.4.14'
I am really at a loss. I have no clue whatsoever what to try any further.
Any suggestions will be appreciated.
Best regards,
--
Dr. Martin Ivanov
Eberhard-Karls-Universität Tübingen
Mathematisch-Naturwissenschaftliche Fakultät
Fachbereich Geowissenschaften
Water & Earth System Science (WESS)
Keplerstraße 17, 72074 Tübingen, Deutschland
Tel. +4970712975023
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-------------- next part --------------
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by rgeos configure 0.2-6, which was
generated by GNU Autoconf 2.59. Invocation command line was
$ ./configure --with-geos-config=/home-link/epaiv01/system/usr/bin/geos-config
## --------- ##
## Platform. ##
## --------- ##
hostname = u-003-scfe03.uni-tuebingen.de
uname -m = x86_64
uname -r = 2.6.18-308.11.1.el5
uname -s = Linux
uname -v = #1 SMP Tue Jul 10 12:43:34 EDT 2012
/usr/bin/uname -p = unknown
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /opt/bwgrid/math/R/2.15.1-mkl-10.3.5/bin
PATH: /opt/bwgrid/devel/cmake/2.8.6/bin
PATH: /opt/bwgrid/compiler/gnu/4.5.2/bin
PATH: /opt/system/moab/7.0.1/bin
PATH: /usr/lib64/qt-3.3/bin
PATH: /usr/kerberos/bin
PATH: /usr/local/bin
PATH: /bin
PATH: /usr/bin
PATH: /home-link/epaiv01/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1340: checking geos-config usability
configure:1349: result: yes
configure:1361: geos-config: /home-link/epaiv01/system/usr/bin/geos-config
configure:1363: GEOS version: 3.3.5
configure:1365: checking geos version over 3.2.1
configure:1374: result: yes
configure:1378: checking geos-config clibs
configure:1386: result: yes
configure:1449: checking for gcc
configure:1475: result: gcc -std=gnu99
configure:1719: checking for C compiler version
configure:1722: gcc -std=gnu99 --version </dev/null >&5
gcc (GCC) 4.5.2
Copyright (C) 2010 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:1725: $? = 0
configure:1727: gcc -std=gnu99 -v </dev/null >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/lustre/opt/bwgrid/compiler/gnu/4.5.2/bin/../libexec/gcc/x86_64-unknown-linux-gnu/4.5.2/lto-wrapper
Target: x86_64-unknown-linux-gnu
Configured with: ../gcc-4.5.2/configure --prefix=/opt/bwgrid/compiler/gnu/4.5.2 --with-gmp=/opt/bwgrid/compiler/gnu/4.5.2 --with-mpfr=/opt/bwgrid/compiler/gnu/4.5.2 -with-mpc=/opt/bwgrid/compiler/gnu/4.5.2
Thread model: posix
gcc version 4.5.2 (GCC)
configure:1730: $? = 0
configure:1732: gcc -std=gnu99 -V </dev/null >&5
gcc: '-V' must come at the start of the command line
configure:1735: $? = 1
configure:1758: checking for C compiler default output file name
configure:1761: gcc -std=gnu99 -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/system/usr/lib64 conftest.c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::basic_ostream<char, std::char_traits<char> >& std::__ostream_insert<char, std::char_traits<char> >(std::basic_ostream<char, std::char_traits<char> >&, char const*, long)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::_List_node_base::_M_unhook()@GLIBCXX_3.4.14'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::basic_ostream<char, std::char_traits<char> >& std::basic_ostream<char, std::char_traits<char> >::_M_insert<void const*>(void const*)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::ctype<char>::_M_widen_init() const at GLIBCXX_3.4.11'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::basic_ostream<char, std::char_traits<char> >& std::basic_ostream<char, std::char_traits<char> >::_M_insert<unsigned long>(unsigned long)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::basic_ostream<char, std::char_traits<char> >& std::basic_ostream<char, std::char_traits<char> >::_M_insert<double>(double)@GLIBCXX_3.4.9'
/home-link/epaiv01/system/usr/lib64/libgeos.so: undefined reference to `std::_List_node_base::_M_hook(std::_List_node_base*)@GLIBCXX_3.4.14'
collect2: ld returned 1 exit status
configure:1764: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "rgeos"
| #define PACKAGE_TARNAME "rgeos"
| #define PACKAGE_VERSION "0.2-6"
| #define PACKAGE_STRING "rgeos 0.2-6"
| #define PACKAGE_BUGREPORT "Roger.Bivand at nhh.no"
| /* end confdefs.h. */
|
| int
| main ()
| {
|
| ;
| return 0;
| }
configure:1803: error: C compiler cannot create executables
See `config.log' for more details.
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_LDFLAGS_set=set
ac_cv_env_LDFLAGS_value=-L/home-link/epaiv01/system/usr/lib64
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_prog_ac_ct_CC='gcc -std=gnu99'
## ----------------- ##
## Output variables. ##
## ----------------- ##
CC='gcc -std=gnu99'
CFLAGS='-march=core2 -O3'
CPP='gcc -std=gnu99 -E'
CPPFLAGS='-I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include'
DEFS=''
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP=''
EXEEXT=''
GEOS_CONFIG='/home-link/epaiv01/system/usr/bin/geos-config'
LDFLAGS='-L/home-link/epaiv01/system/usr/lib64'
LIBOBJS=''
LIBS=' -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c'
LTLIBOBJS=''
OBJEXT=''
PACKAGE_BUGREPORT='Roger.Bivand at nhh.no'
PACKAGE_NAME='rgeos'
PACKAGE_STRING='rgeos 0.2-6'
PACKAGE_TARNAME='rgeos'
PACKAGE_VERSION='0.2-6'
PATH_SEPARATOR=':'
PKG_CPPFLAGS='-I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include'
PKG_LIBS='-L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c'
SHELL='/bin/sh'
ac_ct_CC='gcc -std=gnu99'
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${prefix}/share'
exec_prefix='NONE'
host_alias=''
includedir='${prefix}/include'
infodir='${prefix}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localstatedir='${prefix}/var'
mandir='${prefix}/man'
oldincludedir='/usr/include'
prefix='NONE'
program_transform_name='s,x,x,'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define PACKAGE_BUGREPORT "Roger.Bivand at nhh.no"
#define PACKAGE_NAME "rgeos"
#define PACKAGE_STRING "rgeos 0.2-6"
#define PACKAGE_TARNAME "rgeos"
#define PACKAGE_VERSION "0.2-6"
configure: exit 77
-------------- next part --------------
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by rgeos configure 0.2-6, which was
generated by GNU Autoconf 2.59. Invocation command line was
$ ./configure --with-geos-config=/home-link/epaiv01/system/usr/bin/geos-config
## --------- ##
## Platform. ##
## --------- ##
hostname = u-003-scfe03.uni-tuebingen.de
uname -m = x86_64
uname -r = 2.6.18-308.11.1.el5
uname -s = Linux
uname -v = #1 SMP Tue Jul 10 12:43:34 EDT 2012
/usr/bin/uname -p = unknown
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /opt/bwgrid/math/R/2.15.1-mkl-10.3.5/bin
PATH: /opt/bwgrid/devel/cmake/2.8.6/bin
PATH: /opt/bwgrid/compiler/gnu/4.5.2/bin
PATH: /opt/system/moab/7.0.1/bin
PATH: /usr/lib64/qt-3.3/bin
PATH: /usr/kerberos/bin
PATH: /usr/local/bin
PATH: /bin
PATH: /usr/bin
PATH: /home-link/epaiv01/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1340: checking geos-config usability
configure:1349: result: yes
configure:1361: geos-config: /home-link/epaiv01/system/usr/bin/geos-config
configure:1363: GEOS version: 3.3.5
configure:1365: checking geos version over 3.2.1
configure:1374: result: yes
configure:1378: checking geos-config clibs
configure:1386: result: yes
configure:1449: checking for gcc
configure:1475: result: gcc -std=gnu99
configure:1719: checking for C compiler version
configure:1722: gcc -std=gnu99 --version </dev/null >&5
gcc (GCC) 4.5.2
Copyright (C) 2010 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
configure:1725: $? = 0
configure:1727: gcc -std=gnu99 -v </dev/null >&5
Using built-in specs.
COLLECT_GCC=gcc
COLLECT_LTO_WRAPPER=/lustre/opt/bwgrid/compiler/gnu/4.5.2/bin/../libexec/gcc/x86_64-unknown-linux-gnu/4.5.2/lto-wrapper
Target: x86_64-unknown-linux-gnu
Configured with: ../gcc-4.5.2/configure --prefix=/opt/bwgrid/compiler/gnu/4.5.2 --with-gmp=/opt/bwgrid/compiler/gnu/4.5.2 --with-mpfr=/opt/bwgrid/compiler/gnu/4.5.2 -with-mpc=/opt/bwgrid/compiler/gnu/4.5.2
Thread model: posix
gcc version 4.5.2 (GCC)
configure:1730: $? = 0
configure:1732: gcc -std=gnu99 -V </dev/null >&5
gcc: '-V' must come at the start of the command line
configure:1735: $? = 1
configure:1758: checking for C compiler default output file name
configure:1761: gcc -std=gnu99 -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/system/usr/lib64 conftest.c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
configure:1764: $? = 0
configure:1810: result: a.out
configure:1815: checking whether the C compiler works
configure:1821: ./a.out
configure:1824: $? = 0
configure:1841: result: yes
configure:1848: checking whether we are cross compiling
configure:1850: result: no
configure:1853: checking for suffix of executables
configure:1855: gcc -std=gnu99 -o conftest -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/system/usr/lib64 conftest.c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
configure:1858: $? = 0
configure:1883: result:
configure:1889: checking for suffix of object files
configure:1910: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:1913: $? = 0
configure:1935: result: o
configure:1939: checking whether we are using the GNU C compiler
configure:1963: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:1969: $? = 0
configure:1973: test -z
|| test ! -s conftest.err
configure:1976: $? = 0
configure:1979: test -s conftest.o
configure:1982: $? = 0
configure:1995: result: yes
configure:2001: checking whether gcc -std=gnu99 accepts -g
configure:2022: gcc -std=gnu99 -c -g -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2028: $? = 0
configure:2032: test -z
|| test ! -s conftest.err
configure:2035: $? = 0
configure:2038: test -s conftest.o
configure:2041: $? = 0
configure:2052: result: yes
configure:2069: checking for gcc -std=gnu99 option to accept ANSI C
configure:2139: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2145: $? = 0
configure:2149: test -z
|| test ! -s conftest.err
configure:2152: $? = 0
configure:2155: test -s conftest.o
configure:2158: $? = 0
configure:2176: result: none needed
configure:2194: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
conftest.c:2:9: error: expected '=', ',', ';', 'asm' or '__attribute__' before 'me'
configure:2200: $? = 1
configure: failed program was:
| #ifndef __cplusplus
| choke me
| #endif
configure:2339: checking how to run the C preprocessor
configure:2457: result: gcc -std=gnu99 -E
configure:2481: gcc -std=gnu99 -E -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c
configure:2487: $? = 0
configure:2519: gcc -std=gnu99 -E -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c
conftest.c:9:28: fatal error: ac_nonexistent.h: No such file or directory
compilation terminated.
configure:2525: $? = 1
configure: failed program was:
| /* confdefs.h. */
|
| #define PACKAGE_NAME "rgeos"
| #define PACKAGE_TARNAME "rgeos"
| #define PACKAGE_VERSION "0.2-6"
| #define PACKAGE_STRING "rgeos 0.2-6"
| #define PACKAGE_BUGREPORT "Roger.Bivand at nhh.no"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:2569: checking for egrep
configure:2579: result: grep -E
configure:2584: checking for ANSI C header files
configure:2609: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2615: $? = 0
configure:2619: test -z
|| test ! -s conftest.err
configure:2622: $? = 0
configure:2625: test -s conftest.o
configure:2628: $? = 0
configure:2717: gcc -std=gnu99 -o conftest -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/system/usr/lib64 conftest.c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
conftest.c: In function 'main':
conftest.c:26:7: warning: implicit declaration of function 'exit'
conftest.c:26:7: warning: incompatible implicit declaration of built-in function 'exit'
conftest.c:27:3: warning: incompatible implicit declaration of built-in function 'exit'
configure:2720: $? = 0
configure:2722: ./conftest
configure:2725: $? = 0
configure:2740: result: yes
configure:2764: checking for sys/types.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for sys/stat.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for stdlib.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for string.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for memory.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for strings.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for inttypes.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for stdint.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2764: checking for unistd.h
configure:2780: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2786: $? = 0
configure:2790: test -z
|| test ! -s conftest.err
configure:2793: $? = 0
configure:2796: test -s conftest.o
configure:2799: $? = 0
configure:2810: result: yes
configure:2836: checking geos_c.h usability
configure:2848: gcc -std=gnu99 -c -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c >&5
configure:2854: $? = 0
configure:2858: test -z
|| test ! -s conftest.err
configure:2861: $? = 0
configure:2864: test -s conftest.o
configure:2867: $? = 0
configure:2877: result: yes
configure:2881: checking geos_c.h presence
configure:2891: gcc -std=gnu99 -E -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include conftest.c
configure:2897: $? = 0
configure:2917: result: yes
configure:2952: checking for geos_c.h
configure:2959: result: yes
configure:2975: checking for initGEOS_r in -lgeos_c
configure:3005: gcc -std=gnu99 -o conftest -march=core2 -O3 -I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include -L/home-link/epaiv01/system/usr/lib64 conftest.c -lgeos_c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c >&5
configure:3011: $? = 0
configure:3015: test -z
|| test ! -s conftest.err
configure:3018: $? = 0
configure:3021: test -s conftest
configure:3024: $? = 0
configure:3037: result: yes
configure:3056: PKG_CPPFLAGS: -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include
configure:3059: PKG_LIBS: -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c
configure:3195: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by rgeos config.status 0.2-6, which was
generated by GNU Autoconf 2.59. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on u-003-scfe03.uni-tuebingen.de
config.status:636: creating src/Makevars
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_env_CC_set=
ac_cv_env_CC_value=
ac_cv_env_CFLAGS_set=
ac_cv_env_CFLAGS_value=
ac_cv_env_CPPFLAGS_set=
ac_cv_env_CPPFLAGS_value=
ac_cv_env_CPP_set=
ac_cv_env_CPP_value=
ac_cv_env_LDFLAGS_set=set
ac_cv_env_LDFLAGS_value=-L/home-link/epaiv01/system/usr/lib64
ac_cv_env_build_alias_set=
ac_cv_env_build_alias_value=
ac_cv_env_host_alias_set=
ac_cv_env_host_alias_value=
ac_cv_env_target_alias_set=
ac_cv_env_target_alias_value=
ac_cv_exeext=
ac_cv_header_geos_c_h=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_memory_h=yes
ac_cv_header_stdc=yes
ac_cv_header_stdint_h=yes
ac_cv_header_stdlib_h=yes
ac_cv_header_string_h=yes
ac_cv_header_strings_h=yes
ac_cv_header_sys_stat_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_lib_geos_c_initGEOS_r=yes
ac_cv_objext=o
ac_cv_prog_CPP='gcc -std=gnu99 -E'
ac_cv_prog_ac_ct_CC='gcc -std=gnu99'
ac_cv_prog_cc_g=yes
ac_cv_prog_cc_stdc=
ac_cv_prog_egrep='grep -E'
## ----------------- ##
## Output variables. ##
## ----------------- ##
CC='gcc -std=gnu99'
CFLAGS='-march=core2 -O3'
CPP='gcc -std=gnu99 -E'
CPPFLAGS='-I/usr/local/include -I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include'
DEFS='-DPACKAGE_NAME=\"rgeos\" -DPACKAGE_TARNAME=\"rgeos\" -DPACKAGE_VERSION=\"0.2-6\" -DPACKAGE_STRING=\"rgeos\ 0.2-6\" -DPACKAGE_BUGREPORT=\"Roger.Bivand at nhh.no\" -DSTDC_HEADERS=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_UNISTD_H=1 -DHAVE_GEOS_C_H=1 -DHAVE_LIBGEOS_C=1 '
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='grep -E'
EXEEXT=''
GEOS_CONFIG='/home-link/epaiv01/system/usr/bin/geos-config'
LDFLAGS='-L/home-link/epaiv01/system/usr/lib64'
LIBOBJS=''
LIBS='-lgeos_c -L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c'
LTLIBOBJS=''
OBJEXT='o'
PACKAGE_BUGREPORT='Roger.Bivand at nhh.no'
PACKAGE_NAME='rgeos'
PACKAGE_STRING='rgeos 0.2-6'
PACKAGE_TARNAME='rgeos'
PACKAGE_VERSION='0.2-6'
PATH_SEPARATOR=':'
PKG_CPPFLAGS='-I/home-link/epaiv01/system/usr/include -I/home-link/epaiv01/system/usr/include'
PKG_LIBS='-L/home-link/epaiv01/system/usr/lib64 -L/home-link/epaiv01/system/usr/lib64 -lgeos -L/home-link/epaiv01/system/usr/lib64 -lgeos_c'
SHELL='/bin/sh'
ac_ct_CC='gcc -std=gnu99'
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${prefix}/share'
exec_prefix='${prefix}'
host_alias=''
includedir='${prefix}/include'
infodir='${prefix}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localstatedir='${prefix}/var'
mandir='${prefix}/man'
oldincludedir='/usr/include'
prefix='/usr/local'
program_transform_name='s,x,x,'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define HAVE_GEOS_C_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_LIBGEOS_C 1
#define HAVE_MEMORY_H 1
#define HAVE_STDINT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRINGS_H 1
#define HAVE_STRING_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_UNISTD_H 1
#define PACKAGE_BUGREPORT "Roger.Bivand at nhh.no"
#define PACKAGE_NAME "rgeos"
#define PACKAGE_STRING "rgeos 0.2-6"
#define PACKAGE_TARNAME "rgeos"
#define PACKAGE_VERSION "0.2-6"
#define STDC_HEADERS 1
configure: exit 0
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