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[igraph] igraph compilation fails with icc
|
From: |
Jens Timmerman |
|
Subject: |
[igraph] igraph compilation fails with icc |
|
Date: |
Tue, 26 Jun 2012 11:41:29 +0200 |
Hello all,
I just tried install igraph 0.6-1 with icc and it fails.
Can I get some help on this?
I tried runnign R CMD INSTALL igraph_0.6-1.tar.gz
and it fails with:
icc -std=gnu99
-I/apps/gent/gengar/harpertown/software/R/2.14.1-ictce-4.0.4/lib64/R/include
-I/apps/gent/gengar/harpertown/software/imkl/10.3.4.191/mkl/include
-I/apps/gent/gengar/harpertown/software/imkl/10.3.4.191/mkl/include/fftw
-I/apps/gent/gengar/harpertown/software/GMP/4.3.1-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/SPRNG/2.0b-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/PVM/3.4.6-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/Tcl/8.5.9-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/Tk/8.5.9-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/GDAL/1.8.1-ictce-4.0.4/include
-DUSING_R -I. -Ics -Iglpk -Iglpk/amd -Iglpk/colamd -xHOST -O2
-I/usr/include/libxml2 -xHOST -O2 -I/usr/include/libxml2 -DNDEBUG
-DPACKAGE_VERSION=\"0.6\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=/**/ -fpic
-xHOST -O2 -c foreign-gml-lexer.c -o foreign-gml-lexer.o
icc -std=gnu99
-I/apps/gent/gengar/harpertown/software/R/2.14.1-ictce-4.0.4/lib64/R/include
-I/apps/gent/gengar/harpertown/software/imkl/10.3.4.191/mkl/include
-I/apps/gent/gengar/harpertown/software/imkl/10.3.4.191/mkl/include/fftw
-I/apps/gent/gengar/harpertown/software/GMP/4.3.1-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/SPRNG/2.0b-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/PVM/3.4.6-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/Tcl/8.5.9-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/Tk/8.5.9-ictce-4.0.4/include
-I/apps/gent/gengar/harpertown/software/GDAL/1.8.1-ictce-4.0.4/include
-DUSING_R -I. -Ics -Iglpk -Iglpk/amd -Iglpk/colamd -xHOST -O2
-I/usr/include/libxml2 -xHOST -O2 -I/usr/include/libxml2 -DNDEBUG
-DPACKAGE_VERSION=\"0.6\" -DINTERNAL_ARPACK -DIGRAPH_THREAD_LOCAL=/**/ -fpic
-xHOST -O2 -c foreign-gml-parser.c -o foreign-gml-parser.o
foreign-gml-parser.c(971): warning #266: function "stpcpy" declared
implicitly
return yystpcpy (yyres, yystr) - yyres;
^
foreign-gml-parser.c(971): warning #2330: argument of type "const char
*" is incompatible with parameter of type "void *" (dropping qualifiers)
return yystpcpy (yyres, yystr) - yyres;
^
foreign-gml-parser.c(971): error: expression must be a pointer to a
complete object type
return yystpcpy (yyres, yystr) - yyres;
^
<snip>
this is the contents of my configure.log:
This file contains any messages produced by compilers while
running configure, to aid debugging if configure makes a mistake.
It was created by igraph configure 0.6, which was
generated by GNU Autoconf 2.61. Invocation command line was
$ ./configure
## --------- ##
## Platform. ##
## --------- ##
hostname = unrelated
uname -m = x86_64
uname -r = 2.6.18-308.4.1.el5.perfctr.2.6.42
uname -s = Linux
uname -v = #1 SMP Thu May 10 15:40:46 CEST 2012
/usr/bin/uname -p = unknown
/bin/uname -X = unknown
/bin/arch = x86_64
/usr/bin/arch -k = unknown
/usr/convex/getsysinfo = unknown
/usr/bin/hostinfo = unknown
/bin/machine = unknown
/usr/bin/oslevel = unknown
/bin/universe = unknown
PATH: /software/R/2.14.1-ictce-4.0.4/bin
PATH: /software/JAGS/3.2.0-ictce-4.0.4/bin
PATH: /software/FFTW/3.2.2-ictce-4.0.4-float-threads/bin
PATH: /software/OpenBUGS/3.2.1/bin
PATH: /software/Java/1.6.0_26/usr/java/jdk1.6.0_26/bin
PATH: /software/GDAL/1.8.1-ictce-4.0.4/bin
PATH: /software/PROJ/4.7.0-ictce-4.0.4/bin
PATH: /software/netCDF/4.1.3-ictce-4.0.4/bin
PATH: /software/HDF5/1.8.7-ictce-4.0.4/bin
PATH: /software/giflib/4.1.6-ictce-4.0.4/bin
PATH: /software/GEOS/3.3.1-ictce-4.0.4/bin
PATH: /software/Tk/8.5.9-ictce-4.0.4/bin
PATH: /software/Tcl/8.5.9-ictce-4.0.4/bin
PATH: /software/PVM/3.4.6-ictce-4.0.4/bin
PATH: /software/imkl/10.3.4.191/mkl/bin/intel64
PATH: /software/imkl/10.3.4.191/mkl/bin
PATH: /software/imkl/10.3.4.191/bin
PATH: /software/impi/4.0.2.003/bin64
PATH: /software/impi/4.0.2.003/bin
PATH: /software/ifort/2011.4.191/bin/intel64
PATH: /software/ifort/2011.4.191/bin
PATH: /software/icc/2011.4.191/bin/intel64
PATH: /software/icc/2011.4.191/bin
PATH: /usr/kerberos/bin
PATH: /usr/local/bin
PATH: /bin
PATH: /usr/bin
## ----------- ##
## Core tests. ##
## ----------- ##
configure:1789: checking for gcc
configure:1816: result: icc -std=gnu99
configure:2054: checking for C compiler version
configure:2061: icc -std=gnu99 --version >&5
icc (ICC) 12.0.4 20110427
Copyright (C) 1985-2011 Intel Corporation. All rights reserved.
configure:2064: $? = 0
configure:2071: icc -std=gnu99 -v >&5
Version 12.0.4
configure:2074: $? = 0
configure:2081: icc -std=gnu99 -V >&5
Intel(R) C Intel(R) 64 Compiler XE for applications running on Intel(R)
64, Version 12.0.4.191 Build 20110427
Copyright (C) 1985-2011 Intel Corporation. All rights reserved.
configure:2084: $? = 0
configure:2107: checking for C compiler default output file name
configure:2134: icc -std=gnu99 -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2137: $? = 0
configure:2175: result: a.out
configure:2192: checking whether the C compiler works
configure:2202: ./a.out
configure:2205: $? = 0
configure:2222: result: yes
configure:2229: checking whether we are cross compiling
configure:2231: result: no
configure:2234: checking for suffix of executables
configure:2241: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2244: $? = 0
configure:2268: result:
configure:2274: checking for suffix of object files
configure:2300: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2303: $? = 0
configure:2326: result: o
configure:2330: checking whether we are using the GNU C compiler
configure:2359: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2365: $? = 0
configure:2382: result: yes
configure:2387: checking whether icc -std=gnu99 accepts -g
configure:2417: icc -std=gnu99 -c -g
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2423: $? = 0
configure:2522: result: yes
configure:2539: checking for icc -std=gnu99 option to accept ISO C89
configure:2613: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:2619: $? = 0
configure:2642: result: none needed
configure:2771: checking for Fortran compiler version
configure:2778: gfortran --version >&5
GNU Fortran (GCC) 4.1.2 20080704 (Red Hat 4.1.2-52)
Copyright (C) 2007 Free Software Foundation, Inc.
GNU Fortran comes with NO WARRANTY, to the extent permitted by law.
You may redistribute copies of GNU Fortran
under the terms of the GNU General Public License.
For more information about these matters, see the file named COPYING
configure:2781: $? = 0
configure:2788: gfortran -v >&5
Using built-in specs.
Target: x86_64-redhat-linux
Configured with: ../configure --prefix=/usr --mandir=/usr/share/man
--infodir=/usr/share/info --enable-shared --enable-threads=posix
--enable-checking=release --with-system-zlib --enable-__cxa_atexit
--disable-libunwind-exceptions --enable-libgcj-multifile
--enable-languages=c,c++,objc,obj-c++,java,fortran,ada
--enable-java-awt=gtk --disable-dssi --disable-plugin
--with-java-home=/usr/lib/jvm/java-1.4.2-gcj-1.4.2.0/jre
--with-cpu=generic --host=x86_64-redhat-linux
Thread model: posix
gcc version 4.1.2 20080704 (Red Hat 4.1.2-52)
configure:2791: $? = 0
configure:2798: gfortran -V >&5
gfortran: '-V' option must have argument
configure:2801: $? = 1
configure:2809: checking whether we are using the GNU Fortran compiler
configure:2828: gfortran -c -g -O2 conftest.F >&5
configure:2834: $? = 0
configure:2851: result: yes
configure:2857: checking whether gfortran accepts -g
configure:2874: gfortran -c -g conftest.f >&5
configure:2880: $? = 0
configure:2896: result: yes
configure:3039: checking for C++ compiler version
configure:3046: icpc --version >&5
icpc (ICC) 12.0.4 20110427
Copyright (C) 1985-2011 Intel Corporation. All rights reserved.
configure:3049: $? = 0
configure:3056: icpc -v >&5
Version 12.0.4
configure:3059: $? = 0
configure:3066: icpc -V >&5
Intel(R) C++ Intel(R) 64 Compiler XE for applications running on
Intel(R) 64, Version 12.0.4.191 Build 20110427
Copyright (C) 1985-2011 Intel Corporation. All rights reserved.
configure:3069: $? = 0
configure:3072: checking whether we are using the GNU C++ compiler
configure:3101: icpc -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp >&5
configure:3107: $? = 0
configure:3124: result: yes
configure:3129: checking whether icpc accepts -g
configure:3159: icpc -c -g -I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp >&5
configure:3165: $? = 0
configure:3264: result: yes
configure:3317: icpc -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp >&5
configure:3323: $? = 0
configure:3333: checking how to run the C++ preprocessor
configure:3369: icpc -E -I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp
configure:3375: $? = 0
configure:3406: icpc -E -I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp
conftest.cpp(8): error #2379: cannot open source file "ac_nonexistent.h"
#include <ac_nonexistent.h>
^
configure:3412: $? = 2
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "igraph"
| #define PACKAGE_TARNAME "igraph"
| #define PACKAGE_VERSION "0.6"
| #define PACKAGE_STRING "igraph 0.6"
| #define PACKAGE_BUGREPORT "address@hidden"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:3445: result: icpc -E
configure:3474: icpc -E -I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp
configure:3480: $? = 0
configure:3511: icpc -E -I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.cpp
conftest.cpp(8): error #2379: cannot open source file "ac_nonexistent.h"
#include <ac_nonexistent.h>
^
configure:3517: $? = 2
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "igraph"
| #define PACKAGE_TARNAME "igraph"
| #define PACKAGE_VERSION "0.6"
| #define PACKAGE_STRING "igraph 0.6"
| #define PACKAGE_BUGREPORT "address@hidden"
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:3588: checking for rintf
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for finite
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for expm1
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for rint
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for log2
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for logbl
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for snprintf
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for log1p
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for round
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3588: checking for fmin
configure:3644: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lm >&5
configure:3650: $? = 0
configure:3668: result: yes
configure:3685: checking how to run the C preprocessor
configure:3725: icc -std=gnu99 -E
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c
configure:3731: $? = 0
configure:3762: icc -std=gnu99 -E
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c
conftest.c(18): error #2379: cannot open source file "ac_nonexistent.h"
#include <ac_nonexistent.h>
^
configure:3768: $? = 2
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "igraph"
| #define PACKAGE_TARNAME "igraph"
| #define PACKAGE_VERSION "0.6"
| #define PACKAGE_STRING "igraph 0.6"
| #define PACKAGE_BUGREPORT "address@hidden"
| #define HAVE_RINTF 1
| #define HAVE_FINITE 1
| #define HAVE_EXPM1 1
| #define HAVE_RINT 1
| #define HAVE_LOG2 1
| #define HAVE_LOGBL 1
| #define HAVE_SNPRINTF 1
| #define HAVE_LOG1P 1
| #define HAVE_ROUND 1
| #define HAVE_FMIN 1
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:3801: result: icc -std=gnu99 -E
configure:3830: icc -std=gnu99 -E
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c
configure:3836: $? = 0
configure:3867: icc -std=gnu99 -E
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c
conftest.c(18): error #2379: cannot open source file "ac_nonexistent.h"
#include <ac_nonexistent.h>
^
configure:3873: $? = 2
configure: failed program was:
| /* confdefs.h. */
| #define PACKAGE_NAME "igraph"
| #define PACKAGE_TARNAME "igraph"
| #define PACKAGE_VERSION "0.6"
| #define PACKAGE_STRING "igraph 0.6"
| #define PACKAGE_BUGREPORT "address@hidden"
| #define HAVE_RINTF 1
| #define HAVE_FINITE 1
| #define HAVE_EXPM1 1
| #define HAVE_RINT 1
| #define HAVE_LOG2 1
| #define HAVE_LOGBL 1
| #define HAVE_SNPRINTF 1
| #define HAVE_LOG1P 1
| #define HAVE_ROUND 1
| #define HAVE_FMIN 1
| /* end confdefs.h. */
| #include <ac_nonexistent.h>
configure:3911: checking for grep that handles long lines and -e
configure:3985: result: /bin/grep
configure:3990: checking for egrep
configure:4068: result: /bin/grep -E
configure:4073: checking for ANSI C header files
configure:4103: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4109: $? = 0
configure:4208: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4211: $? = 0
configure:4217: ./conftest
configure:4220: $? = 0
configure:4237: result: yes
configure:4261: checking for sys/types.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for sys/stat.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for stdlib.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for string.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for memory.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for strings.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for inttypes.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for stdint.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4261: checking for unistd.h
configure:4282: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4288: $? = 0
configure:4304: result: yes
configure:4326: checking sys/times.h usability
configure:4343: icc -std=gnu99 -c -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c >&5
configure:4349: $? = 0
configure:4363: result: yes
configure:4367: checking sys/times.h presence
configure:4382: icc -std=gnu99 -E
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c
configure:4388: $? = 0
configure:4402: result: yes
configure:4435: checking for sys/times.h
configure:4442: result: yes
configure:4469: checking for xml2-config
configure:4487: found /usr/bin/xml2-config
configure:4500: result: /usr/bin/xml2-config
configure:4513: checking for xmlSAXUserParseFile in -lxml2
configure:4548: icc -std=gnu99 -o conftest -xHOST -O2
-I/software/imkl/10.3.4.191/mkl/include
-I/software/imkl/10.3.4.191/mkl/include/fftw
-I/software/GMP/4.3.1-ictce-4.0.4/include
-I/software/SPRNG/2.0b-ictce-4.0.4/include
-I/software/PVM/3.4.6-ictce-4.0.4/include
-I/software/Tcl/8.5.9-ictce-4.0.4/include
-I/software/Tk/8.5.9-ictce-4.0.4/include
-I/software/GDAL/1.8.1-ictce-4.0.4/include conftest.c -lxml2 >&5
/software/ifort/2011.4.191/compiler/lib/intel64/libimf.so: warning:
warning: feupdateenv is not implemented and will always fail
configure:4554: $? = 0
configure:4572: result: yes
configure:4590: checking libxml/parser.h usability
configure:4607: icc -std=gnu99 -c -I/usr/include/libxml2
-I/usr/include/libxml2 conftest.c >&5
configure:4613: $? = 0
configure:4627: result: yes
configure:4631: checking libxml/parser.h presence
configure:4646: icc -std=gnu99 -E -I/usr/include/libxml2 conftest.c
configure:4652: $? = 0
configure:4666: result: yes
configure:4699: checking for libxml/parser.h
configure:4706: result: yes
configure:4759: checking for __gmpz_add in -lgmp
configure:4794: icpc -o conftest -xHOST -O2 -xHOST -O2
-I/usr/include/libxml2 conftest.cpp -lgmp >&5
configure:4800: $? = 0
configure:4818: result: yes
configure:4832: checking gmp.h usability
configure:4849: icpc -c -xHOST -O2 -xHOST -O2 -I/usr/include/libxml2
conftest.cpp >&5
configure:4855: $? = 0
configure:4869: result: yes
configure:4873: checking gmp.h presence
configure:4888: icpc -E -xHOST -O2 -I/usr/include/libxml2 conftest.cpp
configure:4894: $? = 0
configure:4908: result: yes
configure:4941: checking for gmp.h
configure:4948: result: yes
configure:5099: creating ./config.status
## ---------------------- ##
## Running config.status. ##
## ---------------------- ##
This file was extended by igraph config.status 0.6, which was
generated by GNU Autoconf 2.61. Invocation command line was
CONFIG_FILES =
CONFIG_HEADERS =
CONFIG_LINKS =
CONFIG_COMMANDS =
$ ./config.status
on unrelated
config.status:606: creating src/Makevars
config.status:606: creating src/config.h
config.status:834: src/config.h is unchanged
## ---------------- ##
## Cache variables. ##
## ---------------- ##
ac_cv_c_compiler_gnu=yes
ac_cv_cxx_compiler_gnu=yes
ac_cv_env_CCC_set=
ac_cv_env_CCC_value=
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_CXXCPP_set=
ac_cv_env_CXXCPP_value=
ac_cv_env_CXXFLAGS_set=
ac_cv_env_CXXFLAGS_value=
ac_cv_env_CXX_set=
ac_cv_env_CXX_value=
ac_cv_env_FCFLAGS_set=
ac_cv_env_FCFLAGS_value=
ac_cv_env_FC_set=
ac_cv_env_FC_value=
ac_cv_env_LDFLAGS_set=
ac_cv_env_LDFLAGS_value=
ac_cv_env_LIBS_set=
ac_cv_env_LIBS_value=
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_fc_compiler_gnu=yes
ac_cv_func_expm1=yes
ac_cv_func_finite=yes
ac_cv_func_fmin=yes
ac_cv_func_log1p=yes
ac_cv_func_log2=yes
ac_cv_func_logbl=yes
ac_cv_func_rint=yes
ac_cv_func_rintf=yes
ac_cv_func_round=yes
ac_cv_func_snprintf=yes
ac_cv_header_gmp_h=yes
ac_cv_header_inttypes_h=yes
ac_cv_header_libxml_parser_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_times_h=yes
ac_cv_header_sys_types_h=yes
ac_cv_header_unistd_h=yes
ac_cv_lib_gmp___gmpz_add=yes
ac_cv_lib_xml2_xmlSAXUserParseFile=yes
ac_cv_objext=o
ac_cv_path_EGREP='/bin/grep -E'
ac_cv_path_GREP=/bin/grep
ac_cv_path_XML2CONFIG=/usr/bin/xml2-config
ac_cv_prog_CPP='icc -std=gnu99 -E'
ac_cv_prog_CXXCPP='icpc -E'
ac_cv_prog_ac_ct_CC='icc -std=gnu99'
ac_cv_prog_cc_c89=
ac_cv_prog_cc_g=yes
ac_cv_prog_cxx_g=yes
ac_cv_prog_fc_g=yes
## ----------------- ##
## Output variables. ##
## ----------------- ##
CC='icc -std=gnu99'
CFLAGS='-xHOST -O2 -I/usr/include/libxml2'
CPP='icc -std=gnu99 -E'
CPPFLAGS='-xHOST -O2 -I/usr/include/libxml2'
CXX='icpc'
CXXCPP='icpc -E'
CXXFLAGS='-xHOST -O2'
DEFS='-DHAVE_CONFIG_H'
ECHO_C=''
ECHO_N='-n'
ECHO_T=''
EGREP='/bin/grep -E'
EXEEXT=''
FC='gfortran'
FCFLAGS='-g -O2'
GLPK_LIBS=''
GMP_LIBS='-lgmp'
GREP='/bin/grep'
HAVE_GLPK='1'
HAVE_GMP='1'
HAVE_LIBXML='1'
LDFLAGS=''
LIBOBJS=''
LIBS=''
LTLIBOBJS=''
OBJEXT='o'
PACKAGE_BUGREPORT='address@hidden'
PACKAGE_NAME='igraph'
PACKAGE_STRING='igraph 0.6'
PACKAGE_TARNAME='igraph'
PACKAGE_VERSION='0.6'
PATH_SEPARATOR=':'
SHELL='/bin/sh'
XML2CONFIG='/usr/bin/xml2-config'
XML2_CFLAGS='-I/usr/include/libxml2'
XML2_LIBS='-lxml2 -lz -lm'
ac_ct_CC='icc -std=gnu99'
ac_ct_CXX=''
ac_ct_FC=''
bindir='${exec_prefix}/bin'
build_alias=''
datadir='${datarootdir}'
datarootdir='${prefix}/share'
docdir='${datarootdir}/doc/${PACKAGE_TARNAME}'
dvidir='${docdir}'
exec_prefix='${prefix}'
host_alias=''
htmldir='${docdir}'
includedir='${prefix}/include'
infodir='${datarootdir}/info'
libdir='${exec_prefix}/lib'
libexecdir='${exec_prefix}/libexec'
localedir='${datarootdir}/locale'
localstatedir='${prefix}/var'
mandir='${datarootdir}/man'
oldincludedir='/usr/include'
pdfdir='${docdir}'
prefix='/usr/local'
program_transform_name='s,x,x,'
psdir='${docdir}'
sbindir='${exec_prefix}/sbin'
sharedstatedir='${prefix}/com'
sysconfdir='${prefix}/etc'
target_alias=''
## ----------- ##
## confdefs.h. ##
## ----------- ##
#define PACKAGE_NAME "igraph"
#define PACKAGE_TARNAME "igraph"
#define PACKAGE_VERSION "0.6"
#define PACKAGE_STRING "igraph 0.6"
#define PACKAGE_BUGREPORT "address@hidden"
#define HAVE_RINTF 1
#define HAVE_FINITE 1
#define HAVE_EXPM1 1
#define HAVE_RINT 1
#define HAVE_LOG2 1
#define HAVE_LOGBL 1
#define HAVE_SNPRINTF 1
#define HAVE_LOG1P 1
#define HAVE_ROUND 1
#define HAVE_FMIN 1
#define STDC_HEADERS 1
#define HAVE_SYS_TYPES_H 1
#define HAVE_SYS_STAT_H 1
#define HAVE_STDLIB_H 1
#define HAVE_STRING_H 1
#define HAVE_MEMORY_H 1
#define HAVE_STRINGS_H 1
#define HAVE_INTTYPES_H 1
#define HAVE_STDINT_H 1
#define HAVE_UNISTD_H 1
#define HAVE_TIMES_H 1
#define HAVE_LIBXML 1
#define HAVE_GMP 1
#define HAVE_GLPK 1
#define IGRAPH_THREAD_LOCAL
configure: exit 0
- [igraph] igraph compilation fails with icc,
Jens Timmerman <=